silx-0.6.1/0000755023630100076410000000000013202537043013140 5ustar knobelusers00000000000000silx-0.6.1/setup.cfg0000644023630100076410000000007313202537043014761 0ustar knobelusers00000000000000[egg_info] tag_build = tag_date = 0 tag_svn_revision = 0 silx-0.6.1/CHANGELOG.rst0000644023630100076410000001621013202532052015154 0ustar knobelusers00000000000000Change Log ========== 0.6.1: 2017/11/10 ----------------- * Plot: * Fix logarithmic axes, broken by new matplotlib version 2.1.0. * Fix axis limits changed signal, not emitted with matplotlib 1.5.x and 2.0.x when the widget is resized. * Support displaying float128 data with matplotlib < 2.1.0. * Fix minor bugs with the crosshair cursor and the legends widget. * Update documentation on Zenodo DOI and Debian packages installation. * Fix the Debian packaging script for Ubuntu distributions. 0.6.0: 2017/10/02 ----------------- * OpenCl. Tomography. Implement a filtered back projection. * Add a *PrintPreview* widget and a *PrintPreviewToolButton* for *PlotWidget*. * Plot: * Add a context menu on right click. * Add a *ComplexImageView* widget. * Merged abstract *Plot* class with *PlotWidget* class. * Make colormap an object with signals (*sigChanged*) * Add a colorbar widget *silx.gui.plot.ColorBar*. * Make axis an object, allow axis synchronization between plots, allow adding constraints on axes limits. * Refactor plot actions, new sub-package *silx.gui.plot.actions*. * Add signals on *PlotWidget* items notifying updates. * Mask. Support loading of TIFF images. * Plot3d: * Rework toolbar and interaction to use only the left mouse button. * Support any colormap. * Hdf5TreeView: * Add an API to select a single tree node item (*setSelectedH5Node*) * Better support and display of types. * New column for displaying the kind of links. * Broken nodes are now selectable. * StackView. Add a *setTitleCallback* method. * Median filter. Add new modes (*reflect, mirror, shrink*) in addition to *nearest*. * IO: * Rename module *spectoh5* to *convert*. Add support for conversion of *fabio* formats. * Support NPZ format. * Support opening an URI (*silx.io.open(filename::path)*). * *Group* methods *.keys*, *.value* and *.items* now return lists in Python 2 and iterators in Python 3. * Image. Add tomography utils: *phantomgenerator* to produce Shepp-Logan phantom, function to compute center of rotation (*calc_center_corr*, *calc_center_centroid*) and rescale the intensity of an image (*rescale_intensity*). * Commands: * *silx view*: * Add command line option *--use-opengl-plot*. * Add command line option *--debug*, to print dataset reading errors. * Support opening URI (*silx view filename::path*). * *silx convert*. New command line application to convert supported data files to HDF5. * Enable usage of *silx.resources* for other projects. * The *silx* license is now fully MIT. 0.5.0: 2017/05/12 ----------------- * Adds OpenGL backend to 1D and 2D graphics * Adds Object Oriented plot API with Curve, Histogram, Image, ImageRgba and Scatter items. * Implements generic launcher (``silx view``) * NXdataViewer. Module providing NeXus NXdata support * Math/OpenCL. Implementation of median filter. * Plot. Implementation of ColorBar widget. * Plot. Visualization of complex data type. * Plot. Implementation of Scatter Plot Item supporting colormaps and masks. * Plot. StackView now supports axes calibration. * I/O. Supports SPEC files not having #F or #S as first line character. * I/O. Correctly exposes UB matrix when found in file. * ROIs. Simplification of API: setRois, getRois, calculateRois. * ROIs. Correction of calculation bug when the X-axis values were not ordered. * Sift. Moves package from ``silx.image`` to ``silx.opencl``. 0.4.0: 2017/02/01 ----------------- * Adds plot3D package (include visualization of 3-dimensional scalar fields) * Adds data viewer (it can handle n-dimensional data) * Adds StackView (ex. Visualization of stack of images) * Adds depth profile calculation (ex. extract profile of a stack of images) * Adds periodic table widget * Adds ArrayTableWidget * Adds pixel intensity histogram action * Adds histogram parameter to addCurve * Refactoring. Create silx.gui.data (include widgets for data) * Refactoring. Rename utils.load as silx.io.open * Changes active curve behavior in Plot. No default active curve is set by default * Fit Action. Add polynomial functions and background customization * PlotWindow. Provide API to access toolbar actions * Handle SPEC, HDF5 and image formats through an unified API * hdf5widget example. Inspect and visualize any datasets * Improves mask tool * Deprecates PlotWindow dock widgets attributes in favor of getter methods 0.3.0: 2016/10/12 ----------------- * Adds OpenCL management * Adds isosurface marching cubes * Adds sift algorithm for image alignement * Adds octaveh5 module to insure communication between octave and python using HDF5 file * Adds silx.utils module containing weakref and html-escape * Adds silx.sx for flat import (helper for interactive shell) * Adds HDF5 load API (supporting Spec files) to silx.io.utils module * Adds SpecFile support for multiple MCA headers * Adds HDF5 TreeView * Adds FitManager to silx.math.fit and FitWidget to silx.gui.fit * Adds ThreadPoolPushButton to silx.gui.widgets * Adds getDataRange function to plot widget * Adds loadUi, Slot and Property to qt.py * Adds SVG icons and support * Adds examples for plot actions, HDF5 widget, helper widgets, converter from Spec to HDF5 * Adds tutorials for plot actions, spech5, spectoh5, sift and fitmanager * Improves right axis support for plot widget * Improves mask tool * Refactors widgets constructor: first argument is now the parent widget * Changes plot documentation and add missing module to the documentation 0.2.0: 2016/07/12 ----------------- * Adds bilinear interpolator and line-profile for images to silx.image * Adds Levenberg-Marquardt least-square fitting algorithm to silx.math.fit * Histogramnd changed to become a class rather than a function, API and return values changed * Adds HistogramndLut, using a lookup table to bin data onto a regular grid for several sets of data sharing the same coordinates * Adds legend widget and bottom toolbar to PlotWindow * Adds a line-profile toolbar to PlotWindow * Adds ImageView widget with side histograms and profile toolbar * Adds IPython console widget, to be started from PlotWindow toolbar * Adds Plot1D widget for curves and Plot2D widget for images * Adds ROI widget for curves in PlotWindow * Adds a mask widget and toolbar to plot (2D) * Renames silx.io.dicttoh5 to silx.io.dictdump * Adds configuration dictionary dumping/loading to/from JSON and INI files in silx.io.configdict * Adds specfile wrapper API compatible with legacy wrapper: silx.io.specfilewrapper * Transposes scan data in specfile module to have detector as first index * Set up nigthly build for sources package, debian packages (http://www.silx.org/pub/debian/) and documentation (http://www.silx.org/doc/) 0.1.0: 2016/04/14 ----------------- * Adds project build, documentation and test structure * Adds continuous integration set-up for Travis-CI and Appveyor * Adds Debian packaging support * Adds SPEC file reader, SPEC file conversion to HDF5 in silx.io * Adds histogramnd function in silx.math * Adds 1D, 2D plot widget with a toolbar, refactored from PyMca PlotWindow in silx.gui.plot silx-0.6.1/qtdesigner_plugins/0000755023630100076410000000000013202537043017046 5ustar knobelusers00000000000000silx-0.6.1/qtdesigner_plugins/plot2dplugin.py0000644023630100076410000000477213202530305022047 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """silx.gui.plot Plot2D Qt designer plugin.""" __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "30/05/2016" from silx.gui import icons, qt if qt.BINDING == 'PyQt4': from PyQt4 import QtDesigner elif qt.BINDING == 'PyQt5': from PyQt5 import QtDesigner else: raise RuntimeError("Unsupport Qt BINDING: %s" % qt.BINDING) from silx.gui.plot import Plot2D class Plot2DPlugin(QtDesigner.QPyDesignerCustomWidgetPlugin): def __init__(self, parent=None): super(Plot2DPlugin, self).__init__(parent) self.initialized = False def initialize(self, core): if self.initialized: return self.initialized = True def isInitialized(self): return self.initialized def createWidget(self, parent): plot = Plot2D(parent=parent) plot.setAutoReplot(False) return plot def name(self): return "Plot2D" def group(self): return "silx" def icon(self): return icons.getQIcon('plot-window-image') def toolTip(self): return "" def whatsThis(self): return "" def isContainer(self): return False def includeFile(self): return "silx.gui.plot.PlotWindow" silx-0.6.1/qtdesigner_plugins/README.rst0000644023630100076410000000242413202530305020531 0ustar knobelusers00000000000000Using silx widgets in Qt Designer ================================= With PyQt_, it is possible to use ``silx.gui`` widgets (and widgets written with PyQt in general) from the `Qt Designer`_. The following ``silx.gui`` widgets are available in the Qt Designer: - :class:`silx.gui.plot.Plot1D` - :class:`silx.gui.plot.Plot2D` - :class:`silx.gui.plot.PlotWidget` - :class:`silx.gui.plot.PlotWindow` Pre-requisite ------------- The following software must be installed: - Qt_ with the `Qt Designer`_. - Python_. - PyQt_ with the designer plugin. - The ``silx`` Python package and its dependencies. :mod:`silx.gui.plot` widgets requires matplotlib_. Usage ----- The **PYQTDESIGNERPATH** environment variable defines the search paths for plugins enabling use of PyQt widgets in the designer. To start the Qt Designer with ``silx.gui`` widgets available, on Linux, run the following from the command line:: PYQTDESIGNERPATH= designer See `Using Qt Designer `_ in PyQt_ documentation. .. _Qt: http://www.qt.io/ .. _Python: https://www.python.org/ .. _PyQt: https://riverbankcomputing.com/software/pyqt/intro .. _Qt Designer: http://doc.qt.io/qt-5/qtdesigner-manual.html .. _matplotlib: http://matplotlib.org/ silx-0.6.1/qtdesigner_plugins/plotwindowplugin.py0000644023630100076410000000501213202530305023035 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """silx.gui.plot PlotWindow Qt designer plugin.""" __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "30/05/2016" from silx.gui import icons, qt if qt.BINDING == 'PyQt4': from PyQt4 import QtDesigner elif qt.BINDING == 'PyQt5': from PyQt5 import QtDesigner else: raise RuntimeError("Unsupport Qt BINDING: %s" % qt.BINDING) from silx.gui.plot import PlotWindow class PlotWindowPlugin(QtDesigner.QPyDesignerCustomWidgetPlugin): def __init__(self, parent=None): super(PlotWindowPlugin, self).__init__(parent) self.initialized = False def initialize(self, core): if self.initialized: return self.initialized = True def isInitialized(self): return self.initialized def createWidget(self, parent): plot = PlotWindow(parent) plot.setAutoReplot(False) return plot def name(self): return "PlotWindow" def group(self): return "silx" def icon(self): return icons.getQIcon('plot-window') def toolTip(self): return "" def whatsThis(self): return "" def isContainer(self): return False def includeFile(self): return "silx.gui.plot.PlotWindow" silx-0.6.1/qtdesigner_plugins/plot1dplugin.py0000644023630100076410000000476413202530305022047 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """silx.gui.plot Plot1D Qt designer plugin.""" __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "30/05/2016" from silx.gui import icons, qt if qt.BINDING == 'PyQt4': from PyQt4 import QtDesigner elif qt.BINDING == 'PyQt5': from PyQt5 import QtDesigner else: raise RuntimeError("Unsupport Qt BINDING: %s" % qt.BINDING) from silx.gui.plot import Plot1D class Plot1DPlugin(QtDesigner.QPyDesignerCustomWidgetPlugin): def __init__(self, parent=None): super(Plot1DPlugin, self).__init__(parent) self.initialized = False def initialize(self, core): if self.initialized: return self.initialized = True def isInitialized(self): return self.initialized def createWidget(self, parent): plot = Plot1D(parent=parent) plot.setAutoReplot(False) return plot def name(self): return "Plot1D" def group(self): return "silx" def icon(self): return icons.getQIcon('plot-window') def toolTip(self): return "" def whatsThis(self): return "" def isContainer(self): return False def includeFile(self): return "silx.gui.plot.PlotWindow" silx-0.6.1/qtdesigner_plugins/plotwidgetplugin.py0000644023630100076410000000501213202530305023011 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """silx.gui.plot PlotWidget Qt designer plugin.""" __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "30/05/2016" from silx.gui import qt, icons if qt.BINDING == 'PyQt4': from PyQt4 import QtDesigner elif qt.BINDING == 'PyQt5': from PyQt5 import QtDesigner else: raise RuntimeError("Unsupport Qt BINDING: %s" % qt.BINDING) from silx.gui.plot import PlotWidget class PlotWidgetPlugin(QtDesigner.QPyDesignerCustomWidgetPlugin): def __init__(self, parent=None): super(PlotWidgetPlugin, self).__init__(parent) self.initialized = False def initialize(self, core): if self.initialized: return self.initialized = True def isInitialized(self): return self.initialized def createWidget(self, parent): plot = PlotWidget(parent) plot.setAutoReplot(False) return plot def name(self): return "PlotWidget" def group(self): return "silx" def icon(self): return icons.getQIcon('plot-widget') def toolTip(self): return "" def whatsThis(self): return "" def isContainer(self): return False def includeFile(self): return "silx.gui.plot.PlotWidget" silx-0.6.1/requirements.txt0000644023630100076410000000207513202530432016423 0ustar knobelusers00000000000000# List all dependencies of silx # Requires pip >= 8.0 --trusted-host www.silx.org --find-links http://www.silx.org/pub/wheelhouse/ --only-binary numpy,h5py,scipy,PyQt4,PyQt5,PySide numpy >= 1.8 fabio >= 0.4 # For silx.io h5py # For silx.io pyopencl # For silx.opencl Mako # For pyopencl reduction ipython # For silx.gui.console qtconsole # For silx.gui.console matplotlib >= 1.2.0 # For silx.gui.plot PyOpenGL # For silx.gui.plot3d # PyQt4, PyQt5 or PySide # For silx.gui # scipy # For silx.math.fit demo, silx.image.sift demo, silx.image.sift.test # Try to install a Qt binding from a wheel # This is no available for all configurations # Require PyQt when wheel is available PyQt5; python_version >= '3.5' PyQt4; sys_platform == 'win32' and python_version == '2.7' # From silx.org PyQt4; sys_platform == 'darwin' and python_version == '2.7' # From silx.org # Require scipy when wheel is available scipy; sys_platform != 'win32' silx-0.6.1/build-deb.sh0000755023630100076410000001742113202530432015326 0ustar knobelusers00000000000000#!/bin/sh # # Project: Silx # https://github.com/silx-kit/silx # # Copyright (C) 2015-2017 European Synchrotron Radiation Facility, Grenoble, France # # Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu) # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE # Script that builds a debian package from this library project=silx source_project=silx version=$(python -c"import version; print(version.version)") strictversion=$(python -c"import version; print(version.strictversion)") debianversion=$(python -c"import version; print(version.debianversion)") deb_name=$(echo "$source_project" | tr '[:upper:]' '[:lower:]') # target system if [ -f /etc/debian_version ] then debian_version=$(cat /etc/debian_version | cut -d. -f1 | grep -o '[0-9]*') if [ -z $debian_version ] then #we are probably on a ubuntu platform debian_version=$(cat /etc/debian_version | cut -d/ -f1) case $debian_version in squeeze) debian_version=6 ;; wheezy) debian_version=7 ;; jessie) debian_version=8 ;; stretch) debian_version=9 ;; esac fi else debian_version=0 fi target_system=debian${debian_version} project_directory="`dirname \"$0\"`" project_directory="`( cd \"$project_directory\" && pwd )`" # absolutized dist_directory=${project_directory}/dist/${target_system} build_directory=${project_directory}/build/${target_system} if [ -d /usr/lib/ccache ]; then export PATH=/usr/lib/ccache:$PATH fi usage="usage: $(basename "$0") [options] Build the Debian ${debian_version} package of the ${project} library. If the build succeed the directory dist/debian${debian_version} will contains the packages. optional arguments: --help show this help text --install install the packages generated at the end of the process using 'sudo dpkg' --debian7 Simulate a debian7 system (fail-safe) --debian8 Simulate a debian 8 Jessie system --debian9 Simulate a debian 9 Stretch system " install=0 use_python3=0 #used only for stdeb while : do case "$1" in -h | --help) echo "$usage" exit 0 ;; --install) install=1 shift ;; --python3) use_python3=1 shift ;; --debian7) debian_version=7 target_system=debian${debian_version} dist_directory=${project_directory}/dist/${target_system} build_directory=${project_directory}/build/${target_system} shift ;; --debian8) debian_version=8 target_system=debian${debian_version} dist_directory=${project_directory}/dist/${target_system} build_directory=${project_directory}/build/${target_system} shift ;; --debian9) debian_version=9 target_system=debian${debian_version} dist_directory=${project_directory}/dist/${target_system} build_directory=${project_directory}/build/${target_system} shift ;; -*) echo "Error: Unknown option: $1" >&2 echo "$usage" exit 1 ;; *) # No more options break ;; esac done clean_up() { echo "Clean working dir:" # clean up previous build rm -rf ${build_directory} # create the build context mkdir -p ${build_directory} } build_deb_8_plus () { echo "Build for debian 8 or newer using actual packaging" tarname=${project}_${debianversion}.orig.tar.gz clean_up python setup.py debian_src cp -f dist/${tarname} ${build_directory} if [ -f dist/${project}-testimages.tar.gz ] then cp -f dist/${project}-testimages.tar.gz ${build_directory} fi cd ${build_directory} tar -xzf ${tarname} directory=${project}-${strictversion} newname=${deb_name}_${debianversion}.orig.tar.gz #echo tarname $tarname newname $newname if [ $tarname != $newname ] then if [ -h $newname ] then rm ${newname} fi ln -s ${tarname} ${newname} fi if [ -f ${project}-testimages.tar.gz ] then if [ ! -h ${deb_name}_${debianversion}.orig-testimages.tar.gz ] then ln -s ${project}-testimages.tar.gz ${deb_name}_${debianversion}.orig-testimages.tar.gz fi fi cd ${directory} cp -r ${project_directory}/package/${target_system} debian cp ${project_directory}/copyright debian #handle test images if [ -f ../${deb_name}_${debianversion}.orig-testimages.tar.gz ] then if [ ! -d testimages ] then mkdir testimages fi cd testimages tar -xzf ../${deb_name}_${debianversion}.orig-testimages.tar.gz cd .. else # Disable to skip tests during build echo No test data #export PYBUILD_DISABLE_python2=test #export PYBUILD_DISABLE_python3=test #export DEB_BUILD_OPTIONS=nocheck fi dch -v ${debianversion}-1 "upstream development build of ${project} ${version}" dch --bpo "${project} snapshot ${version} built for ${target_system}" dpkg-buildpackage -r rc=$? if [ $rc -eq 0 ]; then # move packages to dist directory echo Build succeeded... rm -rf ${dist_directory} mkdir -p ${dist_directory} mv ${build_directory}/*.deb ${dist_directory} mv ${build_directory}/*.x* ${dist_directory} mv ${build_directory}/*.dsc ${dist_directory} mv ${build_directory}/*.changes ${dist_directory} cd ../../.. else echo Build failed, please investigate ... exit "$rc" fi } build_deb_7_minus () { echo "Build for debian 7 or older using stdeb" tarname=${project}-${strictversion}.tar.gz clean_up python setup.py sdist cp -f dist/${tarname} ${build_directory} cd ${build_directory} tar -xzf ${tarname} cd ${project}-${strictversion} if [ $use_python3 = 1 ] then echo Using Python 2+3 python3 setup.py --command-packages=stdeb.command sdist_dsc --with-python2=True --with-python3=True --no-python3-scripts=True build --no-cython bdist_deb rc=$? else echo Using Python 2 # bdist_deb feed /usr/bin using setup.py entry-points python setup.py --command-packages=stdeb.command build --no-cython bdist_deb rc=$? fi # move packages to dist directory rm -rf ${dist_directory} mkdir -p ${dist_directory} mv -f deb_dist/*.deb ${dist_directory} # back to the root cd ../../.. } if [ $debian_version -ge 8 ] then build_deb_8_plus else build_deb_7_minus fi if [ $install -eq 1 ]; then sudo -v su -c "dpkg -i ${dist_directory}/*.deb" fi exit "$rc" silx-0.6.1/run_tests.py0000755023630100076410000003476513202530432015555 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Run the tests of the project. This script expects a suite function in .test, which returns a unittest.TestSuite. Test coverage dependencies: coverage, lxml. """ __authors__ = ["Jérôme Kieffer", "Thomas Vincent"] __date__ = "03/08/2017" __license__ = "MIT" import distutils.util import logging import os import subprocess import sys import time import unittest class StreamHandlerUnittestReady(logging.StreamHandler): """The unittest class TestResult redefine sys.stdout/err to capture stdout/err from tests and to display them only when a test fail. This class allow to use unittest stdout-capture by using the last sys.stdout and not a cached one. """ def emit(self, record): """ :type record: logging.LogRecord """ self.stream = sys.stderr super(StreamHandlerUnittestReady, self).emit(record) def flush(self): pass def createBasicHandler(): """Create the handler using the basic configuration""" hdlr = StreamHandlerUnittestReady() fs = logging.BASIC_FORMAT dfs = None fmt = logging.Formatter(fs, dfs) hdlr.setFormatter(fmt) return hdlr # Use an handler compatible with unittests, else use_buffer is not working logging.root.addHandler(createBasicHandler()) logging.captureWarnings(True) logger = logging.getLogger("run_tests") logger.setLevel(logging.WARNING) logger.info("Python %s %s", sys.version, tuple.__itemsize__ * 8) try: import resource except ImportError: resource = None logger.warning("resource module missing") try: import importlib except: importer = __import__ else: importer = importlib.import_module try: import numpy except Exception as error: logger.warning("Numpy missing: %s", error) else: logger.info("Numpy %s", numpy.version.version) try: import h5py except Exception as error: logger.warning("h5py missing: %s", error) else: logger.info("h5py %s", h5py.version.version) def get_project_name(root_dir): """Retrieve project name by running python setup.py --name in root_dir. :param str root_dir: Directory where to run the command. :return: The name of the project stored in root_dir """ logger.debug("Getting project name in %s", root_dir) p = subprocess.Popen([sys.executable, "setup.py", "--name"], shell=False, cwd=root_dir, stdout=subprocess.PIPE) name, _stderr_data = p.communicate() logger.debug("subprocess ended with rc= %s", p.returncode) return name.split()[-1].decode('ascii') PROJECT_DIR = os.path.dirname(os.path.abspath(__file__)) PROJECT_NAME = get_project_name(PROJECT_DIR) logger.info("Project name: %s", PROJECT_NAME) class TextTestResultWithSkipList(unittest.TextTestResult): """Override default TextTestResult to display list of skipped tests at the end """ def printErrors(self): unittest.TextTestResult.printErrors(self) # Print skipped tests at the end self.printErrorList("SKIPPED", self.skipped) class ProfileTextTestResult(unittest.TextTestRunner.resultclass): def __init__(self, *arg, **kwarg): unittest.TextTestRunner.resultclass.__init__(self, *arg, **kwarg) self.logger = logging.getLogger("memProf") self.logger.setLevel(min(logging.INFO, logging.root.level)) self.logger.handlers.append(logging.FileHandler("profile.log")) def startTest(self, test): unittest.TextTestRunner.resultclass.startTest(self, test) if resource: self.__mem_start = \ resource.getrusage(resource.RUSAGE_SELF).ru_maxrss self.__time_start = time.time() def stopTest(self, test): unittest.TextTestRunner.resultclass.stopTest(self, test) # see issue 311. For other platform, get size of ru_maxrss in "man getrusage" if sys.platform == "darwin": ratio = 1e-6 else: ratio = 1e-3 if resource: memusage = (resource.getrusage(resource.RUSAGE_SELF).ru_maxrss - self.__mem_start) * ratio else: memusage = 0 self.logger.info("Time: %.3fs \t RAM: %.3f Mb\t%s", time.time() - self.__time_start, memusage, test.id()) def report_rst(cov, package, version="0.0.0", base=""): """ Generate a report of test coverage in RST (for Sphinx inclusion) :param cov: test coverage instance :param str package: Name of the package :param str base: base directory of modules to include in the report :return: RST string """ import tempfile fd, fn = tempfile.mkstemp(suffix=".xml") os.close(fd) cov.xml_report(outfile=fn) from lxml import etree xml = etree.parse(fn) classes = xml.xpath("//class") line0 = "Test coverage report for %s" % package res = [line0, "=" * len(line0), ""] res.append("Measured on *%s* version %s, %s" % (package, version, time.strftime("%d/%m/%Y"))) res += ["", ".. csv-table:: Test suite coverage", ' :header: "Name", "Stmts", "Exec", "Cover"', ' :widths: 35, 8, 8, 8', ''] tot_sum_lines = 0 tot_sum_hits = 0 for cl in classes: name = cl.get("name") fname = cl.get("filename") if not os.path.abspath(fname).startswith(base): continue lines = cl.find("lines").getchildren() hits = [int(i.get("hits")) for i in lines] sum_hits = sum(hits) sum_lines = len(lines) cover = 100.0 * sum_hits / sum_lines if sum_lines else 0 if base: name = os.path.relpath(fname, base) res.append(' "%s", "%s", "%s", "%.1f %%"' % (name, sum_lines, sum_hits, cover)) tot_sum_lines += sum_lines tot_sum_hits += sum_hits res.append("") res.append(' "%s total", "%s", "%s", "%.1f %%"' % (package, tot_sum_lines, tot_sum_hits, 100.0 * tot_sum_hits / tot_sum_lines if tot_sum_lines else 0)) res.append("") return os.linesep.join(res) def build_project(name, root_dir): """Run python setup.py build for the project. Build directory can be modified by environment variables. :param str name: Name of the project. :param str root_dir: Root directory of the project :return: The path to the directory were build was performed """ platform = distutils.util.get_platform() architecture = "lib.%s-%i.%i" % (platform, sys.version_info[0], sys.version_info[1]) if os.environ.get("PYBUILD_NAME") == name: # we are in the debian packaging way home = os.environ.get("PYTHONPATH", "").split(os.pathsep)[-1] elif os.environ.get("BUILDPYTHONPATH"): home = os.path.abspath(os.environ.get("BUILDPYTHONPATH", "")) else: home = os.path.join(root_dir, "build", architecture) logger.warning("Building %s to %s", name, home) p = subprocess.Popen([sys.executable, "setup.py", "build"], shell=False, cwd=root_dir) logger.debug("subprocess ended with rc= %s", p.wait()) return home from argparse import ArgumentParser epilog = """Environment variables: WITH_QT_TEST=False to disable graphical tests SILX_OPENCL=False to disable OpenCL tests SILX_TEST_LOW_MEM=True to disable tests taking large amount of memory GPU=False to disable the use of a GPU with OpenCL test WITH_GL_TEST=False to disable tests using OpenGL """ parser = ArgumentParser(description='Run the tests.', epilog=epilog) parser.add_argument("--installed", action="store_true", dest="installed", default=False, help=("Test the installed version instead of" + "building from the source")) parser.add_argument("-c", "--coverage", dest="coverage", action="store_true", default=False, help=("Report code coverage" + "(requires 'coverage' and 'lxml' module)")) parser.add_argument("-m", "--memprofile", dest="memprofile", action="store_true", default=False, help="Report memory profiling") parser.add_argument("-v", "--verbose", default=0, action="count", dest="verbose", help="Increase verbosity. Option -v prints additional " + "INFO messages. Use -vv for full verbosity, " + "including debug messages and test help strings.") parser.add_argument("-x", "--no-gui", dest="gui", default=True, action="store_false", help="Disable the test of the graphical use interface") parser.add_argument("-g", "--no-opengl", dest="opengl", default=True, action="store_false", help="Disable tests using OpenGL") parser.add_argument("-o", "--no-opencl", dest="opencl", default=True, action="store_false", help="Disable the test of the OpenCL part") parser.add_argument("-l", "--low-mem", dest="low_mem", default=False, action="store_true", help="Disable test with large memory consumption (>100Mbyte") parser.add_argument("--qt-binding", dest="qt_binding", default=None, help="Force using a Qt binding, from 'PyQt4', 'PyQt5', or 'PySide'") default_test_name = "%s.test.suite" % PROJECT_NAME parser.add_argument("test_name", nargs='*', default=(default_test_name,), help="Test names to run (Default: %s)" % default_test_name) options = parser.parse_args() sys.argv = [sys.argv[0]] test_verbosity = 1 use_buffer = True if options.verbose == 1: logging.root.setLevel(logging.INFO) logger.info("Set log level: INFO") test_verbosity = 2 use_buffer = False elif options.verbose > 1: logging.root.setLevel(logging.DEBUG) logger.info("Set log level: DEBUG") test_verbosity = 2 use_buffer = False if not options.gui: os.environ["WITH_QT_TEST"] = "False" if not options.opencl: os.environ["SILX_OPENCL"] = "False" if not options.opengl: os.environ["WITH_GL_TEST"] = "False" if options.low_mem: os.environ["SILX_TEST_LOW_MEM"] = "True" if options.coverage: logger.info("Running test-coverage") import coverage omits = ["*test*", "*third_party*", "*/setup.py", # temporary test modules (silx.math.fit.test.test_fitmanager) "*customfun.py", ] try: cov = coverage.Coverage(omit=omits) except AttributeError: cov = coverage.coverage(omit=omits) cov.start() if options.qt_binding: binding = options.qt_binding.lower() if binding == "pyqt4": logger.info("Force using PyQt4") if sys.version < "3.0.0": try: import sip sip.setapi("QString", 2) sip.setapi("QVariant", 2) except: logger.warning("Cannot set sip API") import PyQt4.QtCore # noqa elif binding == "pyqt5": logger.info("Force using PyQt5") import PyQt5.QtCore # noqa elif binding == "pyside": logger.info("Force using PySide") import PySide.QtCore # noqa else: raise ValueError("Qt binding '%s' is unknown" % options.qt_binding) # Prevent importing from source directory if (os.path.dirname(os.path.abspath(__file__)) == os.path.abspath(sys.path[0])): removed_from_sys_path = sys.path.pop(0) logger.info("Patched sys.path, removed: '%s'", removed_from_sys_path) # import module if options.installed: # Use installed version try: module = importer(PROJECT_NAME) except: raise ImportError( "%s not installed: Cannot run tests on installed version" % PROJECT_NAME) else: # Use built source build_dir = build_project(PROJECT_NAME, PROJECT_DIR) sys.path.insert(0, build_dir) logger.warning("Patched sys.path, added: '%s'", build_dir) module = importer(PROJECT_NAME) PROJECT_VERSION = getattr(module, 'version', '') PROJECT_PATH = module.__path__[0] # Run the tests runnerArgs = {} runnerArgs["verbosity"] = test_verbosity runnerArgs["buffer"] = use_buffer if options.memprofile: runnerArgs["resultclass"] = ProfileTextTestResult else: runnerArgs["resultclass"] = TextTestResultWithSkipList runner = unittest.TextTestRunner(**runnerArgs) logger.warning("Test %s %s from %s", PROJECT_NAME, PROJECT_VERSION, PROJECT_PATH) test_module_name = PROJECT_NAME + '.test' logger.info('Import %s', test_module_name) test_module = importer(test_module_name) test_suite = unittest.TestSuite() if not options.test_name: # Do not use test loader to avoid cryptic exception # when an error occur during import project_test_suite = getattr(test_module, 'suite') test_suite.addTest(project_test_suite()) else: test_suite.addTest( unittest.defaultTestLoader.loadTestsFromNames(options.test_name)) # Display the result when using CTRL-C unittest.installHandler() result = runner.run(test_suite) if result.wasSuccessful(): exit_status = 0 else: exit_status = 1 if options.coverage: cov.stop() cov.save() with open("coverage.rst", "w") as fn: fn.write(report_rst(cov, PROJECT_NAME, PROJECT_VERSION, PROJECT_PATH)) sys.exit(exit_status) silx-0.6.1/LICENSE0000644023630100076410000000361113202530432014141 0ustar knobelusers00000000000000The silx toolkit is a software library and one of its goals is not to impose any license to the end user. Silx follows the permissive MIT license although it may include contributions following other licenses not interfering with the previous goal. Detailed information can be found in the copyright file. Silx uses the Qt library for its graphical user interfaces. A word of caution is to be provided. If users develop and distribute software using modules accessing Qt by means of Riverbank Computing Qt bindings PyQt4 or PyQt5, those users will be conditioned by the license of their PyQt4/5 software (GPL or commercial). If the end user does not own a commercial license of PyQt4 or PyQt5 and wishes to be free of any distribution condition, (s)he should be able to use PySide because it uses the LGPL license. The MIT license follows: Copyright (c) European Synchrotron Radiation Facility (ESRF) Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. silx-0.6.1/package/0000755023630100076410000000000013202537043014533 5ustar knobelusers00000000000000silx-0.6.1/package/debian9/0000755023630100076410000000000013202537043016046 5ustar knobelusers00000000000000silx-0.6.1/package/debian9/source/0000755023630100076410000000000013202537043017346 5ustar knobelusers00000000000000silx-0.6.1/package/debian9/source/options0000644023630100076410000000004613202530432020757 0ustar knobelusers00000000000000extend-diff-ignore="^[^/]+\.egg-info/"silx-0.6.1/package/debian9/source/format0000644023630100076410000000001413202530432020547 0ustar knobelusers000000000000003.0 (quilt) silx-0.6.1/package/debian9/compat0000644023630100076410000000000213202530432017237 0ustar knobelusers000000000000009 silx-0.6.1/package/debian9/changelog0000644023630100076410000000106413202530432017714 0ustar knobelusers00000000000000silx (0.3.0-1) unstable; urgency=low * debian/control - Add missing dependencies - Add -dbg packages * Upstream version 0.4.0a -- Thomas Vincent Mon, 23 Jan 2017 17:09:20 +0100 silx (0.1.0-1) unstable; urgency=low * debian/control - Comment -dbg packages * Upstream version 0.1.0 -- Thomas Vincent Thu, 14 Apr 2016 09:35:28 +0200 silx (0.0.0-1) unstable; urgency=low * Initial release (Closes: #??????) -- Jerome Kieffer Tue, 15 Mar 2016 11:00:20 +0100 silx-0.6.1/package/debian9/clean0000644023630100076410000000001413202530432017041 0ustar knobelusers00000000000000*.egg-info/*silx-0.6.1/package/debian9/python-silx-doc.doc-base0000644023630100076410000000044413202530432022503 0ustar knobelusers00000000000000Document: silx-manual Title: silx documentation manual Author: Jérôme Kieffer Abstract: Toolbox for X-Ray data analysis Section: Science/Data Analysis Format: HTML Index: /usr/share/doc/python-silx-doc/html/index.html Files: /usr/share/doc/python-silx-doc/html/* silx-0.6.1/package/debian9/watch0000644023630100076410000000026513202530432017075 0ustar knobelusers00000000000000version=3 opts=repacksuffix=+dfsg,\ uversionmangle=s/(rc|a|b|c)/~$1/,\ dversionmangle=s/\+dfsg// \ http://pypi.debian.net/silx/silx-(.+)\.(?:zip|tgz|tbz|txz|(?:tar\.(?:gz|bz2|xz))) silx-0.6.1/package/debian9/rules0000755023630100076410000000274413202530432017130 0ustar knobelusers00000000000000#!/usr/bin/make -f export PYBUILD_NAME=silx export SPECFILE_USE_GNU_SOURCE=1 # Make does not offer a recursive wildcard function, so here's one: rwildcard=$(wildcard $1$2) $(foreach d,$(wildcard $1*),$(call rwildcard,$d/,$2)) # How to recursively find all files with the same name in a given folder ALL_PYX := $(call rwildcard,silx/,*.pyx) #NOTA: No space before * %: dh $@ --with python2,python3 --buildsystem=pybuild override_dh_clean: dh_clean # remove the cython generated file to force rebuild rm -f $(patsubst %.pyx,%.cpp,${ALL_PYX}) rm -f $(patsubst %.pyx,%.c,${ALL_PYX}) rm -f $(patsubst %.pyx,%.html,${ALL_PYX}) rm -rf build/html rm -rf *.egg-info override_dh_auto_build: dh_auto_build python setup.py build build_man build_doc override_dh_install: dh_numpy dh_numpy3 # move the scripts to right package dh_install -p silx debian/python3-silx/usr/bin/* usr/bin dh_install -p silx package/desktop/*.desktop usr/share/applications dh_install -p silx package/desktop/silx.png usr/share/icons/hicolor/48x48/apps dh_install -p silx package/desktop/silx.svg usr/share/icons/hicolor/scalable/apps rm -rf debian/python-silx/usr/bin rm -rf debian/python3-silx/usr/bin dh_install override_dh_auto_test: dh_auto_test -- -s custom --test-args="env PYTHONPATH={build_dir} WITH_QT_TEST=False {interpreter} run_tests.py -v" override_dh_installman: dh_installman -p silx build/man/*.1 override_dh_installdocs: dh_installdocs "build/sphinx/html" -p python-silx-doc dh_installdocs silx-0.6.1/package/debian9/control0000644023630100076410000000673313202530432017455 0ustar knobelusers00000000000000Source: silx Maintainer: Debian Science Maintainers Uploaders: Jerome Kieffer , Picca Frédéric-Emmanuel Section: science Priority: extra Build-Depends: cython, cython3, libstdc++-4.9-dev, libstdc++6, debhelper (>=9.20150101+deb8u2), dh-python, python-all-dev, python-numpy, python-fabio, python-h5py, python-pyopencl, python-mako, ipython, ipython-qtconsole, python-matplotlib, python-opengl, python-pyqt5, python-pyqt5.qtopengl, python-scipy, python-sphinx, python-sphinxcontrib.programoutput, python-enum34, python3-all-dev, python3-numpy, python3-fabio, python3-h5py, python3-pyopencl, python3-mako, ipython3, ipython3-qtconsole, python3-matplotlib, python3-opengl, python3-pyqt5, python3-pyqt5.qtopengl, python3-scipy, python3-sphinx, python3-sphinxcontrib.programoutput, openstack-pkg-tools, help2man Standards-Version: 3.9.8 Vcs-Browser: https://anonscm.debian.org/cgit/debian-science/packages/silx.git Vcs-Git: git://anonscm.debian.org/debian-science/packages/silx.git Homepage: https://github.com/silx-kit/silx X-Python-Version: >= 2.7 X-Python3-Version: >= 3.4 Package: silx Architecture: all Depends: ${misc:Depends}, ${python:Depends}, ${shlibs:Depends}, python3-pkg-resources, python3-silx (>= ${source:Version}) Description: Toolbox for X-Ray data analysis - Executables . This uses the Python 3 version of the package. Package: python-silx Architecture: any Section: python Depends: ${misc:Depends}, ${python:Depends}, ${shlibs:Depends}, libstdc++6, python-numpy, python-fabio, python-h5py, python-pyopencl, python-mako, ipython, ipython-qtconsole, python-matplotlib, python-opengl, python-pyqt5, python-pyqt5.qtopengl, python-scipy, python-six, python-enum34, # Recommends: Suggests: python-rfoo Description: Toolbox for X-Ray data analysis - Python2 library . This is the Python 2 version of the package. Package: python3-silx Architecture: any Section: python Depends: ${misc:Depends}, ${python3:Depends}, ${shlibs:Depends}, libstdc++6, python3-numpy, python3-fabio, python3-h5py, python3-pyopencl, python3-mako, ipython3, ipython3-qtconsole, python3-matplotlib, python3-opengl, python3-pyqt5, python3-pyqt5.qtopengl, python3-scipy, python3-six, # Recommends: # Suggests: python3-rfoo Description: Toolbox for X-Ray data analysis - Python3 . This is the Python 3 version of the package. Package: python-silx-doc Architecture: all Section: doc Depends: ${misc:Depends}, ${sphinxdoc:Depends} Description: Toolbox for X-Ray data analysis - Documentation . This is the common documentation package. silx-0.6.1/package/debian9/gbp.conf0000644023630100076410000000004013202530432017452 0ustar knobelusers00000000000000[DEFAULT] debian-branch = mastersilx-0.6.1/package/debian8/0000755023630100076410000000000013202537043016045 5ustar knobelusers00000000000000silx-0.6.1/package/debian8/source/0000755023630100076410000000000013202537043017345 5ustar knobelusers00000000000000silx-0.6.1/package/debian8/source/options0000644023630100076410000000004613202530432020756 0ustar knobelusers00000000000000extend-diff-ignore="^[^/]+\.egg-info/"silx-0.6.1/package/debian8/source/format0000644023630100076410000000001413202530432020546 0ustar knobelusers000000000000003.0 (quilt) silx-0.6.1/package/debian8/compat0000644023630100076410000000000213202530432017236 0ustar knobelusers000000000000009 silx-0.6.1/package/debian8/changelog0000644023630100076410000000106413202530432017713 0ustar knobelusers00000000000000silx (0.3.0-1) unstable; urgency=low * debian/control - Add missing dependencies - Add -dbg packages * Upstream version 0.4.0a -- Thomas Vincent Mon, 23 Jan 2017 17:09:20 +0100 silx (0.1.0-1) unstable; urgency=low * debian/control - Comment -dbg packages * Upstream version 0.1.0 -- Thomas Vincent Thu, 14 Apr 2016 09:35:28 +0200 silx (0.0.0-1) unstable; urgency=low * Initial release (Closes: #??????) -- Jerome Kieffer Tue, 15 Mar 2016 11:00:20 +0100 silx-0.6.1/package/debian8/clean0000644023630100076410000000001413202530432017040 0ustar knobelusers00000000000000*.egg-info/*silx-0.6.1/package/debian8/python-silx-doc.doc-base0000644023630100076410000000044413202530432022502 0ustar knobelusers00000000000000Document: silx-manual Title: silx documentation manual Author: Jérôme Kieffer Abstract: Toolbox for X-Ray data analysis Section: Science/Data Analysis Format: HTML Index: /usr/share/doc/python-silx-doc/html/index.html Files: /usr/share/doc/python-silx-doc/html/* silx-0.6.1/package/debian8/watch0000644023630100076410000000026513202530432017074 0ustar knobelusers00000000000000version=3 opts=repacksuffix=+dfsg,\ uversionmangle=s/(rc|a|b|c)/~$1/,\ dversionmangle=s/\+dfsg// \ http://pypi.debian.net/silx/silx-(.+)\.(?:zip|tgz|tbz|txz|(?:tar\.(?:gz|bz2|xz))) silx-0.6.1/package/debian8/rules0000755023630100076410000000325613202530432017126 0ustar knobelusers00000000000000#!/usr/bin/make -f export PYBUILD_NAME=silx export SPECFILE_USE_GNU_SOURCE=1 # Make does not offer a recursive wildcard function, so here's one: rwildcard=$(wildcard $1$2) $(foreach d,$(wildcard $1*),$(call rwildcard,$d/,$2)) # How to recursively find all files with the same name in a given folder ALL_PYX := $(call rwildcard,silx/,*.pyx) #NOTA: No space before * %: dh $@ --with python2,python3 --buildsystem=pybuild override_dh_clean: dh_clean # remove the cython generated file to force rebuild rm -f $(patsubst %.pyx,%.cpp,${ALL_PYX}) rm -f $(patsubst %.pyx,%.c,${ALL_PYX}) rm -f $(patsubst %.pyx,%.html,${ALL_PYX}) rm -rf build/html rm -rf *.egg-info override_dh_auto_build: dh_auto_build python setup.py build build_man build_doc override_dh_install: dh_numpy dh_numpy3 # move the scripts to right package dh_install -p silx debian/python3-silx/usr/bin/* usr/bin dh_install -p silx package/desktop/*.desktop usr/share/applications dh_install -p silx package/desktop/silx.png usr/share/icons/hicolor/48x48/apps dh_install -p silx package/desktop/silx.svg usr/share/icons/hicolor/scalable/apps rm -rf debian/python-silx/usr/bin rm -rf debian/python3-silx/usr/bin # remove all py/pyc/egg-info files from dbg packages find debian/python-silx-dbg/usr -type f \( -not -name "*.so" \) -delete find debian/python3-silx-dbg/usr -type f \( -not -name "*.so" \) -delete dh_install override_dh_auto_test: dh_auto_test -- -s custom --test-args="env PYTHONPATH={build_dir} WITH_QT_TEST=False {interpreter} run_tests.py -v" override_dh_installman: dh_installman -p silx build/man/*.1 override_dh_installdocs: dh_installdocs "build/sphinx/html" -p python-silx-doc dh_installdocs silx-0.6.1/package/debian8/control0000644023630100076410000001312713202530432017447 0ustar knobelusers00000000000000Source: silx Maintainer: Debian Science Maintainers Uploaders: Jerome Kieffer , Picca Frédéric-Emmanuel Section: science Priority: extra Build-Depends: cython, cython-dbg, cython3, cython3-dbg, libstdc++6-4.9-dbg, libstdc++-4.9-dev, libstdc++6, debhelper (>=9.20150101+deb8u2), dh-python, python-all-dev, python-all-dbg, python-numpy, python-numpy-dbg, python-fabio, python-fabio-dbg, python-h5py, python-h5py-dbg, python-pyopencl, python-pyopencl-dbg, python-mako, ipython, ipython-qtconsole, python-matplotlib, python-matplotlib-dbg, python-opengl, python-pyqt5, python-pyqt5-dbg, python-pyqt5.qtopengl, python-pyqt5.qtopengl-dbg, python-scipy, python-scipy-dbg, python-sphinx, python-sphinxcontrib.programoutput, python-enum34, python3-all-dev, python3-all-dbg, python3-numpy, python3-numpy-dbg, python3-fabio, python3-fabio-dbg, python3-h5py, python3-h5py-dbg, python3-pyopencl, python3-pyopencl-dbg, python3-mako, ipython3, ipython3-qtconsole, python3-matplotlib, python3-matplotlib-dbg, python3-opengl, python3-pyqt5, python3-pyqt5-dbg, python3-pyqt5.qtopengl, python3-pyqt5.qtopengl-dbg, python3-scipy, python3-scipy-dbg, python3-sphinx, python3-sphinxcontrib.programoutput, help2man Standards-Version: 3.9.6 Vcs-Browser: https://anonscm.debian.org/cgit/debian-science/packages/silx.git Vcs-Git: git://anonscm.debian.org/debian-science/packages/silx.git Homepage: https://github.com/silx-kit/silx X-Python-Version: >= 2.7 X-Python3-Version: >= 3.4 Package: silx Architecture: all Depends: ${misc:Depends}, ${python:Depends}, ${shlibs:Depends}, python3-pkg-resources, python3-silx (>= ${source:Version}) Description: Toolbox for X-Ray data analysis - Executables . This uses the Python 3 version of the package. Package: python-silx Architecture: any Section: python Depends: ${misc:Depends}, ${python:Depends}, ${shlibs:Depends}, libstdc++6, python-numpy, python-fabio, python-h5py, python-pyopencl, python-mako, ipython, ipython-qtconsole, python-matplotlib, python-opengl, python-pyqt5, python-pyqt5.qtopengl, python-scipy, python-six, python-enum34, # Recommends: Suggests: python-rfoo Description: Toolbox for X-Ray data analysis - Python2 library . This is the Python 2 version of the package. Package: python-silx-dbg Architecture: any Section: debug Depends: ${misc:Depends}, ${python:Depends}, ${shlibs:Depends}, python-silx (= ${binary:Version}), libstdc++6-4.9-dbg, python-dbg, python-numpy-dbg, python-fabio-dbg, python-h5py-dbg, python-pyopencl-dbg, python-mako, ipython, ipython-qtconsole, python-matplotlib-dbg, python-opengl, python-pyqt5-dbg, python-pyqt5.qtopengl-dbg, python-scipy-dbg, python-six, python-enum34, Description: Toolbox for X-Ray data analysis - python2 debug . This package contains the extension built for the Python 2 debug interpreter. Package: python3-silx Architecture: any Section: python Depends: ${misc:Depends}, ${python3:Depends}, ${shlibs:Depends}, libstdc++6, python3-numpy, python3-fabio, python3-h5py, python3-pyopencl, python3-mako, ipython3, ipython3-qtconsole, python3-matplotlib, python3-opengl, python3-pyqt5, python3-pyqt5.qtopengl, python3-scipy, python3-six, # Recommends: # Suggests: python3-rfoo Description: Toolbox for X-Ray data analysis - Python3 . This is the Python 3 version of the package. Package: python3-silx-dbg Architecture: any Section: debug Depends: ${misc:Depends}, ${python3:Depends}, ${shlibs:Depends}, python3-silx (= ${binary:Version}), libstdc++6-4.9-dbg, python3-dbg, python3-numpy-dbg, python3-fabio-dbg, python3-h5py-dbg, python3-pyopencl-dbg, python3-mako, ipython3, ipython3-qtconsole, python3-matplotlib-dbg, python3-opengl, python3-pyqt5-dbg, python3-pyqt5.qtopengl-dbg, python3-scipy-dbg, python3-six, Description: Toolbox for X-Ray data analysis - Python3 debug . This package contains the extension built for the Python 3 debug interpreter. Package: python-silx-doc Architecture: all Section: doc Depends: ${misc:Depends}, ${sphinxdoc:Depends} Description: Toolbox for X-Ray data analysis - Documentation . This is the common documentation package. silx-0.6.1/package/debian8/gbp.conf0000644023630100076410000000004013202530432017451 0ustar knobelusers00000000000000[DEFAULT] debian-branch = mastersilx-0.6.1/package/desktop/0000755023630100076410000000000013202537043016204 5ustar knobelusers00000000000000silx-0.6.1/package/desktop/org.silx.SilxView.desktop0000644023630100076410000000030513202530432023106 0ustar knobelusers00000000000000[Desktop Entry] Type=Application Encoding=UTF-8 Name=silx Data Viewer Comment=HDF5 EDF SPEC Data Viewer Exec=silx view %F Terminal=false Icon=silx Categories=Education;Science;DataVisualization;Qt silx-0.6.1/package/desktop/silx.png0000644023630100076410000000614413202530432017671 0ustar knobelusers00000000000000PNG  IHDR00WsBIT|d pHYs, tEXtSoftwarewww.inkscape.org< IDAThY{po}f7!oC^$$ ;:DDjg:EQR[Zj_Tiδj6N;Zut,7BHs~'fw}y'ٙ{ss=0uI!o0=QӌgAؾ=k^ x<"!s xkʰQ~^2 f@ssTpL!#||8, ~}݉s'6n^]}Ҿʀ?P@@>xkR؍8>3<Q4OZ5 Y:oƗm6lu/h U8Is9V/ 5) i !=FX.eR/p yY.Yr kWNzO {SKa=;C59ǤB(bp3J1&^104T"Sf_.wr'e3>|xcz`…+ ]{@n0j$k#5dɕOv$޺9RW~3M=xeȽq/nrR$m` :5uvgΒcxm.CCFݯ% 8Tcgjn'7c#lIam(0ӒJȁZ^ǍSEJ8I>.5'w$[_V^lڬAC3忋nzѣ<@n(q#{Oɢj/W Mfۓge\^g6ǼE5` ]el 7$/eD/>sH{A&}"E rק5|g]4 bZE4Ny"Mv:EQ"q4_c97eXl6せ,l8 pc܏m8Pu> Zx΄ޏtFREv95)T)&9=~ͪh4&xFqNωzi6l(>,+cɍ\pS;0YL@gP2Q)E X3<ǙѾ?3#ōoinjX:t`!0,1EQCCnIz1A0{x++/ʲdө?\u?fvu]CLB>ۄ2ePch c,e9@ ]<|t\˗/XQQ1c/"@_o_࠷pm:;EyN*iZp w26S.-޽{& W88d^jI,K~B(@ـfY CˋiyibU'<e,efef>? m>GJ BF>&!{fa"];}q5ȏ 3+l h\p89rd6qWEcIENDB`silx-0.6.1/package/desktop/silx.svg0000644023630100076410000002004613202530432017701 0ustar knobelusers00000000000000 image/svg+xmlsilx-0.6.1/copyright0000644023630100076410000002321513202530432015071 0ustar knobelusers00000000000000Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: silx Source: https://github.com/silx-kit/silx Files: * Copyright: 2004-2017 European Synchrotron Radiation Facility Data analysis unit (silx@esrf.fr) License: MIT Files: silx/math/histogramnd/include/msvc/stdint.h Copyright: 2006-2008 Alexander Chemeris License: BSD-3 Files: silx/resources/gui/colormaps/inferno.npy silx/resources/gui/colormaps/magma.npy silx/resources/gui/colormaps/plasma.npy silx/resources/gui/colormaps/viridis.npy Copyright: Nathaniel J. Smith, Stefan van der Walt, Eric Firing License: CC0 Files: silx/gui/_pyside_dynamic.py Copyright: 2011 Sebastian Wiesner Modifications by Charl Botha License: MIT License: MIT Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. . THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. 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Affirmer understands and acknowledges that Creative Commons is not a party to this document and has no duty or obligation with respect to this CC0 or use of the Work. silx-0.6.1/README.rst0000644023630100076410000001224513202532052014626 0ustar knobelusers00000000000000 silx toolkit ============ The silx project aims at providing a collection of Python packages to support the development of data assessment, reduction and analysis applications at synchrotron radiation facilities. It aims at providing reading/writing different file formats, data reduction routines and a set of Qt widgets to browse and visualize data. The current version provides: * reading `HDF5 `_ file format (with support of `SPEC `_ file format and `FabIO `_ images) * histogramming * fitting * 1D and 2D visualization widgets using multiple backends (matplotlib or OpenGL) * an OpenGL-based widget to display 3D scalar field with isosurface and cutting plane * an image plot widget with a set of associated tools * a unified browser for HDF5, SPEC and image file formats supporting inspection and visualization of n-dimensional datasets. * a unified viewer (*silx view filename*) for HDF5, SPEC and image file formats * a unified converter to HDF5 format (*silx convert filename*) * median filters on images (C and OpenCL implementations) * image alignement (sift - OpenCL implementation) * filtered backprojection and forward projection for tomography Installation ------------ To install silx, run:: pip install silx Or with Anaconda on Linux and MacOS:: conda install silx -c conda-forge To install silx locally, run:: pip install silx --user Unofficial packages for different distributions are available : - Unofficial Debian8 packages are available at http://www.silx.org/pub/debian/ - CentOS 7 rpm packages are provided by Max IV at the following url: http://pubrepo.maxiv.lu.se/rpm/el7/x86_64/ - Fedora 23 rpm packages are provided by Max IV at http://pubrepo.maxiv.lu.se/rpm/fc23/x86_64/ - Arch Linux (AUR) packages are also available: https://aur.archlinux.org/packages/python-silx Beside this, we provide a certain number of wheels (pre-compiled binary packages) to be installed onto a pre-existing Python installation: - On Windows, binary wheels are available for Python 2.7, 3.5 and 3.6. - On MacOS, binary wheels are available for Python 2.7, 3.5 and 3.6. - On Linux, manylinux1 binary wheels are available for Python 2.7, 3.4, 3.5 and 3.6. Those builds are made from "up-date" systems at the time of the release, i.e. they use the latest stable version of numpy (and cython). Hence your system should use a fairly recent version of numpy to be compatible with silx. This can be achieved simply by:: pip install numpy --upgrade The latest development version can be obtained from the git repository:: git clone https://github.com/silx-kit/silx.git cd silx pip install . [--user] Dependencies ------------ * `Python `_ 2.7, 3.4 or above. * `numpy `_ The GUI widgets of the silx package depend on the following extra packages: * A Qt binding: `PyQt5, PyQt4 `_ (using API version 2) or `PySide `_ * `matplotlib `_ for the silx.gui.plot package * `PyOpenGL `_ for the silx.gui.plot3d package Most modules and functions dealing with `HDF5 `_ input/output depend on: * `h5py `_ Parallel algorithms depend on: * `PyOpenCL `_ The console widgets depend on: * `ipython `_ * `qtconsole `_ Supported platforms: Linux, Windows, Mac OS X. Documentation ------------- Documentation of latest release is available at http://www.silx.org/doc/silx/latest/ Documentation of previous releases and nightly build is available at http://www.silx.org/doc/silx/ To build the documentation from the source (requires `Sphinx `_), run:: python setup.py build build_doc Testing ------- - Travis CI status: |Travis Status| - Appveyor CI status: |Appveyor Status| To run the tests from the python interpreter, run: >>> import silx.test >>> silx.test.run_tests() To run the tests, from the source directory, run:: python run_tests.py Examples -------- Some examples of sample code using silx are provided with the `silx documentation `_. License ------- The source code of silx is licensed under the MIT license. See the `LICENSE `_ and `copyright `_ files for details. Citation -------- silx releases can be cited by their DOI on Zenodo: |zenodo DOI| .. |Travis Status| image:: https://travis-ci.org/silx-kit/silx.svg?branch=master :target: https://travis-ci.org/silx-kit/silx .. |Appveyor Status| image:: https://ci.appveyor.com/api/projects/status/qgox9ei0wxwfagrb/branch/master?svg=true :target: https://ci.appveyor.com/project/ESRF/silx .. |zenodo DOI| image:: https://zenodo.org/badge/DOI/10.5281/zenodo.591709.svg :target: https://doi.org/10.5281/zenodo.591709 silx-0.6.1/stdeb.cfg0000644023630100076410000000011413202530306014711 0ustar knobelusers00000000000000[DEFAULT] Depends: python-numpy XS-Python-Version: >= 2.7 Debian-Version: 7 silx-0.6.1/MANIFEST.in0000644023630100076410000000077013202530432014675 0ustar knobelusers00000000000000include README.rst include CHANGELOG.rst include copyright include LICENSE include MANIFEST.in include run_tests.py include version.py include stdeb.cfg include build-deb.sh include requirements.txt include requirements-dev.txt recursive-include silx *.pyx *.pxd *.pxi recursive-include silx *.h *.c *.hpp *.cpp recursive-include doc/source *.py *.rst *.png *.ico recursive-include qtdesigner_plugins *.py *.rst recursive-include silx/resources * recursive-include examples * recursive-include package * silx-0.6.1/requirements-dev.txt0000644023630100076410000000054713202530305017200 0ustar knobelusers00000000000000# List of silx development dependencies # Those ARE NOT required for installation, at runtime or to build from source (except for the doc) Cython >= 0.21.1 # To regenerate .c/.cpp files from .pyx Sphinx # To build the documentation in doc/ lxml # For test coverage in run_test.py coverage # For test coverage in run_test.py silx-0.6.1/version.py0000644023630100076410000001063713202532250015201 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Unique place where the version number is defined. provides: * version = "1.2.3" or "1.2.3-beta4" * version_info = named tuple (1,2,3,"beta",4) * hexversion: 0x010203B4 * strictversion = "1.2.3b4 * debianversion = "1.2.3~beta4" * calc_hexversion: the function to transform a version_tuple into an integer This is called hexversion since it only really looks meaningful when viewed as the result of passing it to the built-in hex() function. The version_info value may be used for a more human-friendly encoding of the same information. The hexversion is a 32-bit number with the following layout: Bits (big endian order) Meaning 1-8 PY_MAJOR_VERSION (the 2 in 2.1.0a3) 9-16 PY_MINOR_VERSION (the 1 in 2.1.0a3) 17-24 PY_MICRO_VERSION (the 0 in 2.1.0a3) 25-28 PY_RELEASE_LEVEL (0xA for alpha, 0xB for beta, 0xC for release candidate and 0xF for final) 29-32 PY_RELEASE_SERIAL (the 3 in 2.1.0a3, zero for final releases) Thus 2.1.0a3 is hexversion 0x020100a3. """ from __future__ import absolute_import, print_function, division __authors__ = ["Jérôme Kieffer"] __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" __date__ = "01/10/2017" __status__ = "production" __docformat__ = 'restructuredtext' __all__ = ["date", "version_info", "strictversion", "hexversion", "debianversion", "calc_hexversion", "citation"] RELEASE_LEVEL_VALUE = {"dev": 0, "alpha": 10, "beta": 11, "gamma": 12, "rc": 13, "final": 15} MAJOR = 0 MINOR = 6 MICRO = 1 RELEV = "final" # <16 SERIAL = 0 # <16 date = __date__ from collections import namedtuple _version_info = namedtuple("version_info", ["major", "minor", "micro", "releaselevel", "serial"]) version_info = _version_info(MAJOR, MINOR, MICRO, RELEV, SERIAL) strictversion = version = debianversion = "%d.%d.%d" % version_info[:3] if version_info.releaselevel != "final": version += "-%s%s" % version_info[-2:] debianversion += "~adev%i" % version_info[-1] if RELEV == "dev" else "~%s%i" % version_info[-2:] prerel = "a" if RELEASE_LEVEL_VALUE.get(version_info[3], 0) < 10 else "b" if prerel not in "ab": prerel = "a" strictversion += prerel + str(version_info[-1]) def calc_hexversion(major=0, minor=0, micro=0, releaselevel="dev", serial=0): """Calculate the hexadecimal version number from the tuple version_info: :param major: integer :param minor: integer :param micro: integer :param relev: integer or string :param serial: integer :return: integer always increasing with revision numbers """ try: releaselevel = int(releaselevel) except ValueError: releaselevel = RELEASE_LEVEL_VALUE.get(releaselevel, 0) hex_version = int(serial) hex_version |= releaselevel * 1 << 4 hex_version |= int(micro) * 1 << 8 hex_version |= int(minor) * 1 << 16 hex_version |= int(major) * 1 << 24 return hex_version hexversion = calc_hexversion(*version_info) citation = "doi:10.5281/zenodo.1000472" if __name__ == "__main__": print(version) silx-0.6.1/silx/0000755023630100076410000000000013202537043014117 5ustar knobelusers00000000000000silx-0.6.1/silx/io/0000755023630100076410000000000013202537043014526 5ustar knobelusers00000000000000silx-0.6.1/silx/io/dictdump.py0000644023630100076410000003657513202530432016724 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """This module offers a set of functions to dump a python dictionary indexed by text strings to following file formats: `HDF5, INI, JSON` """ from collections import OrderedDict import json import logging import numpy import os.path import sys try: import h5py except ImportError as e: h5py_missing = True h5py_import_error = e else: h5py_missing = False from .configdict import ConfigDict from .utils import is_group from .utils import is_file as is_h5_file_like from .utils import open as h5open __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "16/06/2017" logger = logging.getLogger(__name__) string_types = (basestring,) if sys.version_info[0] == 2 else (str,) # noqa def _prepare_hdf5_dataset(array_like): """Cast a python object into a numpy array in a HDF5 friendly format. :param array_like: Input dataset in a type that can be digested by ``numpy.array()`` (`str`, `list`, `numpy.ndarray`…) :return: ``numpy.ndarray`` ready to be written as an HDF5 dataset """ # simple strings if isinstance(array_like, string_types): array_like = numpy.string_(array_like) # Ensure our data is a numpy.ndarray if not isinstance(array_like, (numpy.ndarray, numpy.string_)): array = numpy.array(array_like) else: array = array_like # handle list of strings or numpy array of strings if not isinstance(array, numpy.string_): data_kind = array.dtype.kind # unicode: convert to byte strings # (http://docs.h5py.org/en/latest/strings.html) if data_kind.lower() in ["s", "u"]: array = numpy.asarray(array, dtype=numpy.string_) return array class _SafeH5FileWrite(object): """Context manager returning a :class:`h5py.File` object. If this object is initialized with a file path, we open the file and then we close it on exiting. If a :class:`h5py.File` instance is provided to :meth:`__init__` rather than a path, we assume that the user is responsible for closing the file. This behavior is well suited for handling h5py file in a recursive function. The object is created in the initial call if a path is provided, and it is closed only at the end when all the processing is finished. """ def __init__(self, h5file, mode="w"): """ :param h5file: HDF5 file path or :class:`h5py.File` instance :param str mode: Can be ``"r+"`` (read/write, file must exist), ``"w"`` (write, existing file is lost), ``"w-"`` (write, fail if exists) or ``"a"`` (read/write if exists, create otherwise). This parameter is ignored if ``h5file`` is a file handle. """ self.raw_h5file = h5file self.mode = mode def __enter__(self): if not isinstance(self.raw_h5file, h5py.File): self.h5file = h5py.File(self.raw_h5file, self.mode) self.close_when_finished = True else: self.h5file = self.raw_h5file self.close_when_finished = False return self.h5file def __exit__(self, exc_type, exc_val, exc_tb): if self.close_when_finished: self.h5file.close() class _SafeH5FileRead(object): """Context manager returning a :class:`h5py.File` or a :class:`silx.io.spech5.SpecH5` or a :class:`silx.io.fabioh5.File` object. The general behavior is the same as :class:`_SafeH5FileWrite` except that SPEC files and all formats supported by fabio can also be opened, but in read-only mode. """ def __init__(self, h5file): """ :param h5file: HDF5 file path or h5py.File-like object """ self.raw_h5file = h5file def __enter__(self): if not is_h5_file_like(self.raw_h5file): self.h5file = h5open(self.raw_h5file) self.close_when_finished = True else: self.h5file = self.raw_h5file self.close_when_finished = False return self.h5file def __exit__(self, exc_type, exc_val, exc_tb): if self.close_when_finished: self.h5file.close() def dicttoh5(treedict, h5file, h5path='/', mode="w", overwrite_data=False, create_dataset_args=None): """Write a nested dictionary to a HDF5 file, using keys as member names. If a dictionary value is a sub-dictionary, a group is created. If it is any other data type, it is cast into a numpy array and written as a :mod:`h5py` dataset. Dictionary keys must be strings and cannot contain the ``/`` character. .. note:: This function requires `h5py `_ to be installed. :param treedict: Nested dictionary/tree structure with strings as keys and array-like objects as leafs. The ``"/"`` character is not allowed in keys. :param h5file: HDF5 file name or handle. If a file name is provided, the function opens the file in the specified mode and closes it again before completing. :param h5path: Target path in HDF5 file in which scan groups are created. Default is root (``"/"``) :param mode: Can be ``"r+"`` (read/write, file must exist), ``"w"`` (write, existing file is lost), ``"w-"`` (write, fail if exists) or ``"a"`` (read/write if exists, create otherwise). This parameter is ignored if ``h5file`` is a file handle. :param overwrite_data: If ``True``, existing groups and datasets can be overwritten, if ``False`` they are skipped. This parameter is only relevant if ``h5file_mode`` is ``"r+"`` or ``"a"``. :param create_dataset_args: Dictionary of args you want to pass to ``h5f.create_dataset``. This allows you to specify filters and compression parameters. Don't specify ``name`` and ``data``. Example:: from silx.io.dictdump import dicttoh5 city_area = { "Europe": { "France": { "Isère": { "Grenoble": "18.44 km2" }, "Nord": { "Tourcoing": "15.19 km2" }, }, }, } create_ds_args = {'compression': "gzip", 'shuffle': True, 'fletcher32': True} dicttoh5(city_area, "cities.h5", h5path="/area", create_dataset_args=create_ds_args) """ if h5py_missing: raise h5py_import_error if not h5path.endswith("/"): h5path += "/" with _SafeH5FileWrite(h5file, mode=mode) as h5f: for key in treedict: if isinstance(treedict[key], dict) and len(treedict[key]): # non-empty group: recurse dicttoh5(treedict[key], h5f, h5path + key, overwrite_data=overwrite_data, create_dataset_args=create_dataset_args) elif treedict[key] is None or (isinstance(treedict[key], dict) and not len(treedict[key])): # Create empty group h5f.create_group(h5path + key) else: ds = _prepare_hdf5_dataset(treedict[key]) # can't apply filters on scalars (datasets with shape == () ) if ds.shape == () or create_dataset_args is None: h5f.create_dataset(h5path + key, data=ds) else: h5f.create_dataset(h5path + key, data=ds, **create_dataset_args) def _name_contains_string_in_list(name, strlist): if strlist is None: return False for filter_str in strlist: if filter_str in name: return True return False def h5todict(h5file, path="/", exclude_names=None): """Read a HDF5 file and return a nested dictionary with the complete file structure and all data. Example of usage:: from silx.io.dictdump import h5todict # initialize dict with file header and scan header header94 = h5todict("oleg.dat", "/94.1/instrument/specfile") # add positioners subdict header94["positioners"] = h5todict("oleg.dat", "/94.1/instrument/positioners") # add scan data without mca data header94["detector data"] = h5todict("oleg.dat", "/94.1/measurement", exclude_names="mca_") .. note:: This function requires `h5py `_ to be installed. .. note:: If you write a dictionary to a HDF5 file with :func:`dicttoh5` and then read it back with :func:`h5todict`, data types are not preserved. All values are cast to numpy arrays before being written to file, and they are read back as numpy arrays (or scalars). In some cases, you may find that a list of heterogeneous data types is converted to a numpy array of strings. :param h5file: File name or :class:`h5py.File` object or spech5 file or fabioh5 file. :param str path: Name of HDF5 group to use as dictionary root level, to read only a sub-group in the file :param list[str] exclude_names: Groups and datasets whose name contains a string in this list will be ignored. Default is None (ignore nothing) :return: Nested dictionary """ if h5py_missing: raise h5py_import_error with _SafeH5FileRead(h5file) as h5f: ddict = {} for key in h5f[path]: if _name_contains_string_in_list(key, exclude_names): continue if is_group(h5f[path + "/" + key]): ddict[key] = h5todict(h5f, path + "/" + key, exclude_names=exclude_names) else: # Convert HDF5 dataset to numpy array ddict[key] = h5f[path + "/" + key][...] return ddict def dicttojson(ddict, jsonfile, indent=None, mode="w"): """Serialize ``ddict`` as a JSON formatted stream to ``jsonfile``. :param ddict: Dictionary (or any object compatible with ``json.dump``). :param jsonfile: JSON file name or file-like object. If a file name is provided, the function opens the file in the specified mode and closes it again. :param indent: If indent is a non-negative integer, then JSON array elements and object members will be pretty-printed with that indent level. An indent level of ``0`` will only insert newlines. ``None`` (the default) selects the most compact representation. :param mode: File opening mode (``w``, ``a``, ``w+``…) """ if not hasattr(jsonfile, "write"): jsonf = open(jsonfile, mode) else: jsonf = jsonfile json.dump(ddict, jsonf, indent=indent) if not hasattr(jsonfile, "write"): jsonf.close() def dicttoini(ddict, inifile, mode="w"): """Output dict as configuration file (similar to Microsoft Windows INI). :param dict: Dictionary of configuration parameters :param inifile: INI file name or file-like object. If a file name is provided, the function opens the file in the specified mode and closes it again. :param mode: File opening mode (``w``, ``a``, ``w+``…) """ if not hasattr(inifile, "write"): inif = open(inifile, mode) else: inif = inifile ConfigDict(initdict=ddict).write(inif) if not hasattr(inifile, "write"): inif.close() def dump(ddict, ffile, mode="w", fmat=None): """Dump dictionary to a file :param ddict: Dictionary with string keys :param ffile: File name or file-like object with a ``write`` method :param str fmat: Output format: ``"json"``, ``"hdf5"`` or ``"ini"``. When None (the default), it uses the filename extension as the format. Dumping to a HDF5 file requires `h5py `_ to be installed. :param str mode: File opening mode (``w``, ``a``, ``w+``…) Default is *"w"*, write mode, overwrite if exists. :raises IOError: if file format is not supported """ if fmat is None: # If file-like object get its name, else use ffile as filename filename = getattr(ffile, 'name', ffile) fmat = os.path.splitext(filename)[1][1:] # Strip extension leading '.' fmat = fmat.lower() if fmat == "json": dicttojson(ddict, ffile, indent=2, mode=mode) elif fmat in ["hdf5", "h5"]: if h5py_missing: logger.error("Cannot dump to HDF5 format, missing h5py library") raise h5py_import_error dicttoh5(ddict, ffile, mode=mode) elif fmat in ["ini", "cfg"]: dicttoini(ddict, ffile, mode=mode) else: raise IOError("Unknown format " + fmat) def load(ffile, fmat=None): """Load dictionary from a file When loading from a JSON or INI file, an OrderedDict is returned to preserve the values' insertion order. :param ffile: File name or file-like object with a ``read`` method :param fmat: Input format: ``json``, ``hdf5`` or ``ini``. When None (the default), it uses the filename extension as the format. Loading from a HDF5 file requires `h5py `_ to be installed. :return: Dictionary (ordered dictionary for JSON and INI) :raises IOError: if file format is not supported """ if not hasattr(ffile, "read"): f = open(ffile, "r") fname = ffile else: f = ffile fname = ffile.name if fmat is None: # Use file extension as format fmat = os.path.splitext(fname)[1][1:] # Strip extension leading '.' fmat = fmat.lower() if fmat == "json": return json.load(f, object_pairs_hook=OrderedDict) if fmat in ["hdf5", "h5"]: if h5py_missing: logger.error("Cannot load from HDF5 format, missing h5py library") raise h5py_import_error return h5todict(fname) elif fmat in ["ini", "cfg"]: return ConfigDict(filelist=[fname]) else: raise IOError("Unknown format " + fmat) silx-0.6.1/silx/io/specfilewrapper.py0000644023630100076410000003114413202530306020271 0ustar knobelusers00000000000000# coding: utf-8 # /*######################################################################### # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """This module provides a backward compatibility layer with the legacy specfile wrapper. If you are starting a new project, please consider using :mod:`silx.io.specfile` instead of this module. If you want to use this module for an existing project that used the old wrapper through PyMca, you can try replacing:: from PyMca5.PyMcaIO import specfilewrapper with:: from silx.io import specfilewrapper There might still be differences between this module and the old wrapper, due to differences in the underlying implementation. Any of these differences that break your code should be reported on https://github.com/silx-kit/silx/issues The documentation mentions only the methods and attributes that are different from the ones in :class:`silx.io.specfile.SpecFile` and :class:`silx.io.specfile.Scan`. You should refer to the documentation of these base classes for more information. """ from silx.io.specfile import SpecFile, Scan __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "15/09/2016" def _format_number_list(number_list): """Return string representation of a list of integers, using ``,`` as a separator and ``:`` as a range separator. """ ret = "" first_in_range = number_list[0] last_in_range = number_list[0] previous = number_list[0] for number in number_list[1:]: if number - previous != 1: # reached end of range if last_in_range > first_in_range: ret += "%d:%d," % (first_in_range, last_in_range) # passed isolated number else: ret += "%d," % previous # reinitialize range first_in_range = number last_in_range = number else: # still inside a continuous range last_in_range = number previous = number # last number if last_in_range > first_in_range: ret += "%d:%d" % (first_in_range, last_in_range) else: ret += "%d" % previous return ret class Specfile(SpecFile): """ This class is a subclass of :class:`silx.io.specfile.SpecFile`. It redefines following methods: - :meth:`__getitem__`: returns a :class:`scandata` object instead of a :class:`silx.io.specfile.Scan` object - :meth:`list`: returns a string representation of a list instead of a list of integers Following methods are added: - :meth:`select` - :meth:`scanno` - :meth:`allmotors` - :meth:`epoch` - :meth:`title` """ def __init__(self, filename): SpecFile.__init__(self, filename) def __getitem__(self, key): """Get scan by 0-based index :param key: 0-based scan index :type key: int :return: Scan :rtype: :class:`scandata` """ if not isinstance(key, int): raise TypeError("Scan index must be an integer") scan_index = key # allow negative index, like lists if scan_index < 0: scan_index += len(self) if not 0 <= scan_index < len(self): msg = "Scan index must be in range 0-%d" % (len(self) - 1) raise IndexError(msg) return scandata(self, scan_index) def list(self): """Return a string representation of a list of scan numbers. The scans numbers are listed in the order in which they appear in the file. Continuous ranges of scan numbers are represented as ``first:last``. For instance, let's assume our specfile contains following scans: *1, 2, 3, 4, 5, 684, 685, 687, 688, 689, 700, 688, 688*. This method will then return:: "1:5,684:685,687:689,700,688,688" """ number_list = SpecFile.list(self) return _format_number_list(number_list) def select(self, key): """Get scan by ``n.m`` key :param key: ``"s.o"`` (scan number, scan order) :type key: str :return: Scan :rtype: :class:`scandata` """ msg = "Key must be a string 'N.M' with N being the scan" msg += " number and M the order (eg '2.3')." if not hasattr(key, "lower") or "." not in key: raise TypeError(msg) try: (number, order) = map(int, key.split(".")) scan_index = self.index(number, order) except (ValueError, IndexError): # self.index can raise an index error # int() can raise a value error raise KeyError(msg + "\nValid keys: '" + "', '".join(self.keys()) + "'") except AttributeError: # e.g. "AttrErr: 'float' object has no attribute 'split'" raise TypeError(msg) if not 0 <= scan_index < len(self): msg = "Scan index must be in range 0-%d" % (len(self) - 1) raise IndexError(msg) return scandata(self, scan_index) def scanno(self): """Return the number of scans in the SpecFile This is an alias for :meth:`__len__`, for compatibility with the old specfile wrapper API. """ return len(self) def allmotors(self, scan_index=0): """ This is an alias for :meth:`motor_names`, for compatibility with the old specfile wrapper API. """ return self.motor_names(scan_index) def epoch(self): """:return: Epoch, from last word on file header line *#E* :rtype: int :raise: ValueError if *#E* line not found in header or last word on *#E* cannot be converted to type *int*""" fh = self.file_header() for line in fh: if line.startswith("#E "): return int(line.split()[-1]) raise ValueError("No #E header found in specfile") def title(self): """:return: Title, from second field on *#C* header line (field are strings separated by two spaces) :rtype: str :raise: ValueError if *#C* line not found in header or line is empty""" fh = self.file_header() for line in fh: if line.startswith("#C "): line1 = line.lstrip("#C ") return line1.split(" ")[0] raise ValueError("No #C header found in specfile") # # these functions exist in the old API but don't seem to be # # used, and are not easy to implement # def show(self): # raise NotImplementedError # # def user(self): # raise NotImplementedError # # def update(self): # raise NotImplementedError # PEP8 violation in class name is to respect old API class scandata(Scan): # noqa """ This class is a subclass of :class:`silx.io.specfile.Scan`. It redefines following methods/attributes: - :meth:`data` becomes a method returning an array, instead of just an array - :meth:`mca`: becomes a method returning an array, instead of a :class:`silx.io.specfile.MCA` object - :meth:`header`: becomes a method returning a list of **scan** header lines (or a list of a single header line, if a key is specified), instead of just a list of all header lines Following methods are added: - :meth:`allmotors` - :meth:`allmotorpos` - :meth:`alllabels` - :meth:`cols` - :meth:`lines` - :meth:`command` - :meth:`date` - :meth:`datacol` - :meth:`dataline` - :meth:`fileheader` - :meth:`nbmca` """ def __init__(self, specfile, scan_index): Scan.__init__(self, specfile, scan_index) def allmotors(self): """Return a list of all motor names (identical to :attr:`motor_names`). """ return self.motor_names def allmotorpos(self): """Return a list of all motor positions (identical to :attr:`motor_positions`). """ return self.motor_positions def alllabels(self): """ Return a list of all labels (:attr:`labels`). """ return self.labels def cols(self): """Return the number of data columns (number of detectors)""" return super(scandata, self).data.shape[1] def command(self): """Return the command called for this scan (``#S`` header line)""" return self._specfile.command(self._index) def data(self): """Return the data in this scan as a 2D numpy array. The first index corresponds to the columns/detectors in the original file, and the second index is the row index from the original file. Indices are 0-based. For instance, this is how you access the 18th data sample for the 3rd detector (assuming ``sc`` is your scan object): >>> scdata = sc.data() >>> data_sample = scdata[2, 17]""" return super(scandata, self).data def datacol(self, col): """Return a data column (all data for one detector) :param col: column number (1-based index)""" return super(scandata, self).data[col - 1, :] def dataline(self, line): """Return a data line (one sample for all detectors) :param line: line number (1-based index)""" return super(scandata, self).data[:, line - 1] def date(self): """Return the date from the scan header line ``#D``""" return self._specfile.date(self._index) def fileheader(self, key=''): # noqa """Return a list of file header lines""" # key is there for compatibility return self.file_header def header(self, key=""): """Return a list of scan header lines if no key is specified. If a valid key is specified, return a list of a single header line. :param key: Header key (e.g. ``S, N, L, @CALIB``…) If ``key`` is an empty string, return complete list of scan header lines. If ``key`` does not match any header line, return empty list. :return: List of scan header lines :rtype: list[str] """ if key.strip() == "": return self.scan_header if self.record_exists_in_hdr(key): prefix = "#" + key + " " # there is no leading @ in self.mca_header_dict keys key_mca_dict = key.lstrip("@") if key.startswith("@") else None if key_mca_dict in self.mca_header_dict: return [prefix + self.mca_header_dict[key_mca_dict]] elif key in self.scan_header_dict: return [prefix + self.scan_header_dict[key]] elif key in self.file_header_dict: return [prefix + self.file_header_dict[key]] elif self.record_exists_in_hdr("@" + key): # in case key is a mca header key without the @ if key in self.mca_header_dict: prefix = "#@" + key + " " return [prefix + self.mca_header_dict[key]] return [] def lines(self): """Return the number of data lines (number of data points per detector)""" return super(scandata, self).data.shape[0] def mca(self, number): """Return one MCA spectrum :param number: MCA number (1-based index) :rtype: 1D numpy array""" # in the base class, mca is an object that can be indexed (but 0-based) return super(scandata, self).mca[number - 1] def nbmca(self): """Return number of MCAs in this scan""" return len(super(scandata, self).mca) silx-0.6.1/silx/io/test/0000755023630100076410000000000013202537043015505 5ustar knobelusers00000000000000silx-0.6.1/silx/io/test/test_spectoh5.py0000644023630100076410000001432513202530432020650 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for SpecFile to HDF5 converter""" import gc from numpy import array_equal, string_ import os import sys import tempfile import unittest try: import h5py except ImportError: h5py_missing = True else: h5py_missing = False from ..spech5 import SpecH5, SpecH5Group from ..convert import convert, write_to_h5 __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "02/06/2017" sftext = """#F /tmp/sf.dat #E 1455180875 #D Thu Feb 11 09:54:35 2016 #C imaging User = opid17 #O0 Pslit HGap MRTSlit UP MRTSlit DOWN #O1 Sslit1 VOff Sslit1 HOff Sslit1 VGap #o0 pshg mrtu mrtd #o2 ss1vo ss1ho ss1vg #J0 Seconds IA ion.mono Current #J1 xbpmc2 idgap1 Inorm #S 1 ascan ss1vo -4.55687 -0.556875 40 0.2 #D Thu Feb 11 09:55:20 2016 #T 0.2 (Seconds) #P0 180.005 -0.66875 0.87125 #P1 14.74255 16.197579 12.238283 #N 4 #L MRTSlit UP second column 3rd_col -1.23 5.89 8 8.478100E+01 5 1.56 3.14 2.73 -3.14 1.2 2.3 3.4 #S 1 aaaaaa #D Thu Feb 11 10:00:32 2016 #@MCADEV 1 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #N 3 #L uno duo 1 2 @A 0 1 2 @A 10 9 8 3 4 @A 3.1 4 5 @A 7 6 5 5 6 @A 6 7.7 8 @A 4 3 2 """ @unittest.skipIf(h5py_missing, "Could not import h5py") class TestConvertSpecHDF5(unittest.TestCase): @classmethod def setUpClass(cls): fd, cls.spec_fname = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd, sftext) else: os.write(fd, bytes(sftext, 'ascii')) os.close(fd) fd, cls.h5_fname = tempfile.mkstemp(text=False) # Close and delete (we just need the name) os.close(fd) os.unlink(cls.h5_fname) @classmethod def tearDownClass(cls): os.unlink(cls.spec_fname) def setUp(self): convert(self.spec_fname, self.h5_fname) self.sfh5 = SpecH5(self.spec_fname) self.h5f = h5py.File(self.h5_fname, "a") def tearDown(self): del self.sfh5 self.h5f.close() del self.h5f os.unlink(self.h5_fname) gc.collect() def testAppendToHDF5(self): write_to_h5(self.sfh5, self.h5f, h5path="/foo/bar/spam") self.assertTrue( array_equal(self.h5f["/1.2/measurement/mca_1/data"], self.h5f["/foo/bar/spam/1.2/measurement/mca_1/data"]) ) def testWriteSpecH5Group(self): """Test passing a SpecH5Group as parameter, instead of a Spec filename or a SpecH5.""" g = self.sfh5["1.1/instrument"] self.assertIsInstance(g, SpecH5Group) # let's be paranoid write_to_h5(g, self.h5f, h5path="my instruments") self.assertAlmostEqual(self.h5f["my instruments/positioners/Sslit1 HOff"][tuple()], 16.197579, places=4) def testTitle(self): """Test the value of a dataset""" title12 = self.h5f["/1.2/title"].value if sys.version > '3.0': title12 = title12.decode() self.assertEqual(title12, "1 aaaaaa") def testAttrs(self): # Test root group (file) attributes self.assertEqual(self.h5f.attrs["NX_class"], string_("NXroot")) # Test dataset attributes ds = self.h5f["/1.2/instrument/mca_1/data"] self.assertTrue("interpretation" in ds.attrs) self.assertEqual(list(ds.attrs.values()), [string_("spectrum")]) # Test group attributes grp = self.h5f["1.1"] self.assertEqual(grp.attrs["NX_class"], string_("NXentry")) self.assertEqual(len(list(grp.attrs.keys())), 1) def testHdf5HasSameMembers(self): spec_member_list = [] def append_spec_members(name): spec_member_list.append(name) self.sfh5.visit(append_spec_members) hdf5_member_list = [] def append_hdf5_members(name): hdf5_member_list.append(name) self.h5f.visit(append_hdf5_members) # 1. For some reason, h5py visit method doesn't include the leading # "/" character when it passes the member name to the function, # even though an explicit the .name attribute of a member will # have a leading "/" spec_member_list = [m.lstrip("/") for m in spec_member_list] self.assertEqual(set(hdf5_member_list), set(spec_member_list)) def testLinks(self): self.assertTrue( array_equal(self.sfh5["/1.2/measurement/mca_0/data"], self.h5f["/1.2/measurement/mca_0/data"]) ) self.assertTrue( array_equal(self.h5f["/1.2/instrument/mca_1/channels"], self.h5f["/1.2/measurement/mca_1/info/channels"]) ) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestConvertSpecHDF5)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_specfile.py0000644023630100076410000003472413202530432020715 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for specfile wrapper""" __authors__ = ["P. Knobel", "V.A. Sole"] __license__ = "MIT" __date__ = "03/08/2017" import gc import locale import logging import numpy import os import sys import tempfile import unittest from silx.test import utils from ..specfile import SpecFile, Scan from .. import specfile logger1 = logging.getLogger(__name__) sftext = """#F /tmp/sf.dat #E 1455180875 #D Thu Feb 11 09:54:35 2016 #C imaging User = opid17 #U00 user comment first line #U01 This is a dummy file to test SpecFile parsing #U02 #U03 last line #O0 Pslit HGap MRTSlit UP MRTSlit DOWN #O1 Sslit1 VOff Sslit1 HOff Sslit1 VGap #o0 pshg mrtu mrtd #o2 ss1vo ss1ho ss1vg #J0 Seconds IA ion.mono Current #J1 xbpmc2 idgap1 Inorm #S 1 ascan ss1vo -4.55687 -0.556875 40 0.2 #D Thu Feb 11 09:55:20 2016 #T 0.2 (Seconds) #G0 0 #G1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 #G3 0 0 0 0 0 0 0 0 0 #G4 0 #Q #P0 180.005 -0.66875 0.87125 #P1 14.74255 16.197579 12.238283 #UMI0 Current AutoM Shutter #UMI1 192.51 OFF FE open #UMI2 Refill in 39883 sec, Fill Mode: uniform multibunch / Message: Feb 11 08:00 Delivery:Next Refill at 21:00; #N 4 #L first column second column 3rd_col -1.23 5.89 8 8.478100E+01 5 1.56 3.14 2.73 -3.14 1.2 2.3 3.4 #S 25 ascan c3th 1.33245 1.52245 40 0.15 #D Thu Feb 11 10:00:31 2016 #P0 80.005 -1.66875 1.87125 #P1 4.74255 6.197579 2.238283 #N 5 #L column0 column1 col2 col3 0.0 0.1 0.2 0.3 1.0 1.1 1.2 1.3 2.0 2.1 2.2 2.3 3.0 3.1 3.2 3.3 #S 26 yyyyyy #D Thu Feb 11 09:55:20 2016 #P0 80.005 -1.66875 1.87125 #P1 4.74255 6.197579 2.238283 #N 4 #L first column second column 3rd_col #C Sat Oct 31 15:51:47 1998. Scan aborted after 0 points. #F /tmp/sf.dat #E 1455180876 #D Thu Feb 11 09:54:36 2016 #S 1 aaaaaa #U first duplicate line #U second duplicate line #@MCADEV 1 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #N 3 #L uno duo 1 2 @A 0 1 2 3 4 @A 3.1 4 5 5 6 @A 6 7.7 8 """ loc = locale.getlocale(locale.LC_NUMERIC) try: locale.setlocale(locale.LC_NUMERIC, 'de_DE.utf8') except locale.Error: try_DE = False else: try_DE = True locale.setlocale(locale.LC_NUMERIC, loc) class TestSpecFile(unittest.TestCase): @classmethod def setUpClass(cls): fd, cls.fname1 = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd, sftext) else: os.write(fd, bytes(sftext, 'ascii')) os.close(fd) fd2, cls.fname2 = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd2, sftext[370:923]) else: os.write(fd2, bytes(sftext[370:923], 'ascii')) os.close(fd2) fd3, cls.fname3 = tempfile.mkstemp(text=False) txt = sftext[371:923] if sys.version < '3.0': os.write(fd3, txt) else: os.write(fd3, bytes(txt, 'ascii')) os.close(fd3) @classmethod def tearDownClass(cls): os.unlink(cls.fname1) os.unlink(cls.fname2) os.unlink(cls.fname3) def setUp(self): self.sf = SpecFile(self.fname1) self.scan1 = self.sf[0] self.scan1_2 = self.sf["1.2"] self.scan25 = self.sf["25.1"] self.empty_scan = self.sf["26.1"] self.sf_no_fhdr = SpecFile(self.fname2) self.scan1_no_fhdr = self.sf_no_fhdr[0] self.sf_no_fhdr_crash = SpecFile(self.fname3) self.scan1_no_fhdr_crash = self.sf_no_fhdr_crash[0] def tearDown(self): del self.sf del self.sf_no_fhdr del self.scan1 del self.scan1_2 del self.scan25 del self.scan1_no_fhdr del self.sf_no_fhdr_crash del self.scan1_no_fhdr_crash del self.empty_scan gc.collect() def test_open(self): self.assertIsInstance(self.sf, SpecFile) with self.assertRaises(specfile.SfErrFileOpen): sf2 = SpecFile("doesnt_exist.dat") # test filename types unicode and bytes if sys.version_info[0] < 3: try: SpecFile(self.fname1) except TypeError: self.fail("failed to handle filename as python2 str") try: SpecFile(unicode(self.fname1)) except TypeError: self.fail("failed to handle filename as python2 unicode") else: try: SpecFile(self.fname1) except TypeError: self.fail("failed to handle filename as python3 str") try: SpecFile(bytes(self.fname1, 'utf-8')) except TypeError: self.fail("failed to handle filename as python3 bytes") def test_number_of_scans(self): self.assertEqual(4, len(self.sf)) def test_list_of_scan_indices(self): self.assertEqual(self.sf.list(), [1, 25, 26, 1]) self.assertEqual(self.sf.keys(), ["1.1", "25.1", "26.1", "1.2"]) def test_index_number_order(self): self.assertEqual(self.sf.index(1, 2), 3) #sf["1.2"]==sf[3] self.assertEqual(self.sf.number(1), 25) #sf[1]==sf["25"] self.assertEqual(self.sf.order(3), 2) #sf[3]==sf["1.2"] with self.assertRaises(specfile.SfErrScanNotFound): self.sf.index(3, 2) with self.assertRaises(specfile.SfErrScanNotFound): self.sf.index(99) def test_getitem(self): self.assertIsInstance(self.sf[2], Scan) self.assertIsInstance(self.sf["1.2"], Scan) # int out of range with self.assertRaisesRegexp(IndexError, 'Scan index must be in ran'): self.sf[107] # float indexing not allowed with self.assertRaisesRegexp(TypeError, 'The scan identification k'): self.sf[1.2] # non existant scan with "N.M" indexing with self.assertRaises(KeyError): self.sf["3.2"] def test_specfile_iterator(self): i=0 for scan in self.sf: if i == 1: self.assertEqual(scan.motor_positions, self.sf[1].motor_positions) i += 1 # number of returned scans self.assertEqual(i, len(self.sf)) def test_scan_index(self): self.assertEqual(self.scan1.index, 0) self.assertEqual(self.scan1_2.index, 3) self.assertEqual(self.scan25.index, 1) def test_scan_headers(self): self.assertEqual(self.scan25.scan_header_dict['S'], "25 ascan c3th 1.33245 1.52245 40 0.15") self.assertEqual(self.scan1.header[17], '#G0 0') self.assertEqual(len(self.scan1.header), 29) # parsing headers with long keys self.assertEqual(self.scan1.scan_header_dict['UMI0'], 'Current AutoM Shutter') # parsing empty headers self.assertEqual(self.scan1.scan_header_dict['Q'], '') # duplicate headers: concatenated (with newline) self.assertEqual(self.scan1_2.scan_header_dict["U"], "first duplicate line\nsecond duplicate line") def test_file_headers(self): self.assertEqual(self.scan1.header[1], '#E 1455180875') self.assertEqual(self.scan1.file_header_dict['F'], '/tmp/sf.dat') def test_multiple_file_headers(self): """Scan 1.2 is after the second file header, with a different Epoch""" self.assertEqual(self.scan1_2.header[1], '#E 1455180876') def test_scan_labels(self): self.assertEqual(self.scan1.labels, ['first column', 'second column', '3rd_col']) def test_data(self): # data_line() and data_col() take 1-based indices as arg self.assertAlmostEqual(self.scan1.data_line(1)[2], 1.56) # tests for data transposition between original file and .data attr self.assertAlmostEqual(self.scan1.data[2, 0], 8) self.assertEqual(self.scan1.data.shape, (3, 4)) self.assertAlmostEqual(numpy.sum(self.scan1.data), 113.631) def test_data_column_by_name(self): self.assertAlmostEqual(self.scan25.data_column_by_name("col2")[1], 1.2) # Scan.data is transposed after readinq, so column is the first index self.assertAlmostEqual(numpy.sum(self.scan25.data_column_by_name("col2")), numpy.sum(self.scan25.data[2, :])) with self.assertRaises(specfile.SfErrColNotFound): self.scan25.data_column_by_name("ygfxgfyxg") def test_motors(self): self.assertEqual(len(self.scan1.motor_names), 6) self.assertEqual(len(self.scan1.motor_positions), 6) self.assertAlmostEqual(sum(self.scan1.motor_positions), 223.385912) self.assertEqual(self.scan1.motor_names[1], 'MRTSlit UP') self.assertAlmostEqual( self.scan25.motor_position_by_name('MRTSlit UP'), -1.66875) def test_absence_of_file_header(self): """We expect Scan.file_header to be an empty list in the absence of a file header. """ self.assertEqual(len(self.scan1_no_fhdr.motor_names), 0) # motor positions can still be read in the scan header # even in the absence of motor names self.assertAlmostEqual(sum(self.scan1_no_fhdr.motor_positions), 223.385912) self.assertEqual(len(self.scan1_no_fhdr.header), 15) self.assertEqual(len(self.scan1_no_fhdr.scan_header), 15) self.assertEqual(len(self.scan1_no_fhdr.file_header), 0) def test_crash_absence_of_file_header(self): """Test no crash in absence of file header and no leading newline character """ self.assertEqual(len(self.scan1_no_fhdr_crash.motor_names), 0) # motor positions can still be read in the scan header # even in the absence of motor names self.assertAlmostEqual(sum(self.scan1_no_fhdr_crash.motor_positions), 223.385912) self.assertEqual(len(self.scan1_no_fhdr_crash.scan_header), 15) self.assertEqual(len(self.scan1_no_fhdr_crash.file_header), 0) def test_mca(self): self.assertEqual(len(self.scan1.mca), 0) self.assertEqual(len(self.scan1_2.mca), 3) self.assertEqual(self.scan1_2.mca[1][2], 5) self.assertEqual(sum(self.scan1_2.mca[2]), 21.7) # Negative indexing self.assertEqual(sum(self.scan1_2.mca[len(self.scan1_2.mca)-1]), sum(self.scan1_2.mca[-1])) # Test iterator line_count, total_sum = (0, 0) for mca_line in self.scan1_2.mca: line_count += 1 total_sum += sum(mca_line) self.assertEqual(line_count, 3) self.assertAlmostEqual(total_sum, 36.8) def test_mca_header(self): self.assertEqual(self.scan1.mca_header_dict, {}) self.assertEqual(len(self.scan1_2.mca_header_dict), 4) self.assertEqual(self.scan1_2.mca_header_dict["CALIB"], "1 2 3") self.assertEqual(self.scan1_2.mca.calibration, [[1., 2., 3.]]) # default calib in the absence of #@CALIB self.assertEqual(self.scan25.mca.calibration, [[0., 1., 0.]]) self.assertEqual(self.scan1_2.mca.channels, [[0, 1, 2]]) # absence of #@CHANN and spectra self.assertEqual(self.scan25.mca.channels, []) @utils.test_logging(specfile._logger.name, warning=1) def test_empty_scan(self): """Test reading a scan with no data points""" self.assertEqual(len(self.empty_scan.labels), 3) col1 = self.empty_scan.data_column_by_name("second column") self.assertEqual(col1.shape, (0, )) class TestSFLocale(unittest.TestCase): @classmethod def setUpClass(cls): fd, cls.fname = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd, sftext) else: os.write(fd, bytes(sftext, 'ascii')) os.close(fd) @classmethod def tearDownClass(cls): os.unlink(cls.fname) locale.setlocale(locale.LC_NUMERIC, loc) # restore saved locale gc.collect() def crunch_data(self): self.sf3 = SpecFile(self.fname) self.assertAlmostEqual(self.sf3[0].data_line(1)[2], 1.56) del self.sf3 @unittest.skipIf(not try_DE, "de_DE.utf8 locale not installed") def test_locale_de_DE(self): locale.setlocale(locale.LC_NUMERIC, 'de_DE.utf8') self.crunch_data() def test_locale_user(self): locale.setlocale(locale.LC_NUMERIC, '') # use user's preferred locale self.crunch_data() def test_locale_C(self): locale.setlocale(locale.LC_NUMERIC, 'C') # use default (C) locale self.crunch_data() def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecFile)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSFLocale)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_octaveh5.py0000644023630100076410000001512413202530306020632 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Tests for the octaveh5 module """ __authors__ = ["C. Nemoz", "H. Payno"] __license__ = "MIT" __date__ = "12/07/2016" import unittest import os import tempfile try: from ..octaveh5 import Octaveh5 except ImportError: Octaveh5 = None @unittest.skipIf(Octaveh5 is None, "Could not import h5py") class TestOctaveH5(unittest.TestCase): @staticmethod def _get_struct_FT(): return { 'NO_CHECK': 0.0, 'SHOWSLICE': 1.0, 'DOTOMO': 1.0, 'DATABASE': 0.0, 'ANGLE_OFFSET': 0.0, 'VOLSELECTION_REMEMBER': 0.0, 'NUM_PART': 4.0, 'VOLOUTFILE': 0.0, 'RINGSCORRECTION': 0.0, 'DO_TEST_SLICE': 1.0, 'ZEROOFFMASK': 1.0, 'VERSION': 'fastomo3 version 2.0', 'CORRECT_SPIKES_THRESHOLD': 0.040000000000000001, 'SHOWPROJ': 0.0, 'HALF_ACQ': 0.0, 'ANGLE_OFFSET_VALUE': 0.0, 'FIXEDSLICE': 'middle', 'VOLSELECT': 'total' } @staticmethod def _get_struct_PYHSTEXE(): return { 'EXE': 'PyHST2_2015d', 'VERBOSE': 0.0, 'OFFV': 'PyHST2_2015d', 'TOMO': 0.0, 'VERBOSE_FILE': 'pyhst_out.txt', 'DIR': '/usr/bin/', 'OFFN': 'pyhst2'} @staticmethod def _get_struct_FTAXIS(): return { 'POSITION_VALUE': 12345.0, 'COR_ERROR': 0.0, 'FILESDURINGSCAN': 0.0, 'PLOTFIGURE': 1.0, 'DIM1': 0.0, 'OVERSAMPLING': 5.0, 'TO_THE_CENTER': 1.0, 'POSITION': 'fixed', 'COR_POSITION': 0.0, 'HA': 0.0 } @staticmethod def _get_struct_PAGANIN(): return { 'MKEEP_MASK': 0.0, 'UNSHARP_SIGMA': 0.80000000000000004, 'DILATE': 2.0, 'UNSHARP_COEFF': 3.0, 'MEDIANR': 4.0, 'DB': 500.0, 'MKEEP_ABS': 0.0, 'MODE': 0.0, 'THRESHOLD': 0.5, 'MKEEP_BONE': 0.0, 'DB2': 100.0, 'MKEEP_CORR': 0.0, 'MKEEP_SOFT': 0.0 } @staticmethod def _get_struct_BEAMGEO(): return {'DIST': 55.0, 'SY': 0.0, 'SX': 0.0, 'TYPE': 'p'} def setUp(self): self.tempdir = tempfile.mkdtemp() self.test_3_6_fname = os.path.join(self.tempdir, "silx_tmp_t00_octaveTest_3_6.h5") self.test_3_8_fname = os.path.join(self.tempdir, "silx_tmp_t00_octaveTest_3_8.h5") def tearDown(self): if os.path.isfile(self.test_3_6_fname): os.unlink(self.test_3_6_fname) if os.path.isfile(self.test_3_8_fname): os.unlink(self.test_3_8_fname) def testWritedIsReaded(self): """ Simple test to write and reaf the structure compatible with the octave h5 using structure. This test is for # test for octave version > 3.8 """ writer = Octaveh5() writer.open(self.test_3_8_fname, 'a') # step 1 writing the file writer.write('FT', self._get_struct_FT()) writer.write('PYHSTEXE', self._get_struct_PYHSTEXE()) writer.write('FTAXIS', self._get_struct_FTAXIS()) writer.write('PAGANIN', self._get_struct_PAGANIN()) writer.write('BEAMGEO', self._get_struct_BEAMGEO()) writer.close() # step 2 reading the file reader = Octaveh5().open(self.test_3_8_fname) # 2.1 check FT data_readed = reader.get('FT') self.assertEqual(data_readed, self._get_struct_FT() ) # 2.2 check PYHSTEXE data_readed = reader.get('PYHSTEXE') self.assertEqual(data_readed, self._get_struct_PYHSTEXE() ) # 2.3 check FTAXIS data_readed = reader.get('FTAXIS') self.assertEqual(data_readed, self._get_struct_FTAXIS() ) # 2.4 check PAGANIN data_readed = reader.get('PAGANIN') self.assertEqual(data_readed, self._get_struct_PAGANIN() ) # 2.5 check BEAMGEO data_readed = reader.get('BEAMGEO') self.assertEqual(data_readed, self._get_struct_BEAMGEO() ) reader.close() def testWritedIsReadedOldOctaveVersion(self): """The same test as testWritedIsReaded but for octave version < 3.8 """ # test for octave version < 3.8 writer = Octaveh5(3.6) writer.open(self.test_3_6_fname, 'a') # step 1 writing the file writer.write('FT', self._get_struct_FT()) writer.write('PYHSTEXE', self._get_struct_PYHSTEXE()) writer.write('FTAXIS', self._get_struct_FTAXIS()) writer.write('PAGANIN', self._get_struct_PAGANIN()) writer.write('BEAMGEO', self._get_struct_BEAMGEO()) writer.close() # step 2 reading the file reader = Octaveh5(3.6).open(self.test_3_6_fname) # 2.1 check FT data_readed = reader.get('FT') self.assertEqual(data_readed, self._get_struct_FT() ) # 2.2 check PYHSTEXE data_readed = reader.get('PYHSTEXE') self.assertEqual(data_readed, self._get_struct_PYHSTEXE() ) # 2.3 check FTAXIS data_readed = reader.get('FTAXIS') self.assertEqual(data_readed, self._get_struct_FTAXIS() ) # 2.4 check PAGANIN data_readed = reader.get('PAGANIN') self.assertEqual(data_readed, self._get_struct_PAGANIN() ) # 2.5 check BEAMGEO data_readed = reader.get('BEAMGEO') self.assertEqual(data_readed, self._get_struct_BEAMGEO() ) reader.close() def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestOctaveH5)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_utils.py0000644023630100076410000004035313202530432020256 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for utils module""" import io import numpy import os import re import shutil import tempfile import unittest import sys from .. import utils try: import h5py from ..utils import h5ls except ImportError: h5py = None try: import fabio except ImportError: fabio = None __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "28/09/2017" expected_spec1 = r"""#F .* #D .* #S 1 Ordinate1 #D .* #N 2 #L Abscissa Ordinate1 1 4\.00 2 5\.00 3 6\.00 """ expected_spec2 = expected_spec1 + """ #S 2 Ordinate2 #D .* #N 2 #L Abscissa Ordinate2 1 7\.00 2 8\.00 3 9\.00 """ expected_csv = r"""Abscissa;Ordinate1;Ordinate2 1;4\.00;7\.00e\+00 2;5\.00;8\.00e\+00 3;6\.00;9\.00e\+00 """ expected_csv2 = r"""x;y0;y1 1;4\.00;7\.00e\+00 2;5\.00;8\.00e\+00 3;6\.00;9\.00e\+00 """ class TestSave(unittest.TestCase): """Test saving curves as SpecFile: """ def setUp(self): self.tempdir = tempfile.mkdtemp() self.spec_fname = os.path.join(self.tempdir, "savespec.dat") self.csv_fname = os.path.join(self.tempdir, "savecsv.csv") self.npy_fname = os.path.join(self.tempdir, "savenpy.npy") self.x = [1, 2, 3] self.xlab = "Abscissa" self.y = [[4, 5, 6], [7, 8, 9]] self.ylabs = ["Ordinate1", "Ordinate2"] def tearDown(self): if os.path.isfile(self.spec_fname): os.unlink(self.spec_fname) if os.path.isfile(self.csv_fname): os.unlink(self.csv_fname) if os.path.isfile(self.npy_fname): os.unlink(self.npy_fname) shutil.rmtree(self.tempdir) def test_save_csv(self): utils.save1D(self.csv_fname, self.x, self.y, xlabel=self.xlab, ylabels=self.ylabs, filetype="csv", fmt=["%d", "%.2f", "%.2e"], csvdelim=";", autoheader=True) csvf = open(self.csv_fname) actual_csv = csvf.read() csvf.close() self.assertRegexpMatches(actual_csv, expected_csv) def test_save_npy(self): """npy file is saved with numpy.save after building a numpy array and converting it to a named record array""" npyf = open(self.npy_fname, "wb") utils.save1D(npyf, self.x, self.y, xlabel=self.xlab, ylabels=self.ylabs) npyf.close() npy_recarray = numpy.load(self.npy_fname) self.assertEqual(npy_recarray.shape, (3,)) self.assertTrue( numpy.array_equal( npy_recarray['Ordinate1'], numpy.array((4, 5, 6)))) def test_savespec_filename(self): """Save SpecFile using savespec()""" utils.savespec(self.spec_fname, self.x, self.y[0], xlabel=self.xlab, ylabel=self.ylabs[0], fmt=["%d", "%.2f"], close_file=True, scan_number=1) specf = open(self.spec_fname) actual_spec = specf.read() specf.close() self.assertRegexpMatches(actual_spec, expected_spec1) def test_savespec_file_handle(self): """Save SpecFile using savespec(), passing a file handle""" # first savespec: open, write file header, save y[0] as scan 1, # return file handle specf = utils.savespec(self.spec_fname, self.x, self.y[0], xlabel=self.xlab, ylabel=self.ylabs[0], fmt=["%d", "%.2f"], close_file=False) # second savespec: save y[1] as scan 2, close file utils.savespec(specf, self.x, self.y[1], xlabel=self.xlab, ylabel=self.ylabs[1], fmt=["%d", "%.2f"], write_file_header=False, close_file=True, scan_number=2) specf = open(self.spec_fname) actual_spec = specf.read() specf.close() self.assertRegexpMatches(actual_spec, expected_spec2) def test_save_spec(self): """Save SpecFile using save()""" utils.save1D(self.spec_fname, self.x, self.y, xlabel=self.xlab, ylabels=self.ylabs, filetype="spec", fmt=["%d", "%.2f"]) specf = open(self.spec_fname) actual_spec = specf.read() specf.close() self.assertRegexpMatches(actual_spec, expected_spec2) def test_save_csv_no_labels(self): """Save csv using save(), with autoheader=True but xlabel=None and ylabels=None This is a non-regression test for bug #223""" self.tempdir = tempfile.mkdtemp() self.spec_fname = os.path.join(self.tempdir, "savespec.dat") self.csv_fname = os.path.join(self.tempdir, "savecsv.csv") self.npy_fname = os.path.join(self.tempdir, "savenpy.npy") self.x = [1, 2, 3] self.xlab = "Abscissa" self.y = [[4, 5, 6], [7, 8, 9]] self.ylabs = ["Ordinate1", "Ordinate2"] utils.save1D(self.csv_fname, self.x, self.y, autoheader=True, fmt=["%d", "%.2f", "%.2e"]) csvf = open(self.csv_fname) actual_csv = csvf.read() csvf.close() self.assertRegexpMatches(actual_csv, expected_csv2) def assert_match_any_string_in_list(test, pattern, list_of_strings): for string_ in list_of_strings: if re.match(pattern, string_): return True return False @unittest.skipIf(h5py is None, "Could not import h5py") class TestH5Ls(unittest.TestCase): """Test displaying the following HDF5 file structure: +foo +bar """ def assertMatchAnyStringInList(self, pattern, list_of_strings): for string_ in list_of_strings: if re.match(pattern, string_): return None raise AssertionError("regex pattern %s does not match any" % pattern + " string in list " + str(list_of_strings)) def testHdf5(self): fd, self.h5_fname = tempfile.mkstemp(text=False) # Close and delete (we just want the name) os.close(fd) os.unlink(self.h5_fname) self.h5f = h5py.File(self.h5_fname, "w") self.h5f["/foo/bar/tmp"] = [1, 2, 3] self.h5f["/foo/bar/spam"] = [[1, 2], [3, 4]] self.h5f["/foo/data"] = [3.14] self.h5f.close() rep = h5ls(self.h5_fname) lines = rep.split("\n") self.assertIn("+foo", lines) self.assertIn("\t+bar", lines) self.assertMatchAnyStringInList( r'\t\t', lines) self.assertMatchAnyStringInList( r'\t\t', lines) self.assertMatchAnyStringInList( r'\t', lines) os.unlink(self.h5_fname) # Following test case disabled d/t errors on AppVeyor: # os.unlink(spec_fname) # PermissionError: [WinError 32] The process cannot access the file because # it is being used by another process: 'C:\\...\\savespec.dat' # def testSpec(self): # tempdir = tempfile.mkdtemp() # spec_fname = os.path.join(tempdir, "savespec.dat") # # x = [1, 2, 3] # xlab = "Abscissa" # y = [[4, 5, 6], [7, 8, 9]] # ylabs = ["Ordinate1", "Ordinate2"] # utils.save1D(spec_fname, x, y, xlabel=xlab, # ylabels=ylabs, filetype="spec", # fmt=["%d", "%.2f"]) # # rep = h5ls(spec_fname) # lines = rep.split("\n") # self.assertIn("+1.1", lines) # self.assertIn("\t+instrument", lines) # # self.assertMatchAnyStringInList( # r'\t\t\t', # lines) # self.assertMatchAnyStringInList( # r'\t\t', # lines) # # os.unlink(spec_fname) # shutil.rmtree(tempdir) class TestOpen(unittest.TestCase): """Test `silx.io.utils.open` function.""" @classmethod def setUpClass(cls): cls.tmp_directory = tempfile.mkdtemp() cls.createResources(cls.tmp_directory) @classmethod def createResources(cls, directory): if h5py is not None: cls.h5_filename = os.path.join(directory, "test.h5") h5 = h5py.File(cls.h5_filename, mode="w") h5["group/group/dataset"] = 50 h5.close() cls.spec_filename = os.path.join(directory, "test.dat") utils.savespec(cls.spec_filename, [1], [1.1], xlabel="x", ylabel="y", fmt=["%d", "%.2f"], close_file=True, scan_number=1) if fabio is not None: cls.edf_filename = os.path.join(directory, "test.edf") header = fabio.fabioimage.OrderedDict() header["integer"] = "10" data = numpy.array([[10, 50], [50, 10]]) fabiofile = fabio.edfimage.EdfImage(data, header) fabiofile.write(cls.edf_filename) cls.txt_filename = os.path.join(directory, "test.txt") f = io.open(cls.txt_filename, "w+t") f.write(u"Kikoo") f.close() cls.missing_filename = os.path.join(directory, "test.missing") @classmethod def tearDownClass(cls): if sys.platform == "win32" and fabio is not None: # gc collect is needed to close a file descriptor # opened by fabio and not released. # https://github.com/silx-kit/fabio/issues/167 import gc gc.collect() shutil.rmtree(cls.tmp_directory) def testH5(self): if h5py is None: self.skipTest("H5py is missing") f = utils.open(self.h5_filename) self.assertIsNotNone(f) self.assertIsInstance(f, h5py.File) f.close() def testH5With(self): if h5py is None: self.skipTest("H5py is missing") with utils.open(self.h5_filename) as f: self.assertIsNotNone(f) self.assertIsInstance(f, h5py.File) def testH5_withPath(self): if h5py is None: self.skipTest("H5py is missing") f = utils.open(self.h5_filename + "::/group/group/dataset") self.assertIsNotNone(f) self.assertEqual(f.h5py_class, h5py.Dataset) self.assertEqual(f[()], 50) f.close() def testH5With_withPath(self): if h5py is None: self.skipTest("H5py is missing") with utils.open(self.h5_filename + "::/group/group") as f: self.assertIsNotNone(f) self.assertEqual(f.h5py_class, h5py.Group) self.assertIn("dataset", f) def testSpec(self): f = utils.open(self.spec_filename) self.assertIsNotNone(f) if h5py is not None: self.assertEquals(f.h5py_class, h5py.File) f.close() def testSpecWith(self): with utils.open(self.spec_filename) as f: self.assertIsNotNone(f) if h5py is not None: self.assertEquals(f.h5py_class, h5py.File) def testEdf(self): if h5py is None: self.skipTest("H5py is missing") if fabio is None: self.skipTest("Fabio is missing") f = utils.open(self.edf_filename) self.assertIsNotNone(f) self.assertEquals(f.h5py_class, h5py.File) f.close() def testEdfWith(self): if h5py is None: self.skipTest("H5py is missing") if fabio is None: self.skipTest("Fabio is missing") with utils.open(self.edf_filename) as f: self.assertIsNotNone(f) self.assertEquals(f.h5py_class, h5py.File) def testUnsupported(self): self.assertRaises(IOError, utils.open, self.txt_filename) def testNotExists(self): # load it self.assertRaises(IOError, utils.open, self.missing_filename) class TestNodes(unittest.TestCase): """Test `silx.io.utils.is_` functions.""" def test_real_h5py_objects(self): if h5py is None: self.skipTest("H5py is missing") name = tempfile.mktemp(suffix=".h5") try: with h5py.File(name, "w") as h5file: h5group = h5file.create_group("arrays") h5dataset = h5group.create_dataset("scalar", data=10) self.assertTrue(utils.is_file(h5file)) self.assertTrue(utils.is_group(h5file)) self.assertFalse(utils.is_dataset(h5file)) self.assertFalse(utils.is_file(h5group)) self.assertTrue(utils.is_group(h5group)) self.assertFalse(utils.is_dataset(h5group)) self.assertFalse(utils.is_file(h5dataset)) self.assertFalse(utils.is_group(h5dataset)) self.assertTrue(utils.is_dataset(h5dataset)) finally: os.unlink(name) def test_h5py_like_file(self): if h5py is None: self.skipTest("H5py is missing") class Foo(object): def __init__(self): self.h5py_class = h5py.File obj = Foo() self.assertTrue(utils.is_file(obj)) self.assertTrue(utils.is_group(obj)) self.assertFalse(utils.is_dataset(obj)) def test_h5py_like_group(self): if h5py is None: self.skipTest("H5py is missing") class Foo(object): def __init__(self): self.h5py_class = h5py.Group obj = Foo() self.assertFalse(utils.is_file(obj)) self.assertTrue(utils.is_group(obj)) self.assertFalse(utils.is_dataset(obj)) def test_h5py_like_dataset(self): if h5py is None: self.skipTest("H5py is missing") class Foo(object): def __init__(self): self.h5py_class = h5py.Dataset obj = Foo() self.assertFalse(utils.is_file(obj)) self.assertFalse(utils.is_group(obj)) self.assertTrue(utils.is_dataset(obj)) def test_bad(self): if h5py is None: self.skipTest("H5py is missing") class Foo(object): def __init__(self): pass obj = Foo() self.assertFalse(utils.is_file(obj)) self.assertFalse(utils.is_group(obj)) self.assertFalse(utils.is_dataset(obj)) def test_bad_api(self): if h5py is None: self.skipTest("H5py is missing") class Foo(object): def __init__(self): self.h5py_class = int obj = Foo() self.assertFalse(utils.is_file(obj)) self.assertFalse(utils.is_group(obj)) self.assertFalse(utils.is_dataset(obj)) def suite(): loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loadTests(TestSave)) test_suite.addTest(loadTests(TestH5Ls)) test_suite.addTest(loadTests(TestOpen)) test_suite.addTest(loadTests(TestNodes)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/__init__.py0000644023630100076410000000503713202530432017616 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["T. Vincent", "P. Knobel"] __license__ = "MIT" __date__ = "20/09/2017" import unittest from .test_specfile import suite as test_specfile_suite from .test_specfilewrapper import suite as test_specfilewrapper_suite from .test_dictdump import suite as test_dictdump_suite from .test_spech5 import suite as test_spech5_suite from .test_spectoh5 import suite as test_spectoh5_suite from .test_octaveh5 import suite as test_octaveh5_suite from .test_fabioh5 import suite as test_fabioh5_suite from .test_utils import suite as test_utils_suite from .test_nxdata import suite as test_nxdata_suite from .test_commonh5 import suite as test_commonh5_suite from .test_rawh5 import suite as test_rawh5_suite def suite(): test_suite = unittest.TestSuite() test_suite.addTest(test_dictdump_suite()) test_suite.addTest(test_specfile_suite()) test_suite.addTest(test_specfilewrapper_suite()) test_suite.addTest(test_spech5_suite()) test_suite.addTest(test_spectoh5_suite()) test_suite.addTest(test_octaveh5_suite()) test_suite.addTest(test_utils_suite()) test_suite.addTest(test_fabioh5_suite()) test_suite.addTest(test_nxdata_suite()) test_suite.addTest(test_commonh5_suite()) test_suite.addTest(test_rawh5_suite()) return test_suite silx-0.6.1/silx/io/test/test_nxdata.py0000644023630100076410000003363313202530432020400 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for NXdata parsing""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "27/09/2016" try: import h5py except ImportError: h5py = None import numpy import tempfile import unittest from .. import nxdata @unittest.skipIf(h5py is None, "silx.io.nxdata tests depend on h5py") class TestNXdata(unittest.TestCase): def setUp(self): tmp = tempfile.NamedTemporaryFile(prefix="nxdata_examples_", suffix=".h5", delete=True) tmp.file.close() self.h5fname = tmp.name self.h5f = h5py.File(tmp.name, "w") # SCALARS g0d = self.h5f.create_group("scalars") g0d0 = g0d.create_group("0D_scalar") g0d0.attrs["NX_class"] = "NXdata" g0d0.attrs["signal"] = "scalar" g0d0.create_dataset("scalar", data=10) g0d1 = g0d.create_group("2D_scalars") g0d1.attrs["NX_class"] = "NXdata" g0d1.attrs["signal"] = "scalars" ds = g0d1.create_dataset("scalars", data=numpy.arange(3 * 10).reshape((3, 10))) ds.attrs["interpretation"] = "scalar" g0d1 = g0d.create_group("4D_scalars") g0d1.attrs["NX_class"] = "NXdata" g0d1.attrs["signal"] = "scalars" ds = g0d1.create_dataset("scalars", data=numpy.arange(2 * 2 * 3 * 10).reshape((2, 2, 3, 10))) ds.attrs["interpretation"] = "scalar" # SPECTRA g1d = self.h5f.create_group("spectra") g1d0 = g1d.create_group("1D_spectrum") g1d0.attrs["NX_class"] = "NXdata" g1d0.attrs["signal"] = "count" g1d0.attrs["axes"] = "energy_calib" g1d0.attrs["uncertainties"] = b"energy_errors", g1d0.create_dataset("count", data=numpy.arange(10)) g1d0.create_dataset("energy_calib", data=(10, 5)) # 10 * idx + 5 g1d0.create_dataset("energy_errors", data=3.14 * numpy.random.rand(10)) g1d1 = g1d.create_group("2D_spectra") g1d1.attrs["NX_class"] = "NXdata" g1d1.attrs["signal"] = "counts" ds = g1d1.create_dataset("counts", data=numpy.arange(3 * 10).reshape((3, 10))) ds.attrs["interpretation"] = "spectrum" g1d2 = g1d.create_group("4D_spectra") g1d2.attrs["NX_class"] = "NXdata" g1d2.attrs["signal"] = "counts" g1d2.attrs["axes"] = b"energy", ds = g1d2.create_dataset("counts", data=numpy.arange(2 * 2 * 3 * 10).reshape((2, 2, 3, 10))) ds.attrs["interpretation"] = "spectrum" ds = g1d2.create_dataset("errors", data=4.5 * numpy.random.rand(2, 2, 3, 10)) ds = g1d2.create_dataset("energy", data=5 + 10 * numpy.arange(15), shuffle=True, compression="gzip") ds.attrs["long_name"] = "Calibrated energy" ds.attrs["first_good"] = 3 ds.attrs["last_good"] = 12 g1d2.create_dataset("energy_errors", data=10 * numpy.random.rand(15)) # IMAGES g2d = self.h5f.create_group("images") g2d0 = g2d.create_group("2D_regular_image") g2d0.attrs["NX_class"] = "NXdata" g2d0.attrs["signal"] = "image" g2d0.attrs["axes"] = b"rows_calib", b"columns_coordinates" g2d0.create_dataset("image", data=numpy.arange(4 * 6).reshape((4, 6))) ds = g2d0.create_dataset("rows_calib", data=(10, 5)) ds.attrs["long_name"] = "Calibrated Y" g2d0.create_dataset("columns_coordinates", data=0.5 + 0.02 * numpy.arange(6)) g2d1 = g2d.create_group("2D_irregular_data") g2d1.attrs["NX_class"] = "NXdata" g2d1.attrs["signal"] = "data" g2d1.attrs["axes"] = b"rows_coordinates", b"columns_coordinates" g2d1.create_dataset("data", data=numpy.arange(64 * 128).reshape((64, 128))) g2d1.create_dataset("rows_coordinates", data=numpy.arange(64) + numpy.random.rand(64)) g2d1.create_dataset("columns_coordinates", data=numpy.arange(128) + 2.5 * numpy.random.rand(128)) g2d2 = g2d.create_group("3D_images") g2d2.attrs["NX_class"] = "NXdata" g2d2.attrs["signal"] = "images" ds = g2d2.create_dataset("images", data=numpy.arange(2 * 4 * 6).reshape((2, 4, 6))) ds.attrs["interpretation"] = "image" g2d3 = g2d.create_group("5D_images") g2d3.attrs["NX_class"] = "NXdata" g2d3.attrs["signal"] = "images" g2d3.attrs["axes"] = b"rows_coordinates", b"columns_coordinates" ds = g2d3.create_dataset("images", data=numpy.arange(2 * 2 * 2 * 4 * 6).reshape((2, 2, 2, 4, 6))) ds.attrs["interpretation"] = "image" g2d3.create_dataset("rows_coordinates", data=5 + 10 * numpy.arange(4)) g2d3.create_dataset("columns_coordinates", data=0.5 + 0.02 * numpy.arange(6)) # SCATTER g = self.h5f.create_group("scatters") gd0 = g.create_group("x_y_scatter") gd0.attrs["NX_class"] = "NXdata" gd0.attrs["signal"] = "y" gd0.attrs["axes"] = b"x", gd0.create_dataset("y", data=numpy.random.rand(128) - 0.5) gd0.create_dataset("x", data=2 * numpy.random.rand(128)) gd0.create_dataset("x_errors", data=0.05 * numpy.random.rand(128)) gd0.create_dataset("errors", data=0.05 * numpy.random.rand(128)) gd1 = g.create_group("x_y_value_scatter") gd1.attrs["NX_class"] = "NXdata" gd1.attrs["signal"] = "values" gd1.attrs["axes"] = b"x", b"y" gd1.create_dataset("values", data=3.14 * numpy.random.rand(128)) gd1.create_dataset("y", data=numpy.random.rand(128)) gd1.create_dataset("y_errors", data=0.02 * numpy.random.rand(128)) gd1.create_dataset("x", data=numpy.random.rand(128)) gd1.create_dataset("x_errors", data=0.02 * numpy.random.rand(128)) def tearDown(self): self.h5f.close() def testValidity(self): for group in self.h5f: for subgroup in self.h5f[group]: self.assertTrue( nxdata.is_valid_nxdata(self.h5f[group][subgroup]), "%s/%s not found to be a valid NXdata group" % (group, subgroup)) def testScalars(self): nxd = nxdata.NXdata(self.h5f["scalars/0D_scalar"]) self.assertTrue(nxd.signal_is_0d) self.assertEqual(nxd.signal[()], 10) self.assertEqual(nxd.axes_names, []) self.assertEqual(nxd.axes_dataset_names, []) self.assertEqual(nxd.axes, []) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertIsNone(nxd.interpretation) nxd = nxdata.NXdata(self.h5f["scalars/2D_scalars"]) self.assertTrue(nxd.signal_is_2d) self.assertEqual(nxd.signal[1, 2], 12) self.assertEqual(nxd.axes_names, [None, None]) self.assertEqual(nxd.axes_dataset_names, [None, None]) self.assertEqual(nxd.axes, [None, None]) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertEqual(nxd.interpretation, "scalar") nxd = nxdata.NXdata(self.h5f["scalars/4D_scalars"]) self.assertFalse(nxd.signal_is_0d or nxd.signal_is_1d or nxd.signal_is_2d or nxd.signal_is_3d) self.assertEqual(nxd.signal[1, 0, 1, 4], 74) self.assertEqual(nxd.axes_names, [None, None, None, None]) self.assertEqual(nxd.axes_dataset_names, [None, None, None, None]) self.assertEqual(nxd.axes, [None, None, None, None]) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertEqual(nxd.interpretation, "scalar") def testSpectra(self): nxd = nxdata.NXdata(self.h5f["spectra/1D_spectrum"]) self.assertTrue(nxd.signal_is_1d) self.assertTrue(numpy.array_equal(numpy.array(nxd.signal), numpy.arange(10))) self.assertEqual(nxd.axes_names, ["energy_calib"]) self.assertEqual(nxd.axes_dataset_names, ["energy_calib"]) self.assertEqual(nxd.axes[0][0], 10) self.assertEqual(nxd.axes[0][1], 5) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertIsNone(nxd.interpretation) nxd = nxdata.NXdata(self.h5f["spectra/2D_spectra"]) self.assertTrue(nxd.signal_is_2d) self.assertEqual(nxd.axes_names, [None, None]) self.assertEqual(nxd.axes_dataset_names, [None, None]) self.assertEqual(nxd.axes, [None, None]) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertEqual(nxd.interpretation, "spectrum") nxd = nxdata.NXdata(self.h5f["spectra/4D_spectra"]) self.assertFalse(nxd.signal_is_0d or nxd.signal_is_1d or nxd.signal_is_2d or nxd.signal_is_3d) self.assertEqual(nxd.axes_names, [None, None, None, "Calibrated energy"]) self.assertEqual(nxd.axes_dataset_names, [None, None, None, "energy"]) self.assertEqual(nxd.axes[:3], [None, None, None]) self.assertEqual(nxd.axes[3].shape, (10, )) # dataset shape (15, ) sliced [3:12] self.assertIsNotNone(nxd.errors) self.assertEqual(nxd.errors.shape, (2, 2, 3, 10)) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertEqual(nxd.interpretation, "spectrum") self.assertEqual(nxd.get_axis_errors("energy").shape, (10,)) # test getting axis errors by long_name self.assertTrue(numpy.array_equal(nxd.get_axis_errors("Calibrated energy"), nxd.get_axis_errors("energy"))) self.assertTrue(numpy.array_equal(nxd.get_axis_errors(b"Calibrated energy"), nxd.get_axis_errors("energy"))) def testImages(self): nxd = nxdata.NXdata(self.h5f["images/2D_regular_image"]) self.assertTrue(nxd.signal_is_2d) self.assertEqual(nxd.axes_names, ["Calibrated Y", "columns_coordinates"]) self.assertEqual(list(nxd.axes_dataset_names), ["rows_calib", "columns_coordinates"]) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertIsNone(nxd.interpretation) nxd = nxdata.NXdata(self.h5f["images/2D_irregular_data"]) self.assertTrue(nxd.signal_is_2d) self.assertEqual(nxd.axes_dataset_names, nxd.axes_names) self.assertEqual(list(nxd.axes_dataset_names), ["rows_coordinates", "columns_coordinates"]) self.assertEqual(len(nxd.axes), 2) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertIsNone(nxd.interpretation) nxd = nxdata.NXdata(self.h5f["images/5D_images"]) self.assertFalse(nxd.signal_is_0d or nxd.signal_is_1d or nxd.signal_is_2d or nxd.signal_is_3d) self.assertEqual(nxd.axes_names, [None, None, None, 'rows_coordinates', 'columns_coordinates']) self.assertEqual(nxd.axes_dataset_names, [None, None, None, 'rows_coordinates', 'columns_coordinates']) self.assertIsNone(nxd.errors) self.assertFalse(nxd.is_scatter or nxd.is_x_y_value_scatter) self.assertEqual(nxd.interpretation, "image") def testScatters(self): nxd = nxdata.NXdata(self.h5f["scatters/x_y_scatter"]) self.assertTrue(nxd.signal_is_1d) self.assertEqual(nxd.axes_names, ["x"]) self.assertEqual(nxd.axes_dataset_names, ["x"]) self.assertIsNotNone(nxd.errors) self.assertEqual(nxd.get_axis_errors("x").shape, (128, )) self.assertTrue(nxd.is_scatter) self.assertFalse(nxd.is_x_y_value_scatter) self.assertIsNone(nxd.interpretation) nxd = nxdata.NXdata(self.h5f["scatters/x_y_value_scatter"]) self.assertFalse(nxd.signal_is_1d) self.assertTrue(nxd.axes_dataset_names, nxd.axes_names) self.assertEqual(nxd.axes_dataset_names, ["x", "y"]) self.assertEqual(nxd.get_axis_errors("x").shape, (128, )) self.assertEqual(nxd.get_axis_errors("y").shape, (128, )) self.assertEqual(len(nxd.axes), 2) self.assertIsNone(nxd.errors) self.assertTrue(nxd.is_scatter) self.assertTrue(nxd.is_x_y_value_scatter) self.assertIsNone(nxd.interpretation) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestNXdata)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_rawh5.py0000644023630100076410000000651013202530432020141 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test for silx.gui.hdf5 module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "21/09/2017" import unittest import tempfile import numpy import shutil from ..import rawh5 class TestNumpyFile(unittest.TestCase): @classmethod def setUpClass(cls): cls.tmpDirectory = tempfile.mkdtemp() @classmethod def tearDownClass(cls): shutil.rmtree(cls.tmpDirectory) def testNumpyFile(self): filename = "%s/%s.npy" % (self.tmpDirectory, self.id()) c = numpy.random.rand(5, 5) numpy.save(filename, c) h5 = rawh5.NumpyFile(filename) self.assertIn("data", h5) self.assertEqual(h5["data"].dtype.kind, "f") def testNumpyZFile(self): filename = "%s/%s.npz" % (self.tmpDirectory, self.id()) a = numpy.array(u"aaaaa") b = numpy.array([1, 2, 3, 4]) c = numpy.random.rand(5, 5) d = numpy.array(b"aaaaa") e = numpy.array(u"i \u2661 my mother") numpy.savez(filename, a, b=b, c=c, d=d, e=e) h5 = rawh5.NumpyFile(filename) self.assertIn("arr_0", h5) self.assertIn("b", h5) self.assertIn("c", h5) self.assertIn("d", h5) self.assertIn("e", h5) self.assertEqual(h5["arr_0"].dtype.kind, "U") self.assertEqual(h5["b"].dtype.kind, "i") self.assertEqual(h5["c"].dtype.kind, "f") self.assertEqual(h5["d"].dtype.kind, "S") self.assertEqual(h5["e"].dtype.kind, "U") def testNumpyZFileContainingDirectories(self): filename = "%s/%s.npz" % (self.tmpDirectory, self.id()) data = {} data['a/b/c'] = numpy.arange(10) data['a/b/e'] = numpy.arange(10) numpy.savez(filename, **data) h5 = rawh5.NumpyFile(filename) self.assertIn("a/b/c", h5) self.assertIn("a/b/e", h5) def suite(): test_suite = unittest.TestSuite() loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite.addTest(loadTests(TestNumpyFile)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/io/test/test_specfilewrapper.py0000644023630100076410000001500113202530432022301 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for old specfile wrapper""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "15/05/2017" import gc import locale import logging import numpy import os import sys import tempfile import unittest logger1 = logging.getLogger(__name__) from ..specfilewrapper import Specfile sftext = """#F /tmp/sf.dat #E 1455180875 #D Thu Feb 11 09:54:35 2016 #C imaging User = opid17 #U00 user comment first line #U01 This is a dummy file to test SpecFile parsing #U02 #U03 last line #O0 Pslit HGap MRTSlit UP MRTSlit DOWN #O1 Sslit1 VOff Sslit1 HOff Sslit1 VGap #o0 pshg mrtu mrtd #o2 ss1vo ss1ho ss1vg #J0 Seconds IA ion.mono Current #J1 xbpmc2 idgap1 Inorm #S 1 ascan ss1vo -4.55687 -0.556875 40 0.2 #D Thu Feb 11 09:55:20 2016 #T 0.2 (Seconds) #G0 0 #G1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 #G3 0 0 0 0 0 0 0 0 0 #G4 0 #Q #P0 180.005 -0.66875 0.87125 #P1 14.74255 16.197579 12.238283 #UMI0 Current AutoM Shutter #UMI1 192.51 OFF FE open #UMI2 Refill in 39883 sec, Fill Mode: uniform multibunch / Message: Feb 11 08:00 Delivery:Next Refill at 21:00; #N 4 #L first column second column 3rd_col -1.23 5.89 8 8.478100E+01 5 1.56 3.14 2.73 -3.14 1.2 2.3 3.4 #S 25 ascan c3th 1.33245 1.52245 40 0.15 #D Thu Feb 11 10:00:31 2016 #P0 80.005 -1.66875 1.87125 #P1 4.74255 6.197579 2.238283 #N 5 #L column0 column1 col2 col3 0.0 0.1 0.2 0.3 1.0 1.1 1.2 1.3 2.0 2.1 2.2 2.3 3.0 3.1 3.2 3.3 #F /tmp/sf.dat #E 1455180876 #D Thu Feb 11 09:54:36 2016 #S 1 aaaaaa #U first duplicate line #U second duplicate line #@MCADEV 1 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #N 3 #L uno duo 1 2 @A 0 1 2 3 4 @A 3.1 4 5 5 6 @A 6 7.7 8 """ class TestSpecfilewrapper(unittest.TestCase): @classmethod def setUpClass(cls): fd, cls.fname1 = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd, sftext) else: os.write(fd, bytes(sftext, 'ascii')) os.close(fd) fd2, cls.fname2 = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd2, sftext[370:-97]) else: os.write(fd2, bytes(sftext[370:-97], 'ascii')) os.close(fd2) @classmethod def tearDownClass(cls): os.unlink(cls.fname1) os.unlink(cls.fname2) def setUp(self): self.sf = Specfile(self.fname1) self.scan1 = self.sf[0] self.scan1_2 = self.sf.select("1.2") self.scan25 = self.sf.select("25.1") def tearDown(self): del self.sf del self.scan1 del self.scan1_2 del self.scan25 gc.collect() def test_number_of_scans(self): self.assertEqual(3, len(self.sf)) def test_list_of_scan_indices(self): self.assertEqual(self.sf.list(), '1,25,1') self.assertEqual(self.sf.keys(), ["1.1", "25.1", "1.2"]) def test_scan_headers(self): self.assertEqual(self.scan25.header('S'), ["#S 25 ascan c3th 1.33245 1.52245 40 0.15"]) self.assertEqual(self.scan1.header("G0"), ['#G0 0']) # parsing headers with long keys # parsing empty headers self.assertEqual(self.scan1.header('Q'), ['#Q ']) def test_file_headers(self): self.assertEqual(self.scan1.header("E"), ['#E 1455180875']) self.assertEqual(self.sf.title(), "imaging") self.assertEqual(self.sf.epoch(), 1455180875) self.assertEqual(self.sf.allmotors(), ["Pslit HGap", "MRTSlit UP", "MRTSlit DOWN", "Sslit1 VOff", "Sslit1 HOff", "Sslit1 VGap"]) def test_scan_labels(self): self.assertEqual(self.scan1.alllabels(), ['first column', 'second column', '3rd_col']) def test_data(self): self.assertAlmostEqual(self.scan1.dataline(3)[2], -3.14) self.assertAlmostEqual(self.scan1.datacol(1)[2], 3.14) # tests for data transposition between original file and .data attr self.assertAlmostEqual(self.scan1.data()[2, 0], 8) self.assertEqual(self.scan1.data().shape, (3, 4)) self.assertAlmostEqual(numpy.sum(self.scan1.data()), 113.631) def test_date(self): self.assertEqual(self.scan1.date(), "Thu Feb 11 09:55:20 2016") def test_motors(self): self.assertEqual(len(self.sf.allmotors()), 6) self.assertEqual(len(self.scan1.allmotorpos()), 6) self.assertAlmostEqual(sum(self.scan1.allmotorpos()), 223.385912) self.assertEqual(self.sf.allmotors()[1], 'MRTSlit UP') def test_mca(self): self.assertEqual(self.scan1_2.mca(2)[2], 5) self.assertEqual(sum(self.scan1_2.mca(3)), 21.7) def test_mca_header(self): self.assertEqual(self.scan1_2.header("CALIB"), ["#@CALIB 1 2 3"]) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecfilewrapper)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_spech5.py0000644023630100076410000007710113202530432020306 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for spech5""" import gc from numpy import array_equal import os import io import sys import tempfile import unittest import datetime from functools import partial from silx.test import utils from .. import spech5 from ..spech5 import (SpecH5, SpecH5Group, SpecH5Dataset, spec_date_to_iso8601) from .. import specfile try: import h5py except ImportError: h5py = None __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "26/07/2017" sftext = """#F /tmp/sf.dat #E 1455180875 #D Thu Feb 11 09:54:35 2016 #C imaging User = opid17 #O0 Pslit HGap MRTSlit UP MRTSlit DOWN #O1 Sslit1 VOff Sslit1 HOff Sslit1 VGap #o0 pshg mrtu mrtd #o2 ss1vo ss1ho ss1vg #J0 Seconds IA ion.mono Current #J1 xbpmc2 idgap1 Inorm #S 1 ascan ss1vo -4.55687 -0.556875 40 0.2 #D Thu Feb 11 09:55:20 2016 #T 0.2 (Seconds) #P0 180.005 -0.66875 0.87125 #P1 14.74255 16.197579 12.238283 #N 4 #L MRTSlit UP second column 3rd_col -1.23 5.89 8 8.478100E+01 5 1.56 3.14 2.73 -3.14 1.2 2.3 3.4 #S 25 ascan c3th 1.33245 1.52245 40 0.15 #D Sat 2015/03/14 03:53:50 #P0 80.005 -1.66875 1.87125 #P1 4.74255 6.197579 2.238283 #N 5 #L column0 column1 col2 col3 0.0 0.1 0.2 0.3 1.0 1.1 1.2 1.3 2.0 2.1 2.2 2.3 3.0 3.1 3.2 3.3 #S 1 aaaaaa #D Thu Feb 11 10:00:32 2016 #@MCADEV 1 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #@CTIME 123.4 234.5 345.6 #N 3 #L uno duo 1 2 @A 0 1 2 @A 10 9 8 @A 1 1 1.1 3 4 @A 3.1 4 5 @A 7 6 5 @A 1 1 1 5 6 @A 6 7.7 8 @A 4 3 2 @A 1 1 1 #S 1000 bbbbb #G1 3.25 3.25 5.207 90 90 120 2.232368448 2.232368448 1.206680489 90 90 60 1 1 2 -1 2 2 26.132 7.41 -88.96 1.11 1.000012861 15.19 26.06 67.355 -88.96 1.11 1.000012861 15.11 0.723353 0.723353 #G3 0.0106337923671 0.027529133 1.206191273 -1.43467075 0.7633438883 0.02401568018 -1.709143587 -2.097621783 0.02456954971 #L a b 1 2 #S 1001 ccccc #G1 0. 0. 0. 0 0 0 2.232368448 2.232368448 1.206680489 90 90 60 1 1 2 -1 2 2 26.132 7.41 -88.96 1.11 1.000012861 15.19 26.06 67.355 -88.96 1.11 1.000012861 15.11 0.723353 0.723353 #G3 0. 0. 0. 0. 0.0 0. 0. 0. 0. #L a b 1 2 """ class TestSpecDate(unittest.TestCase): """ Test of the spec_date_to_iso8601 function. """ # TODO : time zone tests # TODO : error cases @classmethod def setUpClass(cls): import locale # FYI : not threadsafe cls.locale_saved = locale.setlocale(locale.LC_TIME) locale.setlocale(locale.LC_TIME, 'C') @classmethod def tearDownClass(cls): import locale # FYI : not threadsafe locale.setlocale(locale.LC_TIME, cls.locale_saved) def setUp(self): # covering all week days self.n_days = range(1, 10) # covering all months self.n_months = range(1, 13) self.n_years = [1999, 2016, 2020] self.n_seconds = [0, 5, 26, 59] self.n_minutes = [0, 9, 42, 59] self.n_hours = [0, 2, 17, 23] self.formats = ['%a %b %d %H:%M:%S %Y', '%a %Y/%m/%d %H:%M:%S'] self.check_date_formats = partial(self.__check_date_formats, year=self.n_years[0], month=self.n_months[0], day=self.n_days[0], hour=self.n_hours[0], minute=self.n_minutes[0], second=self.n_seconds[0], msg=None) def __check_date_formats(self, year, month, day, hour, minute, second, msg=None): dt = datetime.datetime(year, month, day, hour, minute, second) expected_date = dt.isoformat() for i_fmt, fmt in enumerate(self.formats): spec_date = dt.strftime(fmt) iso_date = spec_date_to_iso8601(spec_date) self.assertEqual(iso_date, expected_date, msg='Testing {0}. format={1}. ' 'Expected "{2}", got "{3} ({4})" (dt={5}).' ''.format(msg, i_fmt, expected_date, iso_date, spec_date, dt)) def testYearsNominal(self): for year in self.n_years: self.check_date_formats(year=year, msg='year') def testMonthsNominal(self): for month in self.n_months: self.check_date_formats(month=month, msg='month') def testDaysNominal(self): for day in self.n_days: self.check_date_formats(day=day, msg='day') def testHoursNominal(self): for hour in self.n_hours: self.check_date_formats(hour=hour, msg='hour') def testMinutesNominal(self): for minute in self.n_minutes: self.check_date_formats(minute=minute, msg='minute') def testSecondsNominal(self): for second in self.n_seconds: self.check_date_formats(second=second, msg='second') class TestSpecH5(unittest.TestCase): @classmethod def setUpClass(cls): fd, cls.fname = tempfile.mkstemp() if sys.version < '3.0': os.write(fd, sftext) else: os.write(fd, bytes(sftext, 'ascii')) os.close(fd) @classmethod def tearDownClass(cls): os.unlink(cls.fname) def setUp(self): self.sfh5 = SpecH5(self.fname) def tearDown(self): # fix Win32 permission error when deleting temp file del self.sfh5 gc.collect() def testContainsFile(self): self.assertIn("/1.2/measurement", self.sfh5) self.assertIn("/25.1", self.sfh5) self.assertIn("25.1", self.sfh5) self.assertNotIn("25.2", self.sfh5) # measurement is a child of a scan, full path would be required to # access from root level self.assertNotIn("measurement", self.sfh5) # Groups may or may not have a trailing / self.assertIn("/1.2/measurement/mca_1/", self.sfh5) self.assertIn("/1.2/measurement/mca_1", self.sfh5) # Datasets can't have a trailing / self.assertNotIn("/1.2/measurement/mca_0/info/calibration/ ", self.sfh5) # No mca_8 self.assertNotIn("/1.2/measurement/mca_8/info/calibration", self.sfh5) # Link self.assertIn("/1.2/measurement/mca_0/info/calibration", self.sfh5) def testContainsGroup(self): self.assertIn("measurement", self.sfh5["/1.2/"]) self.assertIn("measurement", self.sfh5["/1.2"]) self.assertIn("25.1", self.sfh5["/"]) self.assertNotIn("25.2", self.sfh5["/"]) self.assertIn("instrument/positioners/Sslit1 HOff", self.sfh5["/1.1"]) # illegal trailing "/" after dataset name self.assertNotIn("instrument/positioners/Sslit1 HOff/", self.sfh5["/1.1"]) # full path to element in group (OK) self.assertIn("/1.1/instrument/positioners/Sslit1 HOff", self.sfh5["/1.1/instrument"]) def testDataColumn(self): self.assertAlmostEqual(sum(self.sfh5["/1.2/measurement/duo"]), 12.0) self.assertAlmostEqual( sum(self.sfh5["1.1"]["measurement"]["MRTSlit UP"]), 87.891, places=4) def testDate(self): # start time is in Iso8601 format self.assertEqual(self.sfh5["/1.1/start_time"], b"2016-02-11T09:55:20") self.assertEqual(self.sfh5["25.1/start_time"], b"2015-03-14T03:53:50") def testDatasetInstanceAttr(self): """The SpecH5Dataset objects must implement some dummy attributes to improve compatibility with widgets dealing with h5py datasets.""" self.assertIsNone(self.sfh5["/1.1/start_time"].compression) self.assertIsNone(self.sfh5["1.1"]["measurement"]["MRTSlit UP"].chunks) # error message must be explicit with self.assertRaisesRegexp( AttributeError, "SpecH5Dataset has no attribute tOTo"): dummy = self.sfh5["/1.1/start_time"].tOTo def testGet(self): """Test :meth:`SpecH5Group.get`""" # default value of param *default* is None self.assertIsNone(self.sfh5.get("toto")) self.assertEqual(self.sfh5["25.1"].get("toto", default=-3), -3) self.assertEqual(self.sfh5.get("/1.1/start_time", default=-3), b"2016-02-11T09:55:20") def testGetClass(self): """Test :meth:`SpecH5Group.get`""" if h5py is None: self.skipTest("h5py is not available") self.assertIs(self.sfh5["1.1"].get("start_time", getclass=True), h5py.Dataset) self.assertIs(self.sfh5["1.1"].get("instrument", getclass=True), h5py.Group) # spech5 does not define external link, so there is no way # a group can *get* a SpecH5 class @unittest.skipIf(h5py is None, "test requires h5py (not installed)") def testGetApi(self): result = self.sfh5.get("1.1", getclass=True, getlink=True) self.assertIs(result, h5py.HardLink) result = self.sfh5.get("1.1", getclass=False, getlink=True) self.assertIsInstance(result, h5py.HardLink) result = self.sfh5.get("1.1", getclass=True, getlink=False) self.assertIs(result, h5py.Group) result = self.sfh5.get("1.1", getclass=False, getlink=False) self.assertIsInstance(result, spech5.SpecH5Group) def testGetItemGroup(self): group = self.sfh5["25.1"]["instrument"] self.assertEqual(list(group["positioners"].keys()), ["Pslit HGap", "MRTSlit UP", "MRTSlit DOWN", "Sslit1 VOff", "Sslit1 HOff", "Sslit1 VGap"]) with self.assertRaises(KeyError): group["Holy Grail"] def testGetitemSpecH5(self): self.assertEqual(self.sfh5["/1.2/instrument/positioners"], self.sfh5["1.2"]["instrument"]["positioners"]) @unittest.skipIf(h5py is None, "test requires h5py (not installed)") def testH5pyClass(self): """Test :attr:`h5py_class` returns the corresponding h5py class (h5py.File, h5py.Group, h5py.Dataset)""" a_file = self.sfh5 self.assertIs(a_file.h5py_class, h5py.File) a_group = self.sfh5["/1.2/measurement"] self.assertIs(a_group.h5py_class, h5py.Group) a_dataset = self.sfh5["/1.1/instrument/positioners/Sslit1 HOff"] self.assertIs(a_dataset.h5py_class, h5py.Dataset) def testHeader(self): file_header = self.sfh5["/1.2/instrument/specfile/file_header"] scan_header = self.sfh5["/1.2/instrument/specfile/scan_header"] # convert ndarray(dtype=numpy.string_) to str if sys.version < '3.0': file_header = str(file_header[()]) scan_header = str(scan_header[()]) else: file_header = str(file_header.astype(str)) scan_header = str(scan_header.astype(str)) # File header has 10 lines self.assertEqual(len(file_header.split("\n")), 10) # 1.2 has 9 scan & mca header lines self.assertEqual(len(scan_header.split("\n")), 9) # line 4 of file header self.assertEqual( file_header.split("\n")[3], "#C imaging User = opid17") # line 4 of scan header scan_header = self.sfh5["25.1/instrument/specfile/scan_header"] if sys.version < '3.0': scan_header = str(scan_header[()]) else: scan_header = str(scan_header[()].astype(str)) self.assertEqual( scan_header.split("\n")[3], "#P1 4.74255 6.197579 2.238283") def testLinks(self): self.assertTrue( array_equal(self.sfh5["/1.2/measurement/mca_0/data"], self.sfh5["/1.2/instrument/mca_0/data"]) ) self.assertTrue( array_equal(self.sfh5["/1.2/measurement/mca_0/info/data"], self.sfh5["/1.2/instrument/mca_0/data"]) ) self.assertTrue( array_equal(self.sfh5["/1.2/measurement/mca_0/info/channels"], self.sfh5["/1.2/instrument/mca_0/channels"]) ) self.assertEqual(self.sfh5["/1.2/measurement/mca_0/info/"].keys(), self.sfh5["/1.2/instrument/mca_0/"].keys()) self.assertEqual(self.sfh5["/1.2/measurement/mca_0/info/preset_time"], self.sfh5["/1.2/instrument/mca_0/preset_time"]) self.assertEqual(self.sfh5["/1.2/measurement/mca_0/info/live_time"], self.sfh5["/1.2/instrument/mca_0/live_time"]) self.assertEqual(self.sfh5["/1.2/measurement/mca_0/info/elapsed_time"], self.sfh5["/1.2/instrument/mca_0/elapsed_time"]) def testListScanIndices(self): self.assertEqual(list(self.sfh5.keys()), ["1.1", "25.1", "1.2", "1000.1", "1001.1"]) self.assertEqual(self.sfh5["1.2"].attrs, {"NX_class": "NXentry", }) def testMcaAbsent(self): def access_absent_mca(): """This must raise a KeyError, because scan 1.1 has no MCA""" return self.sfh5["/1.1/measurement/mca_0/"] self.assertRaises(KeyError, access_absent_mca) def testMcaCalib(self): mca0_calib = self.sfh5["/1.2/measurement/mca_0/info/calibration"] mca1_calib = self.sfh5["/1.2/measurement/mca_1/info/calibration"] self.assertEqual(mca0_calib.tolist(), [1, 2, 3]) # calibration is unique in this scan and applies to all analysers self.assertEqual(mca0_calib.tolist(), mca1_calib.tolist()) def testMcaChannels(self): mca0_chann = self.sfh5["/1.2/measurement/mca_0/info/channels"] mca1_chann = self.sfh5["/1.2/measurement/mca_1/info/channels"] self.assertEqual(mca0_chann.tolist(), [0, 1, 2]) self.assertEqual(mca0_chann.tolist(), mca1_chann.tolist()) def testMcaCtime(self): """Tests for #@CTIME mca header""" datasets = ["preset_time", "live_time", "elapsed_time"] for ds in datasets: self.assertNotIn("/1.1/instrument/mca_0/" + ds, self.sfh5) self.assertIn("/1.2/instrument/mca_0/" + ds, self.sfh5) mca0_preset_time = self.sfh5["/1.2/instrument/mca_0/preset_time"] mca1_preset_time = self.sfh5["/1.2/instrument/mca_1/preset_time"] self.assertLess(mca0_preset_time - 123.4, 10**-5) # ctime is unique in a this scan and applies to all analysers self.assertEqual(mca0_preset_time, mca1_preset_time) mca0_live_time = self.sfh5["/1.2/instrument/mca_0/live_time"] mca1_live_time = self.sfh5["/1.2/instrument/mca_1/live_time"] self.assertLess(mca0_live_time - 234.5, 10**-5) self.assertEqual(mca0_live_time, mca1_live_time) mca0_elapsed_time = self.sfh5["/1.2/instrument/mca_0/elapsed_time"] mca1_elapsed_time = self.sfh5["/1.2/instrument/mca_1/elapsed_time"] self.assertLess(mca0_elapsed_time - 345.6, 10**-5) self.assertEqual(mca0_elapsed_time, mca1_elapsed_time) def testMcaData(self): # sum 1st MCA in scan 1.2 over rows mca_0_data = self.sfh5["/1.2/measurement/mca_0/data"] for summed_row, expected in zip(mca_0_data.sum(axis=1).tolist(), [3.0, 12.1, 21.7]): self.assertAlmostEqual(summed_row, expected, places=4) # sum 3rd MCA in scan 1.2 along both axis mca_2_data = self.sfh5["1.2"]["measurement"]["mca_2"]["data"] self.assertAlmostEqual(sum(sum(mca_2_data)), 9.1, places=5) # attrs self.assertEqual(mca_0_data.attrs, {"interpretation": "spectrum"}) def testMotorPosition(self): positioners_group = self.sfh5["/1.1/instrument/positioners"] # MRTSlit DOWN position is defined in #P0 san header line self.assertAlmostEqual(float(positioners_group["MRTSlit DOWN"]), 0.87125) # MRTSlit UP position is defined in first data column for a, b in zip(positioners_group["MRTSlit UP"].tolist(), [-1.23, 8.478100E+01, 3.14, 1.2]): self.assertAlmostEqual(float(a), b, places=4) def testNumberMcaAnalysers(self): """Scan 1.2 has 2 data columns + 3 mca spectra per data line.""" self.assertEqual(len(self.sfh5["1.2"]["measurement"]), 5) def testTitle(self): self.assertEqual(self.sfh5["/25.1/title"], b"25 ascan c3th 1.33245 1.52245 40 0.15") def testValues(self): group = self.sfh5["/25.1"] self.assertTrue(hasattr(group, "values")) self.assertTrue(callable(group.values)) self.assertIn(self.sfh5["/25.1/title"], self.sfh5["/25.1"].values()) # visit and visititems ignore links def testVisit(self): name_list = [] self.sfh5.visit(name_list.append) self.assertIn('1.2/instrument/positioners/Pslit HGap', name_list) self.assertIn("1.2/instrument/specfile/scan_header", name_list) self.assertEqual(len(name_list), 117) # test also visit of a subgroup, with various group name formats name_list_leading_and_trailing_slash = [] self.sfh5['/1.2/instrument/'].visit(name_list_leading_and_trailing_slash.append) name_list_leading_slash = [] self.sfh5['/1.2/instrument'].visit(name_list_leading_slash.append) name_list_trailing_slash = [] self.sfh5['1.2/instrument/'].visit(name_list_trailing_slash.append) name_list_no_slash = [] self.sfh5['1.2/instrument'].visit(name_list_no_slash.append) # no differences expected in the output names self.assertEqual(name_list_leading_and_trailing_slash, name_list_leading_slash) self.assertEqual(name_list_leading_slash, name_list_trailing_slash) self.assertEqual(name_list_leading_slash, name_list_no_slash) self.assertIn("positioners/Pslit HGap", name_list_no_slash) self.assertIn("positioners", name_list_no_slash) def testVisitItems(self): dataset_name_list = [] def func_generator(l): """return a function appending names to list l""" def func(name, obj): if isinstance(obj, SpecH5Dataset): l.append(name) return func self.sfh5.visititems(func_generator(dataset_name_list)) self.assertIn('1.2/instrument/positioners/Pslit HGap', dataset_name_list) self.assertEqual(len(dataset_name_list), 85) # test also visit of a subgroup, with various group name formats name_list_leading_and_trailing_slash = [] self.sfh5['/1.2/instrument/'].visititems(func_generator(name_list_leading_and_trailing_slash)) name_list_leading_slash = [] self.sfh5['/1.2/instrument'].visititems(func_generator(name_list_leading_slash)) name_list_trailing_slash = [] self.sfh5['1.2/instrument/'].visititems(func_generator(name_list_trailing_slash)) name_list_no_slash = [] self.sfh5['1.2/instrument'].visititems(func_generator(name_list_no_slash)) # no differences expected in the output names self.assertEqual(name_list_leading_and_trailing_slash, name_list_leading_slash) self.assertEqual(name_list_leading_slash, name_list_trailing_slash) self.assertEqual(name_list_leading_slash, name_list_no_slash) self.assertIn("positioners/Pslit HGap", name_list_no_slash) def testNotSpecH5(self): fd, fname = tempfile.mkstemp() os.write(fd, b"Not a spec file!") os.close(fd) self.assertRaises(specfile.SfErrFileOpen, SpecH5, fname) self.assertRaises(IOError, SpecH5, fname) os.unlink(fname) def testSample(self): self.assertNotIn("sample", self.sfh5["/1.1"]) self.assertIn("sample", self.sfh5["/1000.1"]) self.assertIn("ub_matrix", self.sfh5["/1000.1/sample"]) self.assertIn("unit_cell", self.sfh5["/1000.1/sample"]) self.assertIn("unit_cell_abc", self.sfh5["/1000.1/sample"]) self.assertIn("unit_cell_alphabetagamma", self.sfh5["/1000.1/sample"]) # All 0 values self.assertNotIn("sample", self.sfh5["/1001.1"]) with self.assertRaises(KeyError): uc = self.sfh5["/1001.1/sample/unit_cell"] @utils.test_logging(spech5.logger1.name, warning=2) def testOpenFileDescriptor(self): """Open a SpecH5 file from a file descriptor""" with io.open(self.sfh5.filename) as f: sfh5 = SpecH5(f) self.assertIsNotNone(sfh5) name_list = [] # check if the object is working self.sfh5.visit(name_list.append) sftext_multi_mca_headers = """ #S 1 aaaaaa #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #@CTIME 123.4 234.5 345.6 #@MCA %16C #@CHANN 3 1 3 1 #@CALIB 5.5 6.6 7.7 #@CTIME 10 11 12 #N 3 #L uno duo 1 2 @A 0 1 2 @A 10 9 8 3 4 @A 3.1 4 5 @A 7 6 5 5 6 @A 6 7.7 8 @A 4 3 2 """ class TestSpecH5MultiMca(unittest.TestCase): @classmethod def setUpClass(cls): fd, cls.fname = tempfile.mkstemp(text=False) if sys.version < '3.0': os.write(fd, sftext_multi_mca_headers) else: os.write(fd, bytes(sftext_multi_mca_headers, 'ascii')) os.close(fd) @classmethod def tearDownClass(cls): os.unlink(cls.fname) def setUp(self): self.sfh5 = SpecH5(self.fname) def tearDown(self): # fix Win32 permission error when deleting temp file del self.sfh5 gc.collect() def testMcaCalib(self): mca0_calib = self.sfh5["/1.1/measurement/mca_0/info/calibration"] mca1_calib = self.sfh5["/1.1/measurement/mca_1/info/calibration"] self.assertEqual(mca0_calib.tolist(), [1, 2, 3]) self.assertAlmostEqual(sum(mca1_calib.tolist()), sum([5.5, 6.6, 7.7]), places=5) def testMcaChannels(self): mca0_chann = self.sfh5["/1.1/measurement/mca_0/info/channels"] mca1_chann = self.sfh5["/1.1/measurement/mca_1/info/channels"] self.assertEqual(mca0_chann.tolist(), [0., 1., 2.]) # @CHANN is unique in this scan and applies to all analysers self.assertEqual(mca1_chann.tolist(), [1., 2., 3.]) def testMcaCtime(self): """Tests for #@CTIME mca header""" mca0_preset_time = self.sfh5["/1.1/instrument/mca_0/preset_time"] mca1_preset_time = self.sfh5["/1.1/instrument/mca_1/preset_time"] self.assertLess(mca0_preset_time - 123.4, 10**-5) self.assertLess(mca1_preset_time - 10, 10**-5) mca0_live_time = self.sfh5["/1.1/instrument/mca_0/live_time"] mca1_live_time = self.sfh5["/1.1/instrument/mca_1/live_time"] self.assertLess(mca0_live_time - 234.5, 10**-5) self.assertLess(mca1_live_time - 11, 10**-5) mca0_elapsed_time = self.sfh5["/1.1/instrument/mca_0/elapsed_time"] mca1_elapsed_time = self.sfh5["/1.1/instrument/mca_1/elapsed_time"] self.assertLess(mca0_elapsed_time - 345.6, 10**-5) self.assertLess(mca1_elapsed_time - 12, 10**-5) sftext_no_cols = r"""#F C:/DATA\test.mca #D Thu Jul 7 08:40:19 2016 #S 1 31oct98.dat 22.1 If4 #D Thu Jul 7 08:40:19 2016 #C no data cols, one mca analyser, single spectrum #@MCA %16C #@CHANN 151 29 29 1 #@CALIB 0 2 0 @A 789 784 788 814 847 862 880 904 925 955 987 1015 1031 1070 1111 1139 \ 1203 1236 1290 1392 1492 1558 1688 1813 1977 2119 2346 2699 3121 3542 4102 4970 \ 6071 7611 10426 16188 28266 40348 50539 55555 56162 54162 47102 35718 24588 17034 12994 11444 \ 11808 13461 15687 18885 23827 31578 41999 49556 58084 59415 59456 55698 44525 28219 17680 12881 \ 9518 7415 6155 5246 4646 3978 3612 3299 3020 2761 2670 2472 2500 2310 2286 2106 \ 1989 1890 1782 1655 1421 1293 1135 990 879 757 672 618 532 488 445 424 \ 414 373 351 325 307 284 270 247 228 213 199 187 183 176 164 156 \ 153 140 142 130 118 118 103 101 97 86 90 86 87 81 75 82 \ 80 76 77 75 76 77 62 69 74 60 65 68 65 58 63 64 \ 63 59 60 56 57 60 55 #S 2 31oct98.dat 22.1 If4 #D Thu Jul 7 08:40:19 2016 #C no data cols, one mca analyser, multiple spectra #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #@CTIME 123.4 234.5 345.6 @A 0 1 2 @A 10 9 8 @A 1 1 1.1 @A 3.1 4 5 @A 7 6 5 @A 1 1 1 @A 6 7.7 8 @A 4 3 2 @A 1 1 1 #S 3 31oct98.dat 22.1 If4 #D Thu Jul 7 08:40:19 2016 #C no data cols, 3 mca analysers, multiple spectra #@MCADEV 1 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #@CTIME 123.4 234.5 345.6 #@MCADEV 2 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #@CTIME 123.4 234.5 345.6 #@MCADEV 3 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #@CTIME 123.4 234.5 345.6 @A 0 1 2 @A 10 9 8 @A 1 1 1.1 @A 3.1 4 5 @A 7 6 5 @A 1 1 1 @A 6 7.7 8 @A 4 3 2 @A 1 1 1 """ class TestSpecH5NoDataCols(unittest.TestCase): """Test reading SPEC files with only MCA data""" @classmethod def setUpClass(cls): fd, cls.fname = tempfile.mkstemp() if sys.version < '3.0': os.write(fd, sftext_no_cols) else: os.write(fd, bytes(sftext_no_cols, 'ascii')) os.close(fd) @classmethod def tearDownClass(cls): os.unlink(cls.fname) def setUp(self): self.sfh5 = SpecH5(self.fname) def tearDown(self): # fix Win32 permission error when deleting temp file del self.sfh5 gc.collect() def testScan1(self): # 1.1: single analyser, single spectrum, 151 channels self.assertIn("mca_0", self.sfh5["1.1/instrument/"]) self.assertEqual(self.sfh5["1.1/instrument/mca_0/data"].shape, (1, 151)) self.assertNotIn("mca_1", self.sfh5["1.1/instrument/"]) def testScan2(self): # 2.1: single analyser, 9 spectra, 3 channels self.assertIn("mca_0", self.sfh5["2.1/instrument/"]) self.assertEqual(self.sfh5["2.1/instrument/mca_0/data"].shape, (9, 3)) self.assertNotIn("mca_1", self.sfh5["2.1/instrument/"]) def testScan3(self): # 3.1: 3 analysers, 3 spectra/analyser, 3 channels for i in range(3): self.assertIn("mca_%d" % i, self.sfh5["3.1/instrument/"]) self.assertEqual( self.sfh5["3.1/instrument/mca_%d/data" % i].shape, (3, 3)) self.assertNotIn("mca_3", self.sfh5["3.1/instrument/"]) sf_text_slash = r"""#F /data/id09/archive/logspecfiles/laue/2016/scan_231_laue_16-11-29.dat #D Sat Dec 10 22:20:59 2016 #O0 Pslit/HGap MRTSlit%UP #S 1 laue_16-11-29.log 231.1 PD3/A #D Sat Dec 10 22:20:59 2016 #P0 180.005 -0.66875 #N 2 #L GONY/mm PD3%A -2.015 5.250424e-05 -2.01 5.30798e-05 -2.005 5.281903e-05 -2 5.220436e-05 """ class TestSpecH5SlashInLabels(unittest.TestCase): """Test reading SPEC files with labels containing a / character The / character must be substituted with a % """ @classmethod def setUpClass(cls): fd, cls.fname = tempfile.mkstemp() if sys.version < '3.0': os.write(fd, sf_text_slash) else: os.write(fd, bytes(sf_text_slash, 'ascii')) os.close(fd) @classmethod def tearDownClass(cls): os.unlink(cls.fname) def setUp(self): self.sfh5 = SpecH5(self.fname) def tearDown(self): # fix Win32 permission error when deleting temp file del self.sfh5 gc.collect() def testLabels(self): """Ensure `/` is substituted with `%` and ensure legitimate `%` in names are still working""" self.assertEqual(list(self.sfh5["1.1/measurement/"].keys()), ["GONY%mm", "PD3%A"]) # substituted "%" self.assertIn("GONY%mm", self.sfh5["1.1/measurement/"]) self.assertNotIn("GONY/mm", self.sfh5["1.1/measurement/"]) self.assertAlmostEqual(self.sfh5["1.1/measurement/GONY%mm"][0], -2.015, places=4) # legitimate "%" self.assertIn("PD3%A", self.sfh5["1.1/measurement/"]) def testMotors(self): """Ensure `/` is substituted with `%` and ensure legitimate `%` in names are still working""" self.assertEqual(list(self.sfh5["1.1/instrument/positioners"].keys()), ["Pslit%HGap", "MRTSlit%UP"]) # substituted "%" self.assertIn("Pslit%HGap", self.sfh5["1.1/instrument/positioners"]) self.assertNotIn("Pslit/HGap", self.sfh5["1.1/instrument/positioners"]) self.assertAlmostEqual( self.sfh5["1.1/instrument/positioners/Pslit%HGap"], 180.005, places=4) # legitimate "%" self.assertIn("MRTSlit%UP", self.sfh5["1.1/instrument/positioners"]) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecH5)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecDate)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecH5MultiMca)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecH5NoDataCols)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestSpecH5SlashInLabels)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_commonh5.py0000644023630100076410000002470313202530432020644 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for commonh5 wrapper""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "21/09/2017" import logging import numpy import unittest import tempfile import shutil _logger = logging.getLogger(__name__) import silx.io import silx.io.utils try: import h5py except ImportError: h5py = None try: from .. import commonh5 except ImportError: commonh5 = None class TestCommonFeatures(unittest.TestCase): """Test common features supported by h5py and our implementation.""" @classmethod def createFile(cls): return None @classmethod def setUpClass(cls): # Set to None cause create_resource can raise an excpetion cls.h5 = None cls.h5 = cls.create_resource() if cls.h5 is None: raise unittest.SkipTest("File not created") @classmethod def create_resource(cls): """Must be implemented""" return None @classmethod def tearDownClass(cls): cls.h5 = None def test_file(self): node = self.h5 self.assertTrue(silx.io.is_file(node)) self.assertTrue(silx.io.is_group(node)) self.assertFalse(silx.io.is_dataset(node)) self.assertEqual(len(node.attrs), 0) def test_group(self): node = self.h5["group"] self.assertFalse(silx.io.is_file(node)) self.assertTrue(silx.io.is_group(node)) self.assertFalse(silx.io.is_dataset(node)) self.assertEqual(len(node.attrs), 0) if h5py is not None: class_ = self.h5.get("group", getclass=True) classlink = self.h5.get("group", getlink=True, getclass=True) self.assertEqual(class_, h5py.Group) self.assertEqual(classlink, h5py.HardLink) def test_dataset(self): node = self.h5["group/dataset"] self.assertFalse(silx.io.is_file(node)) self.assertFalse(silx.io.is_group(node)) self.assertTrue(silx.io.is_dataset(node)) self.assertEqual(len(node.attrs), 0) if h5py is not None: class_ = self.h5.get("group/dataset", getclass=True) classlink = self.h5.get("group/dataset", getlink=True, getclass=True) self.assertEqual(class_, h5py.Dataset) self.assertEqual(classlink, h5py.HardLink) def test_soft_link(self): node = self.h5["link/soft_link"] self.assertEqual(node.name, "/link/soft_link") if h5py is not None: class_ = self.h5.get("link/soft_link", getclass=True) link = self.h5.get("link/soft_link", getlink=True) classlink = self.h5.get("link/soft_link", getlink=True, getclass=True) self.assertEqual(class_, h5py.Dataset) self.assertTrue(isinstance(link, (h5py.SoftLink, commonh5.SoftLink))) self.assertTrue(silx.io.utils.is_softlink(link)) self.assertEqual(classlink, h5py.SoftLink) def test_external_link(self): node = self.h5["link/external_link"] self.assertEqual(node.name, "/target/dataset") if h5py is not None: class_ = self.h5.get("link/external_link", getclass=True) classlink = self.h5.get("link/external_link", getlink=True, getclass=True) self.assertEqual(class_, h5py.Dataset) self.assertEqual(classlink, h5py.ExternalLink) def test_external_link_to_link(self): node = self.h5["link/external_link_to_link"] self.assertEqual(node.name, "/target/link") if h5py is not None: class_ = self.h5.get("link/external_link_to_link", getclass=True) classlink = self.h5.get("link/external_link_to_link", getlink=True, getclass=True) self.assertEqual(class_, h5py.Dataset) self.assertEqual(classlink, h5py.ExternalLink) def test_create_groups(self): c = self.h5.create_group(self.id() + "/a/b/c") d = c.create_group("/" + self.id() + "/a/b/d") self.assertRaises(ValueError, self.h5.create_group, self.id() + "/a/b/d") self.assertEqual(c.name, "/" + self.id() + "/a/b/c") self.assertEqual(d.name, "/" + self.id() + "/a/b/d") def test_setitem_python_object_dataset(self): group = self.h5.create_group(self.id()) group["a"] = 10 self.assertEqual(group["a"].dtype.kind, "i") def test_setitem_numpy_dataset(self): group = self.h5.create_group(self.id()) group["a"] = numpy.array([10, 20, 30]) self.assertEqual(group["a"].dtype.kind, "i") self.assertEqual(group["a"].shape, (3,)) def test_setitem_link(self): group = self.h5.create_group(self.id()) group["a"] = 10 group["b"] = group["a"] self.assertEqual(group["b"].dtype.kind, "i") def test_setitem_dataset_is_sub_group(self): self.h5[self.id() + "/a"] = 10 class TestCommonFeatures_h5py(TestCommonFeatures): """Check if h5py is compliant with what we expect.""" @classmethod def create_resource(cls): cls.tmp_dir = tempfile.mkdtemp() externalh5 = h5py.File(cls.tmp_dir + "/external.h5", mode="w") externalh5["target/dataset"] = 50 externalh5["target/link"] = h5py.SoftLink("/target/dataset") externalh5.close() h5 = h5py.File(cls.tmp_dir + "/base.h5", mode="w") h5["group/dataset"] = 50 h5["link/soft_link"] = h5py.SoftLink("/group/dataset") h5["link/external_link"] = h5py.ExternalLink("external.h5", "/target/dataset") h5["link/external_link_to_link"] = h5py.ExternalLink("external.h5", "/target/link") return h5 @classmethod def tearDownClass(cls): super(TestCommonFeatures_h5py, cls).tearDownClass() if hasattr(cls, "tmp_dir") and cls.tmp_dir is not None: shutil.rmtree(cls.tmp_dir) class TestCommonFeatures_commonH5(TestCommonFeatures): """Check if commonh5 is compliant with h5py.""" @classmethod def create_resource(cls): h5 = commonh5.File("base.h5", "w") h5.create_group("group").create_dataset("dataset", data=numpy.int32(50)) link = h5.create_group("link") link.add_node(commonh5.SoftLink("soft_link", "/group/dataset")) return h5 def test_external_link(self): # not applicable pass def test_external_link_to_link(self): # not applicable pass class TestSpecificCommonH5(unittest.TestCase): """Test specific features from commonh5. Test of shared features should be done by TestCommonFeatures.""" def setUp(self): if h5py is None: self.skipTest("h5py is needed") if commonh5 is None: self.skipTest("silx.io.commonh5 is needed") def test_node_attrs(self): node = commonh5.Node("Foo", attrs={"a": 1}) self.assertEqual(node.attrs["a"], 1) node.attrs["b"] = 8 self.assertEqual(node.attrs["b"], 8) node.attrs["b"] = 2 self.assertEqual(node.attrs["b"], 2) def test_node_readonly_attrs(self): f = commonh5.File(name="Foo", mode="r") node = commonh5.Node("Foo", attrs={"a": 1}) node.attrs["b"] = 8 f.add_node(node) self.assertEqual(node.attrs["b"], 8) try: node.attrs["b"] = 1 self.fail() except RuntimeError: pass def test_create_dataset(self): f = commonh5.File(name="Foo", mode="w") node = f.create_dataset("foo", data=numpy.array([1])) self.assertIs(node.parent, f) self.assertIs(f["foo"], node) def test_create_group(self): f = commonh5.File(name="Foo", mode="w") node = f.create_group("foo") self.assertIs(node.parent, f) self.assertIs(f["foo"], node) def test_readonly_create_dataset(self): f = commonh5.File(name="Foo", mode="r") try: f.create_dataset("foo", data=numpy.array([1])) self.fail() except RuntimeError: pass def test_readonly_create_group(self): f = commonh5.File(name="Foo", mode="r") try: f.create_group("foo") self.fail() except RuntimeError: pass def test_create_unicode_dataset(self): f = commonh5.File(name="Foo", mode="w") try: f.create_dataset("foo", data=numpy.array(u"aaaa")) self.fail() except TypeError: pass def test_setitem_dataset(self): self.h5 = commonh5.File(name="Foo", mode="w") group = self.h5.create_group(self.id()) group["a"] = commonh5.Dataset(None, data=numpy.array(10)) self.assertEqual(group["a"].dtype.kind, "i") def test_setitem_explicit_link(self): self.h5 = commonh5.File(name="Foo", mode="w") group = self.h5.create_group(self.id()) group["a"] = 10 group["b"] = commonh5.SoftLink(None, path="/" + self.id() + "/a") self.assertEqual(group["b"].dtype.kind, "i") def suite(): loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loadTests(TestCommonFeatures_h5py)) test_suite.addTest(loadTests(TestCommonFeatures_commonH5)) test_suite.addTest(loadTests(TestSpecificCommonH5)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_fabioh5.py0000644023630100076410000004205613202530432020435 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for fabioh5 wrapper""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "04/10/2017" import os import sys import logging import numpy import unittest import tempfile import shutil _logger = logging.getLogger(__name__) try: import fabio except ImportError: fabio = None try: import h5py except ImportError: h5py = None if fabio is not None and h5py is not None: from .. import fabioh5 from .. import commonh5 class TestFabioH5(unittest.TestCase): def setUp(self): if fabio is None: self.skipTest("fabio is needed") if h5py is None: self.skipTest("h5py is needed") header = { "integer": "-100", "float": "1.0", "string": "hi!", "list_integer": "100 50 0", "list_float": "1.0 2.0 3.5", "string_looks_like_list": "2000 hi!", } data = numpy.array([[10, 11], [12, 13], [14, 15]], dtype=numpy.int64) self.fabio_image = fabio.numpyimage.NumpyImage(data, header) self.h5_image = fabioh5.File(fabio_image=self.fabio_image) def test_main_groups(self): self.assertEquals(self.h5_image.h5py_class, h5py.File) self.assertEquals(self.h5_image["/"].h5py_class, h5py.File) self.assertEquals(self.h5_image["/scan_0"].h5py_class, h5py.Group) self.assertEquals(self.h5_image["/scan_0/instrument"].h5py_class, h5py.Group) self.assertEquals(self.h5_image["/scan_0/measurement"].h5py_class, h5py.Group) def test_wrong_path_syntax(self): # result tested with a default h5py file self.assertRaises(ValueError, lambda: self.h5_image[""]) def test_wrong_root_name(self): # result tested with a default h5py file self.assertRaises(KeyError, lambda: self.h5_image["/foo"]) def test_wrong_root_path(self): # result tested with a default h5py file self.assertRaises(KeyError, lambda: self.h5_image["/foo/foo"]) def test_wrong_name(self): # result tested with a default h5py file self.assertRaises(KeyError, lambda: self.h5_image["foo"]) def test_wrong_path(self): # result tested with a default h5py file self.assertRaises(KeyError, lambda: self.h5_image["foo/foo"]) def test_single_frame(self): data = numpy.arange(2 * 3) data.shape = 2, 3 fabio_image = fabio.edfimage.edfimage(data=data) h5_image = fabioh5.File(fabio_image=fabio_image) dataset = h5_image["/scan_0/instrument/detector_0/data"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertTrue(isinstance(dataset[()], numpy.ndarray)) self.assertEquals(dataset.dtype.kind, "i") self.assertEquals(dataset.shape, (2, 3)) self.assertEquals(dataset[...][0, 0], 0) self.assertEquals(dataset.attrs["interpretation"], "image") def test_multi_frames(self): data = numpy.arange(2 * 3) data.shape = 2, 3 fabio_image = fabio.edfimage.edfimage(data=data) fabio_image.appendFrame(data=data) h5_image = fabioh5.File(fabio_image=fabio_image) dataset = h5_image["/scan_0/instrument/detector_0/data"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertTrue(isinstance(dataset[()], numpy.ndarray)) self.assertEquals(dataset.dtype.kind, "i") self.assertEquals(dataset.shape, (2, 2, 3)) self.assertEquals(dataset[...][0, 0, 0], 0) self.assertEquals(dataset.attrs["interpretation"], "image") def test_heterogeneous_frames(self): """Frames containing 2 images with different sizes and a cube""" data1 = numpy.arange(2 * 3) data1.shape = 2, 3 data2 = numpy.arange(2 * 5) data2.shape = 2, 5 data3 = numpy.arange(2 * 5 * 1) data3.shape = 2, 5, 1 fabio_image = fabio.edfimage.edfimage(data=data1) fabio_image.appendFrame(data=data2) fabio_image.appendFrame(data=data3) h5_image = fabioh5.File(fabio_image=fabio_image) dataset = h5_image["/scan_0/instrument/detector_0/data"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertTrue(isinstance(dataset[()], numpy.ndarray)) self.assertEquals(dataset.dtype.kind, "i") self.assertEquals(dataset.shape, (3, 2, 5, 1)) self.assertEquals(dataset[...][0, 0, 0], 0) self.assertEquals(dataset.attrs["interpretation"], "image") def test_single_3d_frame(self): """Image source contains a cube""" data = numpy.arange(2 * 3 * 4) data.shape = 2, 3, 4 # Do not provide the data to the constructor to avoid slicing of the # data. In this way the result stay a cube, and not a multi-frame fabio_image = fabio.edfimage.edfimage() fabio_image.data = data h5_image = fabioh5.File(fabio_image=fabio_image) dataset = h5_image["/scan_0/instrument/detector_0/data"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertTrue(isinstance(dataset[()], numpy.ndarray)) self.assertEquals(dataset.dtype.kind, "i") self.assertEquals(dataset.shape, (2, 3, 4)) self.assertEquals(dataset[...][0, 0, 0], 0) self.assertEquals(dataset.attrs["interpretation"], "image") def test_metadata_int(self): dataset = self.h5_image["/scan_0/instrument/detector_0/others/integer"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertEquals(dataset[()], -100) self.assertEquals(dataset.dtype.kind, "i") self.assertEquals(dataset.shape, (1,)) def test_metadata_float(self): dataset = self.h5_image["/scan_0/instrument/detector_0/others/float"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertEquals(dataset[()], 1.0) self.assertEquals(dataset.dtype.kind, "f") self.assertEquals(dataset.shape, (1,)) def test_metadata_string(self): dataset = self.h5_image["/scan_0/instrument/detector_0/others/string"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertEquals(dataset[()], numpy.string_("hi!")) self.assertEquals(dataset.dtype.type, numpy.string_) self.assertEquals(dataset.shape, (1,)) def test_metadata_list_integer(self): dataset = self.h5_image["/scan_0/instrument/detector_0/others/list_integer"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertEquals(dataset.dtype.kind, "u") self.assertEquals(dataset.shape, (1, 3)) self.assertEquals(dataset[0, 0], 100) self.assertEquals(dataset[0, 1], 50) def test_metadata_list_float(self): dataset = self.h5_image["/scan_0/instrument/detector_0/others/list_float"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertEquals(dataset.dtype.kind, "f") self.assertEquals(dataset.shape, (1, 3)) self.assertEquals(dataset[0, 0], 1.0) self.assertEquals(dataset[0, 1], 2.0) def test_metadata_list_looks_like_list(self): dataset = self.h5_image["/scan_0/instrument/detector_0/others/string_looks_like_list"] self.assertEquals(dataset.h5py_class, h5py.Dataset) self.assertEquals(dataset[()], numpy.string_("2000 hi!")) self.assertEquals(dataset.dtype.type, numpy.string_) self.assertEquals(dataset.shape, (1,)) def test_float_32(self): float_list = [u'1.2', u'1.3', u'1.4'] data = numpy.array([[0, 0], [0, 0]], dtype=numpy.int8) fabio_image = None for float_item in float_list: header = {"float_item": float_item} if fabio_image is None: fabio_image = fabio.edfimage.EdfImage(data=data, header=header) else: fabio_image.appendFrame(data=data, header=header) h5_image = fabioh5.File(fabio_image=fabio_image) data = h5_image["/scan_0/instrument/detector_0/others/float_item"] # There is no equality between items self.assertEqual(len(data), len(set(data))) # At worst a float32 self.assertIn(data.dtype.char, ['d', 'f']) self.assertLessEqual(data.dtype.itemsize, 32 / 8) def test_float_64(self): float_list = [ u'1469117129.082226', u'1469117136.684986', u'1469117144.312749', u'1469117151.892507', u'1469117159.474265', u'1469117167.100027', u'1469117174.815799', u'1469117182.437561', u'1469117190.094326', u'1469117197.721089'] data = numpy.array([[0, 0], [0, 0]], dtype=numpy.int8) fabio_image = None for float_item in float_list: header = {"time_of_day": float_item} if fabio_image is None: fabio_image = fabio.edfimage.EdfImage(data=data, header=header) else: fabio_image.appendFrame(data=data, header=header) h5_image = fabioh5.File(fabio_image=fabio_image) data = h5_image["/scan_0/instrument/detector_0/others/time_of_day"] # There is no equality between items self.assertEqual(len(data), len(set(data))) # At least a float64 self.assertIn(data.dtype.char, ['d', 'f']) self.assertGreaterEqual(data.dtype.itemsize, 64 / 8) def test_ub_matrix(self): """Data from mediapix.edf""" header = {} header["UB_mne"] = 'UB0 UB1 UB2 UB3 UB4 UB5 UB6 UB7 UB8' header["UB_pos"] = '1.99593e-16 2.73682e-16 -1.54 -1.08894 1.08894 1.6083e-16 1.08894 1.08894 9.28619e-17' header["sample_mne"] = 'U0 U1 U2 U3 U4 U5' header["sample_pos"] = '4.08 4.08 4.08 90 90 90' data = numpy.array([[0, 0], [0, 0]], dtype=numpy.int8) fabio_image = fabio.edfimage.EdfImage(data=data, header=header) h5_image = fabioh5.File(fabio_image=fabio_image) sample = h5_image["/scan_0/sample"] self.assertIsNotNone(sample) self.assertEquals(sample.attrs["NXclass"], "NXsample") d = sample['unit_cell_abc'] expected = numpy.array([4.08, 4.08, 4.08]) self.assertIsNotNone(d) self.assertEquals(d.shape, (3, )) self.assertIn(d.dtype.char, ['d', 'f']) numpy.testing.assert_array_almost_equal(d[...], expected) d = sample['unit_cell_alphabetagamma'] expected = numpy.array([90.0, 90.0, 90.0]) self.assertIsNotNone(d) self.assertEquals(d.shape, (3, )) self.assertIn(d.dtype.char, ['d', 'f']) numpy.testing.assert_array_almost_equal(d[...], expected) d = sample['ub_matrix'] expected = numpy.array([[[1.99593e-16, 2.73682e-16, -1.54], [-1.08894, 1.08894, 1.6083e-16], [1.08894, 1.08894, 9.28619e-17]]]) self.assertIsNotNone(d) self.assertEquals(d.shape, (1, 3, 3)) self.assertIn(d.dtype.char, ['d', 'f']) numpy.testing.assert_array_almost_equal(d[...], expected) def test_get_api(self): result = self.h5_image.get("scan_0", getclass=True, getlink=True) self.assertIs(result, h5py.HardLink) result = self.h5_image.get("scan_0", getclass=False, getlink=True) self.assertIsInstance(result, h5py.HardLink) result = self.h5_image.get("scan_0", getclass=True, getlink=False) self.assertIs(result, h5py.Group) result = self.h5_image.get("scan_0", getclass=False, getlink=False) self.assertIsInstance(result, commonh5.Group) def test_detector_link(self): detector1 = self.h5_image["/scan_0/instrument/detector_0"] detector2 = self.h5_image["/scan_0/measurement/image_0/info"] self.assertIsNot(detector1, detector2) self.assertEqual(list(detector1.items()), list(detector2.items())) self.assertEqual(self.h5_image.get(detector2.name, getlink=True).path, detector1.name) def test_detector_data_link(self): data1 = self.h5_image["/scan_0/instrument/detector_0/data"] data2 = self.h5_image["/scan_0/measurement/image_0/data"] self.assertIsNot(data1, data2) self.assertIs(data1._get_data(), data2._get_data()) self.assertEqual(self.h5_image.get(data2.name, getlink=True).path, data1.name) def test_dirty_header(self): """Test that it does not fail""" try: header = {} header["foo"] = b'abc' data = numpy.array([[0, 0], [0, 0]], dtype=numpy.int8) fabio_image = fabio.edfimage.edfimage(data=data, header=header) header = {} header["foo"] = b'a\x90bc\xFE' fabio_image.appendFrame(data=data, header=header) except Exception as e: _logger.error(e.args[0]) _logger.debug("Backtrace", exc_info=True) self.skipTest("fabio do not allow to create the resource") h5_image = fabioh5.File(fabio_image=fabio_image) scan_header_path = "/scan_0/instrument/file/scan_header" self.assertIn(scan_header_path, h5_image) data = h5_image[scan_header_path] self.assertIsInstance(data[...], numpy.ndarray) def test_unicode_header(self): """Test that it does not fail""" try: header = {} header["foo"] = b'abc' data = numpy.array([[0, 0], [0, 0]], dtype=numpy.int8) fabio_image = fabio.edfimage.edfimage(data=data, header=header) header = {} header["foo"] = u'abc\u2764' fabio_image.appendFrame(data=data, header=header) except Exception as e: _logger.error(e.args[0]) _logger.debug("Backtrace", exc_info=True) self.skipTest("fabio do not allow to create the resource") h5_image = fabioh5.File(fabio_image=fabio_image) scan_header_path = "/scan_0/instrument/file/scan_header" self.assertIn(scan_header_path, h5_image) data = h5_image[scan_header_path] self.assertIsInstance(data[...], numpy.ndarray) class TestFabioH5WithEdf(unittest.TestCase): @classmethod def setUpClass(cls): if fabio is None: raise unittest.SkipTest("fabio is needed") if h5py is None: raise unittest.SkipTest("h5py is needed") cls.tmp_directory = tempfile.mkdtemp() cls.edf_filename = os.path.join(cls.tmp_directory, "test.edf") header = { "integer": "-100", "float": "1.0", "string": "hi!", "list_integer": "100 50 0", "list_float": "1.0 2.0 3.5", "string_looks_like_list": "2000 hi!", } data = numpy.array([[10, 11], [12, 13], [14, 15]], dtype=numpy.int64) fabio_image = fabio.edfimage.edfimage(data, header) fabio_image.write(cls.edf_filename) cls.fabio_image = fabio.open(cls.edf_filename) cls.h5_image = fabioh5.File(fabio_image=cls.fabio_image) @classmethod def tearDownClass(cls): cls.fabio_image = None cls.h5_image = None if sys.platform == "win32" and fabio is not None: # gc collect is needed to close a file descriptor # opened by fabio and not released. # https://github.com/silx-kit/fabio/issues/167 import gc gc.collect() shutil.rmtree(cls.tmp_directory) def test_reserved_format_metadata(self): if fabio.hexversion < 327920: # 0.5.0 final self.skipTest("fabio >= 0.5.0 final is needed") # The EDF contains reserved keys in the header self.assertIn("HeaderID", self.fabio_image.header) # We do not expose them in FabioH5 self.assertNotIn("/scan_0/instrument/detector_0/others/HeaderID", self.h5_image) def suite(): loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loadTests(TestFabioH5)) test_suite.addTest(loadTests(TestFabioH5WithEdf)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/test/test_dictdump.py0000644023630100076410000002211313202530306020721 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for dicttoh5 module""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "10/02/2017" from collections import OrderedDict import numpy import os import tempfile import unittest try: import h5py h5py_missing = False except ImportError: h5py_missing = True from collections import defaultdict from ..configdict import ConfigDict from ..dictdump import dicttoh5, dicttojson, dicttoini, dump from ..dictdump import h5todict, load def tree(): """Tree data structure as a recursive nested dictionary""" return defaultdict(tree) city_attrs = tree() city_attrs["Europe"]["France"]["Grenoble"]["area"] = "18.44 km2" city_attrs["Europe"]["France"]["Grenoble"]["inhabitants"] = 160215 city_attrs["Europe"]["France"]["Grenoble"]["coordinates"] = [45.1830, 5.7196] city_attrs["Europe"]["France"]["Tourcoing"]["area"] @unittest.skipIf(h5py_missing, "Could not import h5py") class TestDictToH5(unittest.TestCase): def setUp(self): self.tempdir = tempfile.mkdtemp() self.h5_fname = os.path.join(self.tempdir, "cityattrs.h5") def tearDown(self): os.unlink(self.h5_fname) os.rmdir(self.tempdir) def testH5CityAttrs(self): filters = {'shuffle': True, 'fletcher32': True} dicttoh5(city_attrs, self.h5_fname, h5path='/city attributes', mode="w", create_dataset_args=filters) h5f = h5py.File(self.h5_fname) self.assertIn("Tourcoing/area", h5f["/city attributes/Europe/France"]) ds = h5f["/city attributes/Europe/France/Grenoble/inhabitants"] self.assertEqual(ds[...], 160215) # filters only apply to datasets that are not scalars (shape != () ) ds = h5f["/city attributes/Europe/France/Grenoble/coordinates"] #self.assertEqual(ds.compression, "gzip") self.assertTrue(ds.fletcher32) self.assertTrue(ds.shuffle) h5f.close() ddict = load(self.h5_fname, fmat="hdf5") self.assertAlmostEqual( min(ddict["city attributes"]["Europe"]["France"]["Grenoble"]["coordinates"]), 5.7196) @unittest.skipIf(h5py_missing, "Could not import h5py") class TestH5ToDict(unittest.TestCase): def setUp(self): self.tempdir = tempfile.mkdtemp() self.h5_fname = os.path.join(self.tempdir, "cityattrs.h5") dicttoh5(city_attrs, self.h5_fname) def tearDown(self): os.unlink(self.h5_fname) os.rmdir(self.tempdir) def testExcludeNames(self): ddict = h5todict(self.h5_fname, path="/Europe/France", exclude_names=["ourcoing", "inhab", "toto"]) self.assertNotIn("Tourcoing", ddict) self.assertIn("Grenoble", ddict) self.assertNotIn("inhabitants", ddict["Grenoble"]) self.assertIn("coordinates", ddict["Grenoble"]) self.assertIn("area", ddict["Grenoble"]) class TestDictToJson(unittest.TestCase): def setUp(self): self.dir_path = tempfile.mkdtemp() self.json_fname = os.path.join(self.dir_path, "cityattrs.json") def tearDown(self): os.unlink(self.json_fname) os.rmdir(self.dir_path) def testJsonCityAttrs(self): self.json_fname = os.path.join(self.dir_path, "cityattrs.json") dicttojson(city_attrs, self.json_fname, indent=3) with open(self.json_fname, "r") as f: json_content = f.read() self.assertIn('"inhabitants": 160215', json_content) class TestDictToIni(unittest.TestCase): def setUp(self): self.dir_path = tempfile.mkdtemp() self.ini_fname = os.path.join(self.dir_path, "test.ini") def tearDown(self): os.unlink(self.ini_fname) os.rmdir(self.dir_path) def testConfigDictIO(self): """Ensure values and types of data is preserved when dictionary is written to file and read back.""" testdict = { 'simple_types': { 'float': 1.0, 'int': 1, 'percent string': '5 % is too much', 'backslash string': 'i can use \\', 'empty_string': '', 'nonestring': 'None', 'nonetype': None, 'interpstring': 'interpolation: %(percent string)s', }, 'containers': { 'list': [-1, 'string', 3.0, False, None], 'array': numpy.array([1.0, 2.0, 3.0]), 'dict': { 'key1': 'Hello World', 'key2': 2.0, } } } dump(testdict, self.ini_fname) #read the data back readdict = load(self.ini_fname) testdictkeys = list(testdict.keys()) readkeys = list(readdict.keys()) self.assertTrue(len(readkeys) == len(testdictkeys), "Number of read keys not equal") self.assertEqual(readdict['simple_types']["interpstring"], "interpolation: 5 % is too much") testdict['simple_types']["interpstring"] = "interpolation: 5 % is too much" for key in testdict["simple_types"]: original = testdict['simple_types'][key] read = readdict['simple_types'][key] self.assertEqual(read, original, "Read <%s> instead of <%s>" % (read, original)) for key in testdict["containers"]: original = testdict["containers"][key] read = readdict["containers"][key] if key == 'array': self.assertEqual(read.all(), original.all(), "Read <%s> instead of <%s>" % (read, original)) else: self.assertEqual(read, original, "Read <%s> instead of <%s>" % (read, original)) def testConfigDictOrder(self): """Ensure order is preserved when dictionary is written to file and read back.""" test_dict = {'banana': 3, 'apple': 4, 'pear': 1, 'orange': 2} # sort by key test_ordered_dict1 = OrderedDict(sorted(test_dict.items(), key=lambda t: t[0])) # sort by value test_ordered_dict2 = OrderedDict(sorted(test_dict.items(), key=lambda t: t[1])) # add the two ordered dict as sections of a third ordered dict test_ordered_dict3 = OrderedDict() test_ordered_dict3["section1"] = test_ordered_dict1 test_ordered_dict3["section2"] = test_ordered_dict2 # write to ini and read back as a ConfigDict (inherits OrderedDict) dump(test_ordered_dict3, self.ini_fname, fmat="ini") read_instance = ConfigDict() read_instance.read(self.ini_fname) # loop through original and read-back dictionaries, # test identical order for key/value pairs for orig_key, section in zip(test_ordered_dict3.keys(), read_instance.keys()): self.assertEqual(orig_key, section) for orig_key2, read_key in zip(test_ordered_dict3[section].keys(), read_instance[section].keys()): self.assertEqual(orig_key2, read_key) self.assertEqual(test_ordered_dict3[section][orig_key2], read_instance[section][read_key]) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestDictToIni)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestDictToH5)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestDictToJson)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestH5ToDict)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/io/nxdata.py0000644023630100076410000005441513202530432016363 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module provides a collection of functions to work with h5py-like groups following the NeXus *NXdata* specification. See http://download.nexusformat.org/sphinx/classes/base_classes/NXdata.html """ import logging import numpy from .utils import is_dataset, is_group from silx.third_party import six _logger = logging.getLogger(__name__) _INTERPDIM = {"scalar": 0, "spectrum": 1, "image": 2, # "rgba-image": 3, "hsla-image": 3, "cmyk-image": 3, # TODO "vertex": 1} # 3D scatter: 1D signal + 3 axes (x, y, z) of same legth """Number of signal dimensions associated to each possible @interpretation attribute. """ def _nxdata_warning(msg): """Log a warning message prefixed with *"NXdata warning: "* :param str msg: Warning message """ _logger.warning("NXdata warning: " + msg) def get_attr_as_string(item, attr_name, default=None): """Return item.attrs[attr_name]. If it is a byte-string or an array of byte-strings, return it as a default python string. For Python 3, this involves a coercion from bytes into unicode. For Python 2, there is nothing special to do, as strings are bytes. :param item: Group or dataset :param attr_name: Attribute name :return: item.attrs[attr_name] """ attr = item.attrs.get(attr_name, default) if six.PY2: return attr if six.PY3: if hasattr(attr, "decode"): # byte-string return attr.decode("utf-8") elif isinstance(attr, numpy.ndarray) and hasattr(attr[0], "decode"): # array of byte-strings return [element.decode("utf-8") for element in attr] else: # attr is not a byte-string return attr def is_valid_nxdata(group): # noqa """Check if a h5py group is a **valid** NX_data group. If the group does not have attribute *@NX_class=NXdata*, this function simply returns *False*. Else, warning messages are logged to troubleshoot malformed NXdata groups prior to returning *False*. :param group: h5py-like group :return: True if this NXdata group is valid. :raise: TypeError if group is not a h5py group, a spech5 group, or a fabioh5 group """ if not is_group(group): raise TypeError("group must be a h5py-like group") if get_attr_as_string(group, "NX_class") != "NXdata": return False if "signal" not in group.attrs: _logger.warning("NXdata group does not define a signal attr.") return False signal_name = get_attr_as_string(group, "signal") if signal_name not in group or not is_dataset(group[signal_name]): _logger.warning( "Cannot find signal dataset '%s' in NXdata group" % signal_name) return False ndim = len(group[signal_name].shape) if "axes" in group.attrs: axes_names = get_attr_as_string(group, "axes") if isinstance(axes_names, str): axes_names = [axes_names] if 1 < ndim < len(axes_names): # ndim = 1 and several axes could be a scatter _nxdata_warning( "More @axes defined than there are " + "signal dimensions: " + "%d axes, %d dimensions." % (len(axes_names), ndim)) return False # case of less axes than dimensions: number of axes must match # dimensionality defined by @interpretation if ndim > len(axes_names): interpretation = get_attr_as_string(group[signal_name], "interpretation") if interpretation is None: interpretation = get_attr_as_string(group, "interpretation") if interpretation is None: _nxdata_warning("No @interpretation and not enough" + " @axes defined.") return False if interpretation not in _INTERPDIM: _nxdata_warning("Unrecognized @interpretation=" + interpretation + " for data with wrong number of defined @axes.") return False if len(axes_names) != _INTERPDIM[interpretation]: _nxdata_warning( "%d-D signal with @interpretation=%s " % (ndim, interpretation) + "must define %d or %d axes." % (ndim, _INTERPDIM[interpretation])) return False # Test consistency of @uncertainties uncertainties_names = get_attr_as_string(group, "uncertainties") if uncertainties_names is None: uncertainties_names = get_attr_as_string(group[signal_name], "uncertainties") if isinstance(uncertainties_names, str): uncertainties_names = [uncertainties_names] if uncertainties_names is not None: if len(uncertainties_names) != len(axes_names): _nxdata_warning("@uncertainties does not define the same " + "number of fields than @axes") return False # Test individual axes is_scatter = True # true if all axes have the same size as the signal signal_size = 1 for dim in group[signal_name].shape: signal_size *= dim polynomial_axes_names = [] for i, axis_name in enumerate(axes_names): if axis_name == ".": continue if axis_name not in group or not is_dataset(group[axis_name]): _nxdata_warning("Could not find axis dataset '%s'" % axis_name) return False axis_size = 1 for dim in group[axis_name].shape: axis_size *= dim if len(group[axis_name].shape) != 1: # too me, it makes only sense to have a n-D axis if it's total # size is exactly the signal's size (weird n-d scatter) if axis_size != signal_size: _nxdata_warning("Axis %s is not a 1D dataset" % axis_name + " and its shape does not match the signal's shape") return False axis_len = axis_size else: # for a 1-d axis, fg_idx = group[axis_name].attrs.get("first_good", 0) lg_idx = group[axis_name].attrs.get("last_good", len(group[axis_name]) - 1) axis_len = lg_idx + 1 - fg_idx if axis_len != signal_size: if axis_len not in group[signal_name].shape + (1, 2): _nxdata_warning( "Axis %s number of elements does not " % axis_name + "correspond to the length of any signal dimension," " it does not appear to be a constant or a linear calibration," + " and this does not seem to be a scatter plot.") return False elif axis_len in (1, 2): polynomial_axes_names.append(axis_name) is_scatter = False else: if not is_scatter: _nxdata_warning( "Axis %s number of elements is equal " % axis_name + "to the length of the signal, but this does not seem" + " to be a scatter (other axes have different sizes)") return False # Test individual uncertainties errors_name = axis_name + "_errors" if errors_name not in group and uncertainties_names is not None: errors_name = uncertainties_names[i] if errors_name in group and axis_name not in polynomial_axes_names: if group[errors_name].shape != group[axis_name].shape: _nxdata_warning( "Errors '%s' does not have the same " % errors_name + "dimensions as axis '%s'." % axis_name) return False # test dimensions of errors associated with signal if "errors" in group and is_dataset(group["errors"]): if group["errors"].shape != group[signal_name].shape: _nxdata_warning("Dataset containing standard deviations must " + "have the same dimensions as the signal.") return False return True class NXdata(object): """ :param group: h5py-like group following the NeXus *NXdata* specification. """ def __init__(self, group): if not is_valid_nxdata(group): raise TypeError("group is not a valid NXdata class") super(NXdata, self).__init__() self._is_scatter = None self._axes = None self.group = group """h5py-like group object compliant with NeXus NXdata specification. """ self.signal = self.group[get_attr_as_string(self.group, "signal")] """Signal dataset in this NXdata group. """ # ndim will be available in very recent h5py versions only self.signal_ndim = getattr(self.signal, "ndim", len(self.signal.shape)) self.signal_is_0d = self.signal_ndim == 0 self.signal_is_1d = self.signal_ndim == 1 self.signal_is_2d = self.signal_ndim == 2 self.signal_is_3d = self.signal_ndim == 3 self.axes_names = [] """List of axes names in a NXdata group. This attribute is similar to :attr:`axes_dataset_names` except that if an axis dataset has a "@long_name" attribute, it will be used instead of the dataset name. """ # check if axis dataset defines @long_name for i, dsname in enumerate(self.axes_dataset_names): if dsname is not None and "long_name" in self.group[dsname].attrs: self.axes_names.append(get_attr_as_string(self.group[dsname], "long_name")) else: self.axes_names.append(dsname) # excludes scatters self.signal_is_1d = self.signal_is_1d and len(self.axes) <= 1 # excludes n-D scatters @property def interpretation(self): """*@interpretation* attribute associated with the *signal* dataset of the NXdata group. ``None`` if no interpretation attribute is present. The *interpretation* attribute provides information about the last dimensions of the signal. The allowed values are: - *"scalar"*: 0-D data to be plotted - *"spectrum"*: 1-D data to be plotted - *"image"*: 2-D data to be plotted - *"vertex"*: 3-D data to be plotted For example, a 3-D signal with interpretation *"spectrum"* should be considered to be a 2-D array of 1-D data. A 3-D signal with interpretation *"image"* should be interpreted as a 1-D array (a list) of 2-D images. An n-D array with interpretation *"image"* should be interpreted as an (n-2)-D array of images. A warning message is logged if the returned interpretation is not one of the allowed values, but no error is raised and the unknown interpretation is returned anyway. """ allowed_interpretations = [None, "scalar", "spectrum", "image", # "rgba-image", "hsla-image", "cmyk-image" # TODO "vertex"] interpretation = get_attr_as_string(self.signal, "interpretation") if interpretation is None: interpretation = get_attr_as_string(self.group, "interpretation") if interpretation not in allowed_interpretations: _logger.warning("Interpretation %s is not valid." % interpretation + " Valid values: " + ", ".join(allowed_interpretations)) return interpretation @property def axes(self): """List of the axes datasets. The list typically has as many elements as there are dimensions in the signal dataset, the exception being scatter plots which typically use a 1D signal and several 1D axes of the same size. If an axis dataset applies to several dimensions of the signal, it will be repeated in the list. If a dimension of the signal has no dimension scale (i.e. there is a "." in that position in the *@axes* array), `None` is inserted in the output list in its position. .. note:: In theory, the *@axes* attribute defines as many entries as there are dimensions in the signal. In such a case, there is no ambiguity. If this is not the case, this implementation relies on the existence of an *@interpretation* (*spectrum* or *image*) attribute in the *signal* dataset. .. note:: If an axis dataset defines attributes @first_good or @last_good, the output will be a numpy array resulting from slicing that axis to keep only the good index range: axis[first_good:last_good + 1] :rtype: list[Dataset or 1D array or None] """ if self._axes is not None: # use cache return self._axes ndims = len(self.signal.shape) axes_names = get_attr_as_string(self.group, "axes") interpretation = self.interpretation if axes_names is None: self._axes = [None for _i in range(ndims)] return self._axes if isinstance(axes_names, str): axes_names = [axes_names] if len(axes_names) == ndims: # axes is a list of strings, one axis per dim is explicitly defined axes = [None] * ndims for i, axis_n in enumerate(axes_names): if axis_n != ".": axes[i] = self.group[axis_n] elif interpretation is not None: # case of @interpretation attribute defined: we expect 1, 2 or 3 axes # corresponding to the 1, 2, or 3 last dimensions of the signal assert len(axes_names) == _INTERPDIM[interpretation] axes = [None] * (ndims - _INTERPDIM[interpretation]) for axis_n in axes_names: if axis_n != ".": axes.append(self.group[axis_n]) else: axes.append(None) else: # scatter axes = [] for axis_n in axes_names: if axis_n != ".": axes.append(self.group[axis_n]) else: axes.append(None) # keep only good range of axis data for i, axis in enumerate(axes): if axis is None: continue if "first_good" not in axis.attrs and "last_good" not in axis.attrs: continue fg_idx = axis.attrs.get("first_good", 0) lg_idx = axis.attrs.get("last_good", len(axis) - 1) axes[i] = axis[fg_idx:lg_idx + 1] self._axes = axes return self._axes @property def axes_dataset_names(self): """ If an axis dataset applies to several dimensions of the signal, its name will be repeated in the list. If a dimension of the signal has no dimension scale (i.e. there is a "." in that position in the *@axes* array), `None` is inserted in the output list in its position. """ axes_dataset_names = get_attr_as_string(self.group, "axes") if axes_dataset_names is None: axes_dataset_names = get_attr_as_string(self.group, "axes") ndims = len(self.signal.shape) if axes_dataset_names is None: return [None] * ndims if isinstance(axes_dataset_names, str): axes_dataset_names = [axes_dataset_names] for i, axis_name in enumerate(axes_dataset_names): if hasattr(axis_name, "decode"): axis_name = axis_name.decode() if axis_name == ".": axes_dataset_names[i] = None if len(axes_dataset_names) != ndims: if self.is_scatter and ndims == 1: return list(axes_dataset_names) # @axes may only define 1 or 2 axes if @interpretation=spectrum/image. # Use the existing names for the last few dims, and prepend with Nones. assert len(axes_dataset_names) == _INTERPDIM[self.interpretation] all_dimensions_names = [None] * (ndims - _INTERPDIM[self.interpretation]) for axis_name in axes_dataset_names: all_dimensions_names.append(axis_name) return all_dimensions_names return list(axes_dataset_names) def get_axis_errors(self, axis_name): """Return errors (uncertainties) associated with an axis. If the axis has attributes @first_good or @last_good, the output is trimmed accordingly (a numpy array will be returned rather than a dataset). :param str axis_name: Name of axis dataset. This dataset **must exist**. :return: Dataset with axis errors, or None :raise: KeyError if this group does not contain a dataset named axis_name """ # ensure axis_name is decoded, before comparing it with decoded attributes if hasattr(axis_name, "decode"): axis_name = axis_name.decode("utf-8") if axis_name not in self.group: # tolerate axis_name given as @long_name for item in self.group: long_name = get_attr_as_string(self.group[item], "long_name") if long_name is not None and long_name == axis_name: axis_name = item break if axis_name not in self.group: raise KeyError("group does not contain a dataset named '%s'" % axis_name) len_axis = len(self.group[axis_name]) fg_idx = self.group[axis_name].attrs.get("first_good", 0) lg_idx = self.group[axis_name].attrs.get("last_good", len_axis - 1) # case of axisname_errors dataset present errors_name = axis_name + "_errors" if errors_name in self.group and is_dataset(self.group[errors_name]): if fg_idx != 0 or lg_idx != (len_axis - 1): return self.group[errors_name][fg_idx:lg_idx + 1] else: return self.group[errors_name] # case of uncertainties dataset name provided in @uncertainties uncertainties_names = get_attr_as_string(self.group, "uncertainties") if uncertainties_names is None: uncertainties_names = get_attr_as_string(self.signal, "uncertainties") if isinstance(uncertainties_names, str): uncertainties_names = [uncertainties_names] if uncertainties_names is not None: # take the uncertainty with the same index as the axis in @axes axes_ds_names = get_attr_as_string(self.group, "axes") if axes_ds_names is None: axes_ds_names = get_attr_as_string(self.signal, "axes") if isinstance(axes_ds_names, str): axes_ds_names = [axes_ds_names] elif isinstance(axes_ds_names, numpy.ndarray): # transform numpy.ndarray into list axes_ds_names = list(axes_ds_names) assert isinstance(axes_ds_names, list) if hasattr(axes_ds_names[0], "decode"): axes_ds_names = [ax_name.decode("utf-8") for ax_name in axes_ds_names] if axis_name not in axes_ds_names: raise KeyError("group attr @axes does not mention a dataset " + "named '%s'" % axis_name) errors = self.group[uncertainties_names[list(axes_ds_names).index(axis_name)]] if fg_idx == 0 and lg_idx == (len_axis - 1): return errors # dataset else: return errors[fg_idx:lg_idx + 1] # numpy array return None @property def errors(self): """Return errors (uncertainties) associated with the signal values. :return: Dataset with errors, or None """ if "errors" not in self.group: return None return self.group["errors"] @property def is_scatter(self): """True if the signal is 1D and all the axes have the same size as the signal.""" if self._is_scatter is not None: return self._is_scatter if not self.signal_is_1d: self._is_scatter = False else: self._is_scatter = True sigsize = 1 for dim in self.signal.shape: sigsize *= dim for axis in self.axes: if axis is None: continue axis_size = 1 for dim in axis.shape: axis_size *= dim self._is_scatter = self._is_scatter and (axis_size == sigsize) return self._is_scatter @property def is_x_y_value_scatter(self): """True if this is a scatter with a signal and two axes.""" return self.is_scatter and len(self.axes) == 2 # we currently have no widget capable of plotting 4D data @property def is_unsupported_scatter(self): """True if this is a scatter with a signal and more than 2 axes.""" return self.is_scatter and len(self.axes) > 2 silx-0.6.1/silx/io/configdict.py0000644023630100076410000004472013202530306017213 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 2004-2016 European Synchrotron Radiation Facility # # This file is part of the PyMca X-ray Fluorescence Toolkit developed at # the ESRF by the Software group. # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module handles read and write operations to INI files, with data type preservation and support for nesting subsections to any depth. Data to be written to INI must be stored in a dictionary with string keys. Data cannot be stored at the root level of the dictionary, it must be inside a sub-dictionary. This means that in the INI file, all parameters must be in a section, and if you need a `default` section you must define it explicitly. Usage example: ============== Write a dictionary to an INI file:: from silx.io.configdict import ConfigDict ddict = { 'simple_types': { 'float': 1.0, 'int': 1, 'string': 'Hello World', }, 'containers': { 'list': [-1, 'string', 3.0, False], 'array': numpy.array([1.0, 2.0, 3.0]), 'dict': { 'key1': 'Hello World', 'key2': 2.0, } } } ConfigDict(initdict=ddict).write("foo.ini") Read an INI file into a dictionary like structure:: from silx.io.configdict import ConfigDict confdict = ConfigDict() confdict.read("foo.ini") print("Available sections in INI file:") print(confdict.keys()) for key in confdict: for subkey in confdict[key]: print("Section %s, parameter %s:" % (key, subkey)) print(confdict[key][subkey]) Classes: ======== - :class:`ConfigDict` - :class:`OptionStr` """ __author__ = ["E. Papillon", "V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "15/09/2016" from collections import OrderedDict import numpy import re import sys if sys.version < '3.0': import ConfigParser as configparser else: import configparser string_types = (basestring,) if sys.version_info[0] == 2 else (str,) # noqa def _boolean(sstr): """Coerce a string to a boolean following the same convention as :meth:`configparser.ConfigParser.getboolean`: - '1', 'yes', 'true' and 'on' cause this function to return ``True`` - '0', 'no', 'false' and 'off' cause this function to return ``False`` :param sstr: String representation of a boolean :return: ``True`` or ``False`` :raise: ``ValueError`` if ``sstr`` is not a valid string representation of a boolean """ if sstr.lower() in ['1', 'yes', 'true', 'on']: return True if sstr.lower() in ['0', 'no', 'false', 'off']: return False msg = "Cannot coerce string '%s' to a boolean value. " % sstr msg += "Valid boolean strings: '1', 'yes', 'true', 'on', " msg += "'0', 'no', 'false', 'off'" raise ValueError(msg) def _parse_simple_types(sstr): """Coerce a string representation of a value to the most appropriate data type, by trial and error. Typecasting is attempted to following data types (in this order): `int`, `float`, `boolean`. If all of these conversions fail, ``sstr`` is assumed to be a string. :param sstr: String representation of an unknown data type :return: Value coerced into the most appropriate data type """ try: return int(sstr) except ValueError: try: return float(sstr) except ValueError: try: return _boolean(sstr) except ValueError: if sstr.strip() == "None": return None # un-escape string sstr = sstr.lstrip("\\") # un-escape commas sstr = sstr.replace("\,", ",").replace("^@", ",") return sstr def _parse_container(sstr): """Parse a string representation of a list or a numpy array. A string such as ``"-1, Hello World, 3.0"`` is interpreted as the list ``[-1, "Hello World", 3.0]``. ``"-1, "no", 3.0\n\t1, 2"`` is interpreted a list of 2 lists ``[[-1, False, 3.0], [1, 2]]`` Strings such as ``"[ [ 1. 2. 3.] [ 4. 5. 6.] ]"`` or ``[ 1.0 2.0 3.0 ]`` are interpreted as numpy arrays. Only 1D and 2D arrays are permitted. :param sstr: String representation of an container type :return: List or array :raise: ``ValueError`` if string is not a list or an array """ sstr = sstr.strip() if not sstr: raise ValueError if sstr.find(',') == -1: # it is not a list if (sstr[0] == '[') and (sstr[-1] == ']'): # this looks like an array try: # try parsing as a 1D array return numpy.array([float(x) for x in sstr[1:-1].split()]) except ValueError: # try parsing as a 2D array if (sstr[2] == '[') and (sstr[-3] == ']'): nrows = len(sstr[3:-3].split('] [')) data = sstr[3:-3].replace('] [', ' ') data = numpy.array([float(x) for x in data.split()]) data.shape = nrows, -1 return data # not a list and not an array raise ValueError else: # if all commas are escaped, it is a strinq, not a list if sstr.count(",") == sstr.count("\,"): raise ValueError dataline = [line for line in sstr.splitlines()] if len(dataline) == 1: return _parse_list_line(dataline[0]) else: return [_parse_list_line(line) for line in dataline] def _parse_list_line(sstr): """Parse the string representation of a simple 1D list: ``"12, 13.1, True, Hello"`` ``->`` ``[12, 13.1, True, "Hello"]`` :param sstr: String :return: List """ sstr = sstr.strip() # preserve escaped commas in strings before splitting list # (_parse_simple_types recognizes ^@ as a comma) sstr.replace("\,", "^@") # it is a list if sstr.endswith(','): if ',' in sstr[:-1]: return [_parse_simple_types(sstr2.strip()) for sstr2 in sstr[:-1].split(',')] else: return [_parse_simple_types(sstr[:-1].strip())] else: return [_parse_simple_types(sstr2.strip()) for sstr2 in sstr.split(',')] class OptionStr(str): """String class providing typecasting methods to parse values in a :class:`ConfigDict` generated configuration file. """ def toint(self): """ :return: integer :raise: ``ValueError`` if conversion to ``int`` failed """ return int(self) def tofloat(self): """ :return: Floating point value :raise: ``ValueError`` if conversion to ``float`` failed """ return float(self) def toboolean(self): """ '1', 'yes', 'true' and 'on' are interpreted as ``True`` '0', 'no', 'false' and 'off' are interpreted as ``False`` :return: Boolean :raise: ``ValueError`` if conversion to ``bool`` failed """ return _boolean(self) def tostr(self): """Return string after replacing escaped commas ``\,`` with regular commas ``,`` and removing leading backslash. :return: str(self) """ return str(self.replace("\,", ",").lstrip("\\")) def tocontainer(self): """Return a list or a numpy array. Any string containing a comma (``,``) character will be interpreted as a list: for instance ``-1, Hello World, 3.0``, or ``2.0,`` The format for numpy arrays is a blank space delimited list of values between square brackets: ``[ 1.3 2.2 3.1 ]``, or ``[ [ 1 2 3 ] [ 1 4 9 ] ]``""" return _parse_container(self) def tobestguess(self): """Parse string without prior knowledge of type. Conversion to following types is attempted, in this order: `list`, `numpy array`, `int`, `float`, `boolean`. If all of these conversions fail, the string is returned after removing escape characters. """ try: return _parse_container(self) except ValueError: return _parse_simple_types(self) class ConfigDict(OrderedDict): """Store configuration parameters as an ordered dictionary. Parameters can be grouped into sections, by storing them as sub-dictionaries. Keys must be strings. Values can be: integers, booleans, lists, numpy arrays, floats, strings. Methods are provided to write a configuration file in a variant of INI format. A :class:`ConfigDict` can load (or be initialized from) a list of files. The main differences between files written/read by this class and standard ``ConfigParser`` files are: - sections can be nested to any depth - value types are guessed when the file is read back - to prevent strings from being interpreted as lists, commas are escaped with a backslash (``\,``) - strings may be prefixed with a leading backslash (``\``) to prevent conversion to numeric or boolean values :param defaultdict: Default dictionary used to initialize the :class:`ConfigDict` instance and reinitialize it in case :meth:`reset` is called :param initdict: Additional initialisation dictionary, added into dict after initialisation with ``defaultdict`` :param filelist: List of configuration files to be read and added into dict after ``defaultdict`` and ``initdict`` """ def __init__(self, defaultdict=None, initdict=None, filelist=None): self.default = defaultdict if defaultdict is not None else OrderedDict() OrderedDict.__init__(self, self.default) self.filelist = [] if initdict is not None: self.update(initdict) if filelist is not None: self.read(filelist) def reset(self): """ Revert to default values """ self.clear() self.update(self.default) def clear(self): """ Clear dictionnary """ OrderedDict.clear(self) self.filelist = [] def __tolist(self, mylist): """ If ``mylist` is not a list, encapsulate it in a list and return it. :param mylist: List to encapsulate :returns: ``mylist`` if it is a list, ``[mylist]`` if it isn't """ if mylist is None: return None if not isinstance(mylist, list): return [mylist] else: return mylist def getfiles(self): """Return list of configuration file names""" return self.filelist def getlastfile(self): """Return last configuration file name""" return self.filelist[len(self.filelist) - 1] def __convert(self, option): """Used as ``configparser.ConfigParser().optionxform`` to transform option names on every read, get, or set operation. This overrides the default :mod:`ConfigParser` behavior, in order to preserve case rather converting names to lowercase. :param option: Option name (any string) :return: ``option`` unchanged """ return option def read(self, filelist, sections=None): """ Read all specified configuration files into the internal dictionary. :param filelist: List of names of files to be added into the internal dictionary :param sections: If not ``None``, add only the content of the specified sections :type sections: list """ filelist = self.__tolist(filelist) sections = self.__tolist(sections) cfg = configparser.ConfigParser() cfg.optionxform = self.__convert cfg.read(filelist) self.__read(cfg, sections) for ffile in filelist: self.filelist.append([ffile, sections]) def __read(self, cfg, sections=None): """Read a :class:`configparser.ConfigParser` instance into the internal dictionary. :param cfg: Instance of :class:`configparser.ConfigParser` :param sections: If not ``None``, add only the content of the specified sections into the internal dictionary """ cfgsect = cfg.sections() if sections is None: readsect = cfgsect else: readsect = [sect for sect in cfgsect if sect in sections] for sect in readsect: ddict = self for subsectw in sect.split('.'): subsect = subsectw.replace("_|_", ".") if not subsect in ddict: ddict[subsect] = OrderedDict() ddict = ddict[subsect] for opt in cfg.options(sect): ddict[opt] = self.__parse_data(cfg.get(sect, opt)) def __parse_data(self, data): """Parse an option returned by ``ConfigParser``. :param data: Option string to be parsed The original option is a string, we try to parse it as one of following types: `numpx array`, `list`, `float`, `int`, `boolean`, `string` """ return OptionStr(data).tobestguess() def tostring(self): """Return INI file content generated by :meth:`write` as a string """ import StringIO tmp = StringIO.StringIO() self.__write(tmp, self) return tmp.getvalue() def write(self, ffile): """Write the current dictionary to the given filename or file handle. :param ffile: Output file name or file handle. If a file name is provided, the method opens it, writes it and closes it again. """ if not hasattr(ffile, "write"): fp = open(ffile, "w") else: fp = ffile self.__write(fp, self) if not hasattr(ffile, "write"): fp.close() def _escape_str(self, sstr): """Escape strings and special characters in strings with a ``\`` character to ensure they are read back as strings and not parsed. :param sstr: String to be escaped :returns sstr: String with escape characters (if needed) This way, we ensure these strings cannot be interpreted as a numeric or boolean types and commas in strings are not interpreted as list items separators. We also escape ``%`` when it is not followed by a ``(``, as required by :mod:`configparser` because ``%`` is used in the interpolation syntax (https://docs.python.org/3/library/configparser.html#interpolation-of-values). """ non_str = r'^([0-9]+|[0-9]*\.[0-9]*|none|false|true|on|off|yes|no)$' if re.match(non_str, sstr.lower()): sstr = "\\" + sstr # Escape commas sstr = sstr.replace(",", "\,") if sys.version > '3.0': # Escape % characters except in "%%" and "%(" sstr = re.sub(r'%([^%\(])', r'%%\1', sstr) return sstr def __write(self, fp, ddict, secthead=None): """Do the actual file writing when called by the ``write`` method. :param fp: File handle :param ddict: Dictionary to be written to file :param secthead: Prefix for section name, used for handling nested dictionaries recursively. """ dictkey = [] for key in ddict.keys(): if hasattr(ddict[key], 'keys'): # subsections are added at the end of a section dictkey.append(key) elif isinstance(ddict[key], list): fp.write('%s = ' % key) llist = [] sep = ', ' for item in ddict[key]: if isinstance(item, list): if len(item) == 1: if isinstance(item[0], string_types): self._escape_str(item[0]) llist.append('%s,' % self._escape_str(item[0])) else: llist.append('%s,' % item[0]) else: item2 = [] for val in item: if isinstance(val, string_types): val = self._escape_str(val) item2.append(val) llist.append(', '.join([str(val) for val in item2])) sep = '\n\t' elif isinstance(item, string_types): llist.append(self._escape_str(item)) else: llist.append(str(item)) fp.write('%s\n' % (sep.join(llist))) elif isinstance(ddict[key], string_types): fp.write('%s = %s\n' % (key, self._escape_str(ddict[key]))) else: if isinstance(ddict[key], numpy.ndarray): fp.write('%s =' % key + ' [ ' + ' '.join([str(val) for val in ddict[key]]) + ' ]\n') else: fp.write('%s = %s\n' % (key, ddict[key])) for key in dictkey: if secthead is None: newsecthead = key.replace(".", "_|_") else: newsecthead = '%s.%s' % (secthead, key.replace(".", "_|_")) fp.write('\n[%s]\n' % newsecthead) self.__write(fp, ddict[key], newsecthead) silx-0.6.1/silx/io/spech5.py0000644023630100076410000007541613202530432016277 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """This module provides a h5py-like API to access SpecFile data. API description +++++++++++++++ Specfile data structure exposed by this API: :: / 1.1/ title = "…" start_time = "…" instrument/ specfile/ file_header = "…" scan_header = "…" positioners/ motor_name = value … mca_0/ data = … calibration = … channels = … preset_time = … elapsed_time = … live_time = … mca_1/ … … measurement/ colname0 = … colname1 = … … mca_0/ data -> /1.1/instrument/mca_0/data info -> /1.1/instrument/mca_0/ … sample/ ub_matrix = … unit_cell = … unit_cell_abc = … unit_cell_alphabetagamma = … 2.1/ … ``file_header`` and ``scan_header`` are the raw headers as they appear in the original file, as a string of lines separated by newline (``\\n``) characters. The title is the content of the ``#S`` scan header line without the leading ``#S`` (e.g ``"1 ascan ss1vo -4.55687 -0.556875 40 0.2"``). The start time is converted to ISO8601 format (``"2016-02-23T22:49:05Z"``), if the original date format is standard. Numeric datasets are stored in *float32* format, except for scalar integers which are stored as *int64*. Motor positions (e.g. ``/1.1/instrument/positioners/motor_name``) can be 1D numpy arrays if they are measured as scan data, or else scalars as defined on ``#P`` scan header lines. A simple test is done to check if the motor name is also a data column header defined in the ``#L`` scan header line. Scan data (e.g. ``/1.1/measurement/colname0``) is accessed by column, the dataset name ``colname0`` being the column label as defined in the ``#L`` scan header line. If a ``/`` character is present in a column label or in a motor name in the original SPEC file, it will be substituted with a ``%`` character in the corresponding dataset name. MCA data is exposed as a 2D numpy array containing all spectra for a given analyser. The number of analysers is calculated as the number of MCA spectra per scan data line. Demultiplexing is then performed to assign the correct spectra to a given analyser. MCA calibration is an array of 3 scalars, from the ``#@CALIB`` header line. It is identical for all MCA analysers, as there can be only one ``#@CALIB`` line per scan. MCA channels is an array containing all channel numbers. This information is computed from the ``#@CHANN`` scan header line (if present), or computed from the shape of the first spectrum in a scan (``[0, … len(first_spectrum] - 1]``). Accessing data ++++++++++++++ Data and groups are accessed in :mod:`h5py` fashion:: from silx.io.spech5 import SpecH5 # Open a SpecFile sfh5 = SpecH5("test.dat") # using SpecH5 as a regular group to access scans scan1group = sfh5["1.1"] instrument_group = scan1group["instrument"] # alternative: full path access measurement_group = sfh5["/1.1/measurement"] # accessing a scan data column by name as a 1D numpy array data_array = measurement_group["Pslit HGap"] # accessing all mca-spectra for one MCA device mca_0_spectra = measurement_group["mca_0/data"] :class:`SpecH5` files and groups provide a :meth:`keys` method:: >>> sfh5.keys() ['96.1', '97.1', '98.1'] >>> sfh5['96.1'].keys() ['title', 'start_time', 'instrument', 'measurement'] They can also be treated as iterators: .. code-block:: python from silx.io import is_dataset for scan_group in SpecH5("test.dat"): dataset_names = [item.name in scan_group["measurement"] if is_dataset(item)] print("Found data columns in scan " + scan_group.name) print(", ".join(dataset_names)) You can test for existence of data or groups:: >>> "/1.1/measurement/Pslit HGap" in sfh5 True >>> "positioners" in sfh5["/2.1/instrument"] True >>> "spam" in sfh5["1.1"] False Strings are stored encoded as ``numpy.string_``, as recommended by `the h5py documentation `_. This ensures maximum compatibility with third party software libraries, when saving a :class:`SpecH5` to a HDF5 file using :mod:`silx.io.spectoh5`. The type ``numpy.string_`` is a byte-string format. The consequence of this is that you should decode strings before using them in **Python 3**:: >>> from silx.io.spech5 import SpecH5 >>> sfh5 = SpecH5("31oct98.dat") >>> sfh5["/68.1/title"] b'68 ascan tx3 -28.5 -24.5 20 0.5' >>> sfh5["/68.1/title"].decode() '68 ascan tx3 -28.5 -24.5 20 0.5' """ import datetime import logging import numpy import re import sys import io from silx import version as silx_version from .specfile import SpecFile from . import commonh5 __authors__ = ["P. Knobel", "D. Naudet"] __license__ = "MIT" __date__ = "23/08/2017" logger1 = logging.getLogger(__name__) try: import h5py except ImportError: h5py = None logger1.debug("Module h5py optional.", exc_info=True) string_types = (basestring,) if sys.version_info[0] == 2 else (str,) # noqa integer_types = (int, long,) if sys.version_info[0] == 2 else (int,) # noqa def _get_number_of_mca_analysers(scan): """ :param SpecFile sf: :class:`SpecFile` instance """ number_of_mca_spectra = len(scan.mca) # Scan.data is transposed number_of_data_lines = scan.data.shape[1] if not number_of_data_lines == 0: # Number of MCA spectra must be a multiple of number of data lines assert number_of_mca_spectra % number_of_data_lines == 0 return number_of_mca_spectra // number_of_data_lines elif number_of_mca_spectra: # Case of a scan without data lines, only MCA. # Our only option is to assume that the number of analysers # is the number of #@CHANN lines return len(scan.mca.channels) else: return 0 def _motor_in_scan(sf, scan_key, motor_name): """ :param sf: :class:`SpecFile` instance :param scan_key: Scan identification key (e.g. ``1.1``) :param motor_name: Name of motor as defined in file header lines :return: ``True`` if motor exists in scan, else ``False`` :raise: ``KeyError`` if scan_key not found in SpecFile """ if scan_key not in sf: raise KeyError("Scan key %s " % scan_key + "does not exist in SpecFile %s" % sf.filename) ret = motor_name in sf[scan_key].motor_names if not ret and "%" in motor_name: motor_name = motor_name.replace("%", "/") ret = motor_name in sf[scan_key].motor_names return ret def _column_label_in_scan(sf, scan_key, column_label): """ :param sf: :class:`SpecFile` instance :param scan_key: Scan identification key (e.g. ``1.1``) :param column_label: Column label as defined in scan header :return: ``True`` if data column label exists in scan, else ``False`` :raise: ``KeyError`` if scan_key not found in SpecFile """ if scan_key not in sf: raise KeyError("Scan key %s " % scan_key + "does not exist in SpecFile %s" % sf.filename) ret = column_label in sf[scan_key].labels if not ret and "%" in column_label: column_label = column_label.replace("%", "/") ret = column_label in sf[scan_key].labels return ret def _parse_UB_matrix(header_line): """Parse G3 header line and return UB matrix :param str header_line: G3 header line :return: UB matrix """ return numpy.array(list(map(float, header_line.split()))).reshape((1, 3, 3)) def _ub_matrix_in_scan(scan): """Return True if scan header has a G3 line and all values are not 0. :param scan: specfile.Scan instance :return: True or False """ if "G3" not in scan.scan_header_dict: return False return numpy.any(_parse_UB_matrix(scan.scan_header_dict["G3"])) def _parse_unit_cell(header_line): return numpy.array(list(map(float, header_line.split()))[0:6]).reshape((1, 6)) def _unit_cell_in_scan(scan): """Return True if scan header has a G1 line and all values are not 0. :param scan: specfile.Scan instance :return: True or False """ if "G1" not in scan.scan_header_dict: return False return numpy.any(_parse_unit_cell(scan.scan_header_dict["G1"])) def _parse_ctime(ctime_lines, analyser_index=0): """ :param ctime_lines: e.g ``@CTIME %f %f %f``, first word ``@CTIME`` optional When multiple CTIME lines are present in a scan header, this argument is a concatenation of them separated by a ``\n`` character. :param analyser_index: MCA device/analyser index, when multiple devices are in a scan. :return: (preset_time, live_time, elapsed_time) """ ctime_lines = ctime_lines.lstrip("@CTIME ") ctimes_lines_list = ctime_lines.split("\n") if len(ctimes_lines_list) == 1: # single @CTIME line for all devices ctime_line = ctimes_lines_list[0] else: ctime_line = ctimes_lines_list[analyser_index] if not len(ctime_line.split()) == 3: raise ValueError("Incorrect format for @CTIME header line " + '(expected "@CTIME %f %f %f").') return list(map(float, ctime_line.split())) def spec_date_to_iso8601(date, zone=None): """Convert SpecFile date to Iso8601. :param date: Date (see supported formats below) :type date: str :param zone: Time zone as it appears in a ISO8601 date Supported formats: * ``DDD MMM dd hh:mm:ss YYYY`` * ``DDD YYYY/MM/dd hh:mm:ss YYYY`` where `DDD` is the abbreviated weekday, `MMM` is the month abbreviated name, `MM` is the month number (zero padded), `dd` is the weekday number (zero padded) `YYYY` is the year, `hh` the hour (zero padded), `mm` the minute (zero padded) and `ss` the second (zero padded). All names are expected to be in english. Examples:: >>> spec_date_to_iso8601("Thu Feb 11 09:54:35 2016") '2016-02-11T09:54:35' >>> spec_date_to_iso8601("Sat 2015/03/14 03:53:50") '2015-03-14T03:53:50' """ months = ['Jan', 'Feb', 'Mar', 'Apr', 'May', 'Jun', 'Jul', 'Aug', 'Sep', 'Oct', 'Nov', 'Dec'] days = ['Mon', 'Tue', 'Wed', 'Thu', 'Fri', 'Sat', 'Sun'] days_rx = '(?P' + '|'.join(days) + ')' months_rx = '(?P' + '|'.join(months) + ')' year_rx = '(?P\d{4})' day_nb_rx = '(?P[0-3 ]\d)' month_nb_rx = '(?P[0-1]\d)' hh_rx = '(?P[0-2]\d)' mm_rx = '(?P[0-5]\d)' ss_rx = '(?P[0-5]\d)' tz_rx = '(?P[+-]\d\d:\d\d){0,1}' # date formats must have either month_nb (1..12) or month (Jan, Feb, ...) re_tpls = ['{days} {months} {day_nb} {hh}:{mm}:{ss}{tz} {year}', '{days} {year}/{month_nb}/{day_nb} {hh}:{mm}:{ss}{tz}'] grp_d = None for rx in re_tpls: full_rx = rx.format(days=days_rx, months=months_rx, year=year_rx, day_nb=day_nb_rx, month_nb=month_nb_rx, hh=hh_rx, mm=mm_rx, ss=ss_rx, tz=tz_rx) m = re.match(full_rx, date) if m: grp_d = m.groupdict() break if not grp_d: raise ValueError('Date format not recognized : {0}'.format(date)) year = grp_d['year'] month = grp_d.get('month_nb') if not month: month = '{0:02d}'.format(months.index(grp_d.get('month')) + 1) day = grp_d['day_nb'] tz = grp_d['tz'] if not tz: tz = zone time = '{0}:{1}:{2}'.format(grp_d['hh'], grp_d['mm'], grp_d['ss']) full_date = '{0}-{1}-{2}T{3}{4}'.format(year, month, day, time, tz if tz else '') return full_date def _demultiplex_mca(scan, analyser_index): """Return MCA data for a single analyser. Each MCA spectrum is a 1D array. For each analyser, there is one spectrum recorded per scan data line. When there are more than a single MCA analyser in a scan, the data will be multiplexed. For instance if there are 3 analysers, the consecutive spectra for the first analyser must be accessed as ``mca[0], mca[3], mca[6]…``. :param scan: :class:`Scan` instance containing the MCA data :param analyser_index: 0-based index referencing the analyser :type analyser_index: int :return: 2D numpy array containing all spectra for one analyser """ number_of_analysers = _get_number_of_mca_analysers(scan) number_of_spectra = len(scan.mca) number_of_spectra_per_analyser = number_of_spectra // number_of_analysers len_spectrum = len(scan.mca[analyser_index]) mca_array = numpy.empty((number_of_spectra_per_analyser, len_spectrum)) for i in range(number_of_spectra_per_analyser): mca_array[i, :] = scan.mca[analyser_index + i * number_of_analysers] return mca_array # Node classes class SpecH5Dataset(object): """This convenience class is to be inherited by all datasets, for compatibility purpose with code that tests for ``isinstance(obj, SpecH5Dataset)``. This legacy behavior is deprecated. The correct way to test if an object is a dataset is to use :meth:`silx.io.utils.is_dataset`. Datasets must also inherit :class:`SpecH5NodeDataset` or :class:`SpecH5LazyNodeDataset` which actually implement all the API.""" pass class SpecH5NodeDataset(commonh5.Dataset, SpecH5Dataset): """This class inherits :class:`commonh5.Dataset`, to which it adds little extra functionality. The main additional functionality is the proxy behavior that allows to mimic the numpy array stored in this class. """ def __init__(self, name, data, parent=None, attrs=None): # get proper value types, to inherit from numpy # attributes (dtype, shape, size) if isinstance(data, string_types): # use bytes for maximum compatibility # (see http://docs.h5py.org/en/latest/strings.html) value = numpy.string_(data) elif isinstance(data, float): # use 32 bits for float scalars value = numpy.float32(data) elif isinstance(data, int): value = numpy.int_(data) else: # Enforce numpy array array = numpy.array(data) data_kind = array.dtype.kind if data_kind in ["S", "U"]: value = numpy.asarray(array, dtype=numpy.string_) elif data_kind in ["f"]: value = numpy.asarray(array, dtype=numpy.float32) else: value = array commonh5.Dataset.__init__(self, name, value, parent, attrs) def __getattr__(self, item): """Proxy to underlying numpy array methods. """ if hasattr(self[()], item): return getattr(self[()], item) raise AttributeError("SpecH5Dataset has no attribute %s" % item) class SpecH5LazyNodeDataset(commonh5.LazyLoadableDataset, SpecH5Dataset): """This class inherits :class:`commonh5.LazyLoadableDataset`, to which it adds a proxy behavior that allows to mimic the numpy array stored in this class. The class has to be inherited and the :meth:`_create_data` method has to be implemented to return the numpy data exposed by the dataset. This factory method is only called once, when the data is needed. """ def __getattr__(self, item): """Proxy to underlying numpy array methods. """ if hasattr(self[()], item): return getattr(self[()], item) raise AttributeError("SpecH5Dataset has no attribute %s" % item) def _create_data(self): """ Factory to create the data exposed by the dataset when it is needed. It has to be implemented for the class to work. :rtype: numpy.ndarray """ raise NotImplementedError() class SpecH5Group(object): """This convenience class is to be inherited by all groups, for compatibility purposes with code that tests for ``isinstance(obj, SpecH5Group)``. This legacy behavior is deprecated. The correct way to test if an object is a group is to use :meth:`silx.io.utils.is_group`. Groups must also inherit :class:`silx.io.commonh5.Group`, which actually implements all the methods and attributes.""" pass class SpecH5(commonh5.File, SpecH5Group): """This class opens a SPEC file and exposes it as a *h5py.File*. It inherits :class:`silx.io.commonh5.Group` (via :class:`commonh5.File`), which implements most of its API. """ def __init__(self, filename): """ :param filename: Path to SpecFile in filesystem :type filename: str """ if isinstance(filename, io.IOBase): # see https://github.com/silx-kit/silx/issues/858 filename = filename.name self._sf = SpecFile(filename) attrs = {"NX_class": "NXroot", "file_time": datetime.datetime.now().isoformat(), "file_name": filename, "creator": "silx %s" % silx_version} commonh5.File.__init__(self, filename, attrs=attrs) assert self.attrs["NX_class"] == "NXroot" for scan_key in self._sf.keys(): scan = self._sf[scan_key] scan_group = ScanGroup(scan_key, parent=self, scan=scan) self.add_node(scan_group) def close(self): # or del self._sf? self._sf = None class ScanGroup(commonh5.Group, SpecH5Group): def __init__(self, scan_key, parent, scan): """ :param parent: parent Group :param str scan_key: Scan key (e.g. "1.1") :param scan: specfile.Scan object """ commonh5.Group.__init__(self, scan_key, parent=parent, attrs={"NX_class": "NXentry"}) self.add_node(SpecH5NodeDataset(name="title", data=scan.scan_header_dict["S"], parent=self)) if "D" in scan.scan_header_dict: try: start_time_str = spec_date_to_iso8601(scan.scan_header_dict["D"]) except (IndexError, ValueError): logger1.warn("Could not parse date format in scan %s header." + " Using original date not converted to ISO-8601", scan_key) start_time_str = scan.scan_header_dict["D"] elif "D" in scan.file_header_dict: logger1.warn("No #D line in scan %s header. " + "Using file header for start_time.", scan_key) try: start_time_str = spec_date_to_iso8601(scan.file_header_dict["D"]) except (IndexError, ValueError): logger1.warn("Could not parse date format in scan %s header. " + "Using original date not converted to ISO-8601", scan_key) start_time_str = scan.file_header_dict["D"] else: logger1.warn("No #D line in %s header. Setting date to empty string.", scan_key) start_time_str = "" self.add_node(SpecH5NodeDataset(name="start_time", data=start_time_str, parent=self)) self.add_node(InstrumentGroup(parent=self, scan=scan)) self.add_node(MeasurementGroup(parent=self, scan=scan)) if _unit_cell_in_scan(scan) or _ub_matrix_in_scan(scan): self.add_node(SampleGroup(parent=self, scan=scan)) class InstrumentGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, scan): """ :param parent: parent Group :param scan: specfile.Scan object """ commonh5.Group.__init__(self, name="instrument", parent=parent, attrs={"NX_class": "NXinstrument"}) self.add_node(InstrumentSpecfileGroup(parent=self, scan=scan)) self.add_node(PositionersGroup(parent=self, scan=scan)) num_analysers = _get_number_of_mca_analysers(scan) for anal_idx in range(num_analysers): self.add_node(InstrumentMcaGroup(parent=self, analyser_index=anal_idx, scan=scan)) class InstrumentSpecfileGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, scan): commonh5.Group.__init__(self, name="specfile", parent=parent, attrs={"NX_class": "NXcollection"}) self.add_node(SpecH5NodeDataset(name="file_header", data="\n".join(scan.file_header), parent=self, attrs={})) self.add_node(SpecH5NodeDataset(name="scan_header", data="\n".join(scan.scan_header), parent=self, attrs={})) class PositionersGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, scan): commonh5.Group.__init__(self, name="positioners", parent=parent, attrs={"NX_class": "NXcollection"}) for motor_name in scan.motor_names: safe_motor_name = motor_name.replace("/", "%") if motor_name in scan.labels and scan.data.shape[0] > 0: # return a data column if one has the same label as the motor motor_value = scan.data_column_by_name(motor_name) else: # Take value from #P scan header. # (may return float("inf") if #P line is missing from scan hdr) motor_value = scan.motor_position_by_name(motor_name) self.add_node(SpecH5NodeDataset(name=safe_motor_name, data=motor_value, parent=self)) class InstrumentMcaGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, analyser_index, scan): name = "mca_%d" % analyser_index commonh5.Group.__init__(self, name=name, parent=parent, attrs={"NX_class": "NXdetector"}) self.add_node(McaDataDataset(parent=self, analyser_index=analyser_index, scan=scan)) if len(scan.mca.channels) == 1: # single @CALIB line applying to multiple devices calibration_dataset = scan.mca.calibration[0] channels_dataset = scan.mca.channels[0] else: calibration_dataset = scan.mca.calibration[analyser_index] channels_dataset = scan.mca.channels[analyser_index] self.add_node(SpecH5NodeDataset(name="calibration", data=calibration_dataset, parent=self)) self.add_node(SpecH5NodeDataset(name="channels", data=channels_dataset, parent=self)) if "CTIME" in scan.mca_header_dict: ctime_line = scan.mca_header_dict['CTIME'] preset_time, live_time, elapsed_time = _parse_ctime(ctime_line, analyser_index) self.add_node(SpecH5NodeDataset(name="preset_time", data=preset_time, parent=self)) self.add_node(SpecH5NodeDataset(name="live_time", data=live_time, parent=self)) self.add_node(SpecH5NodeDataset(name="elapsed_time", data=elapsed_time, parent=self)) class McaDataDataset(SpecH5LazyNodeDataset): """Lazy loadable dataset for MCA data""" def __init__(self, parent, analyser_index, scan): commonh5.LazyLoadableDataset.__init__( self, name="data", parent=parent, attrs={"interpretation": "spectrum", }) self._scan = scan self._analyser_index = analyser_index self._shape = None self._num_analysers = _get_number_of_mca_analysers(self._scan) def _create_data(self): return _demultiplex_mca(self._scan, self._analyser_index) @property def shape(self): if self._shape is None: num_spectra_in_file = len(self._scan.mca) num_spectra_per_analyser = num_spectra_in_file // self._num_analysers len_spectrum = len(self._scan.mca[self._analyser_index]) self._shape = num_spectra_per_analyser, len_spectrum return self._shape @property def size(self): return numpy.prod(self.shape, dtype=numpy.intp) @property def dtype(self): # we initialize the data with numpy.empty() without specifying a dtype # in _demultiplex_mca() return numpy.empty((1, )).dtype def __len__(self): return self.shape[0] def __getitem__(self, item): # optimization for fetching a single spectrum if data not already loaded if not self._is_initialized: if isinstance(item, integer_types): if item < 0: # negative indexing item += len(self) return self._scan.mca[self._analyser_index + item * self._num_analysers] # accessing a slice or element of a single spectrum [i, j:k] try: spectrum_idx, channel_idx_or_slice = item assert isinstance(spectrum_idx, integer_types) except (ValueError, TypeError, AssertionError): pass else: if spectrum_idx < 0: item += len(self) idx = self._analyser_index + spectrum_idx * self._num_analysers return self._scan.mca[idx][channel_idx_or_slice] return super(McaDataDataset, self).__getitem__(item) class MeasurementGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, scan): """ :param parent: parent Group :param scan: specfile.Scan object """ commonh5.Group.__init__(self, name="measurement", parent=parent, attrs={"NX_class": "NXcollection", }) for label in scan.labels: safe_label = label.replace("/", "%") self.add_node(SpecH5NodeDataset(name=safe_label, data=scan.data_column_by_name(label), parent=self)) num_analysers = _get_number_of_mca_analysers(scan) for anal_idx in range(num_analysers): self.add_node(MeasurementMcaGroup(parent=self, analyser_index=anal_idx)) class MeasurementMcaGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, analyser_index): basename = "mca_%d" % analyser_index commonh5.Group.__init__(self, name=basename, parent=parent, attrs={}) target_name = self.name.replace("measurement", "instrument") self.add_node(commonh5.SoftLink(name="data", path=target_name + "/data", parent=self)) self.add_node(commonh5.SoftLink(name="info", path=target_name, parent=self)) class SampleGroup(commonh5.Group, SpecH5Group): def __init__(self, parent, scan): """ :param parent: parent Group :param scan: specfile.Scan object """ commonh5.Group.__init__(self, name="sample", parent=parent, attrs={"NX_class": "NXsample", }) if _unit_cell_in_scan(scan): self.add_node(SpecH5NodeDataset(name="unit_cell", data=_parse_unit_cell(scan.scan_header_dict["G1"]), parent=self, attrs={"interpretation": "scalar"})) self.add_node(SpecH5NodeDataset(name="unit_cell_abc", data=_parse_unit_cell(scan.scan_header_dict["G1"])[0, 0:3], parent=self, attrs={"interpretation": "scalar"})) self.add_node(SpecH5NodeDataset(name="unit_cell_alphabetagamma", data=_parse_unit_cell(scan.scan_header_dict["G1"])[0, 3:6], parent=self, attrs={"interpretation": "scalar"})) if _ub_matrix_in_scan(scan): self.add_node(SpecH5NodeDataset(name="ub_matrix", data=_parse_UB_matrix(scan.scan_header_dict["G3"]), parent=self, attrs={"interpretation": "scalar"})) silx-0.6.1/silx/io/utils.py0000644023630100076410000005122013202530432016233 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ I/O utility functions""" import numpy import os.path import sys import time import logging from silx.utils.deprecation import deprecated from silx.utils.proxy import Proxy try: import h5py except ImportError as e: h5py_missing = True h5py_import_error = e else: h5py_missing = False __authors__ = ["P. Knobel", "V. Valls"] __license__ = "MIT" __date__ = "28/09/2017" logger = logging.getLogger(__name__) string_types = (basestring,) if sys.version_info[0] == 2 else (str,) # noqa builtin_open = open def save1D(fname, x, y, xlabel=None, ylabels=None, filetype=None, fmt="%.7g", csvdelim=";", newline="\n", header="", footer="", comments="#", autoheader=False): """Saves any number of curves to various formats: `Specfile`, `CSV`, `txt` or `npy`. All curves must have the same number of points and share the same ``x`` values. :param fname: Output file path, or file handle open in write mode. If ``fname`` is a path, file is opened in ``w`` mode. Existing file with a same name will be overwritten. :param x: 1D-Array (or list) of abscissa values. :param y: 2D-array (or list of lists) of ordinates values. First index is the curve index, second index is the sample index. The length of the second dimension (number of samples) must be equal to ``len(x)``. ``y`` can be a 1D-array in case there is only one curve to be saved. :param filetype: Filetype: ``"spec", "csv", "txt", "ndarray"``. If ``None``, filetype is detected from file name extension (``.dat, .csv, .txt, .npy``). :param xlabel: Abscissa label :param ylabels: List of `y` labels :param fmt: Format string for data. You can specify a short format string that defines a single format for both ``x`` and ``y`` values, or a list of two different format strings (e.g. ``["%d", "%.7g"]``). Default is ``"%.7g"``. This parameter does not apply to the `npy` format. :param csvdelim: String or character separating columns in `txt` and `CSV` formats. The user is responsible for ensuring that this delimiter is not used in data labels when writing a `CSV` file. :param newline: String or character separating lines/records in `txt` format (default is line break character ``\\n``). :param header: String that will be written at the beginning of the file in `txt` format. :param footer: String that will be written at the end of the file in `txt` format. :param comments: String that will be prepended to the ``header`` and ``footer`` strings, to mark them as comments. Default: ``#``. :param autoheader: In `CSV` or `txt`, ``True`` causes the first header line to be written as a standard CSV header line with column labels separated by the specified CSV delimiter. When saving to Specfile format, each curve is saved as a separate scan with two data columns (``x`` and ``y``). `CSV` and `txt` formats are similar, except that the `txt` format allows user defined header and footer text blocks, whereas the `CSV` format has only a single header line with columns labels separated by field delimiters and no footer. The `txt` format also allows defining a record separator different from a line break. The `npy` format is written with ``numpy.save`` and can be read back with ``numpy.load``. If ``xlabel`` and ``ylabels`` are undefined, data is saved as a regular 2D ``numpy.ndarray`` (contatenation of ``x`` and ``y``). If both ``xlabel`` and ``ylabels`` are defined, the data is saved as a ``numpy.recarray`` after being transposed and having labels assigned to columns. """ available_formats = ["spec", "csv", "txt", "ndarray"] if filetype is None: exttypes = {".dat": "spec", ".csv": "csv", ".txt": "txt", ".npy": "ndarray"} outfname = (fname if not hasattr(fname, "name") else fname.name) fileext = os.path.splitext(outfname)[1] if fileext in exttypes: filetype = exttypes[fileext] else: raise IOError("File type unspecified and could not be " + "inferred from file extension (not in " + "txt, dat, csv, npy)") else: filetype = filetype.lower() if filetype not in available_formats: raise IOError("File type %s is not supported" % (filetype)) # default column headers if xlabel is None: xlabel = "x" if ylabels is None: if len(numpy.array(y).shape) > 1: ylabels = ["y%d" % i for i in range(len(y))] else: ylabels = ["y"] elif isinstance(ylabels, (list, tuple)): # if ylabels is provided as a list, every element must # be a string ylabels = [ylabels[i] if ylabels[i] is not None else "y%d" % i for i in range(len(ylabels))] if filetype.lower() == "spec": y_array = numpy.asarray(y) # make sure y_array is a 2D array even for a single curve if len(y_array.shape) == 1: y_array.shape = (1, y_array.shape[0]) elif len(y_array.shape) > 2 or len(y_array.shape) < 1: raise IndexError("y must be a 1D or 2D array") # First curve specf = savespec(fname, x, y_array[0], xlabel, ylabels[0], fmt=fmt, scan_number=1, mode="w", write_file_header=True, close_file=False) # Other curves for i in range(1, y_array.shape[0]): specf = savespec(specf, x, y_array[i], xlabel, ylabels[i], fmt=fmt, scan_number=i + 1, mode="w", write_file_header=False, close_file=False) # close file if we created it if not hasattr(fname, "write"): specf.close() else: autoheader_line = xlabel + csvdelim + csvdelim.join(ylabels) if xlabel is not None and ylabels is not None and filetype == "csv": # csv format: optional single header line with labels, no footer if autoheader: header = autoheader_line + newline else: header = "" comments = "" footer = "" newline = "\n" elif filetype == "txt" and autoheader: # Comments string is added at the beginning of header string in # savetxt(). We add another one after the first header line and # before the rest of the header. if header: header = autoheader_line + newline + comments + header else: header = autoheader_line + newline # Concatenate x and y in a single 2D array X = numpy.vstack((x, y)) if filetype.lower() in ["csv", "txt"]: X = X.transpose() savetxt(fname, X, fmt=fmt, delimiter=csvdelim, newline=newline, header=header, footer=footer, comments=comments) elif filetype.lower() == "ndarray": if xlabel is not None and ylabels is not None: labels = [xlabel] + ylabels # .transpose is needed here because recarray labels # apply to columns X = numpy.core.records.fromrecords(X.transpose(), names=labels) numpy.save(fname, X) # Replace with numpy.savetxt when dropping support of numpy < 1.7.0 def savetxt(fname, X, fmt="%.7g", delimiter=";", newline="\n", header="", footer="", comments="#"): """``numpy.savetxt`` backport of header and footer arguments from numpy=1.7.0. See ``numpy.savetxt`` help: http://docs.scipy.org/doc/numpy-1.10.0/reference/generated/numpy.savetxt.html """ if not hasattr(fname, "name"): ffile = builtin_open(fname, 'wb') else: ffile = fname if header: if sys.version_info[0] >= 3: header = header.encode("utf-8") ffile.write(header) numpy.savetxt(ffile, X, fmt, delimiter, newline) if footer: footer = (comments + footer.replace(newline, newline + comments) + newline) if sys.version_info[0] >= 3: footer = footer.encode("utf-8") ffile.write(footer) if not hasattr(fname, "name"): ffile.close() def savespec(specfile, x, y, xlabel="X", ylabel="Y", fmt="%.7g", scan_number=1, mode="w", write_file_header=True, close_file=False): """Saves one curve to a SpecFile. The curve is saved as a scan with two data columns. To save multiple curves to a single SpecFile, call this function for each curve by providing the same file handle each time. :param specfile: Output SpecFile name, or file handle open in write or append mode. If a file name is provided, a new file is open in write mode (existing file with the same name will be lost) :param x: 1D-Array (or list) of abscissa values :param y: 1D-array (or list) of ordinates values :param xlabel: Abscissa label (default ``"X"``) :param ylabel: Ordinate label :param fmt: Format string for data. You can specify a short format string that defines a single format for both ``x`` and ``y`` values, or a list of two different format strings (e.g. ``["%d", "%.7g"]``). Default is ``"%.7g"``. :param scan_number: Scan number (default 1). :param mode: Mode for opening file: ``w`` (default), ``a``, ``r+``, ``w+``, ``a+``. This parameter is only relevant if ``specfile`` is a path. :param write_file_header: If ``True``, write a file header before writing the scan (``#F`` and ``#D`` line). :param close_file: If ``True``, close the file after saving curve. :return: ``None`` if ``close_file`` is ``True``, else return the file handle. """ # Make sure we use binary mode for write # (issue with windows: write() replaces \n with os.linesep in text mode) if "b" not in mode: first_letter = mode[0] assert first_letter in "rwa" mode = mode.replace(first_letter, first_letter + "b") x_array = numpy.asarray(x) y_array = numpy.asarray(y) if y_array.shape[0] != x_array.shape[0]: raise IndexError("X and Y columns must have the same length") if isinstance(fmt, string_types) and fmt.count("%") == 1: full_fmt_string = fmt + " " + fmt + "\n" elif isinstance(fmt, (list, tuple)) and len(fmt) == 2: full_fmt_string = " ".join(fmt) + "\n" else: raise ValueError("fmt must be a single format string or a list of " + "two format strings") if not hasattr(specfile, "write"): f = builtin_open(specfile, mode) else: f = specfile output = "" current_date = "#D %s\n" % (time.ctime(time.time())) if write_file_header: output += "#F %s\n" % f.name output += current_date output += "\n" output += "#S %d %s\n" % (scan_number, ylabel) output += current_date output += "#N 2\n" output += "#L %s %s\n" % (xlabel, ylabel) for i in range(y_array.shape[0]): output += full_fmt_string % (x_array[i], y_array[i]) output += "\n" f.write(output.encode()) if close_file: f.close() return None return f def h5ls(h5group, lvl=0): """Return a simple string representation of a HDF5 tree structure. :param h5group: Any :class:`h5py.Group` or :class:`h5py.File` instance, or a HDF5 file name :param lvl: Number of tabulations added to the group. ``lvl`` is incremented as we recursively process sub-groups. :return: String representation of an HDF5 tree structure Group names and dataset representation are printed preceded by a number of tabulations corresponding to their depth in the tree structure. Datasets are represented as :class:`h5py.Dataset` objects. Example:: >>> print(h5ls("Downloads/sample.h5")) +fields +fieldB +fieldE .. note:: This function requires `h5py `_ to be installed. """ if h5py_missing: logger.error("h5ls requires h5py") raise h5py_import_error h5repr = '' if is_group(h5group): h5f = h5group elif isinstance(h5group, string_types): h5f = open(h5group) # silx.io.open else: raise TypeError("h5group must be a hdf5-like group object or a file name.") for key in h5f.keys(): # group if hasattr(h5f[key], 'keys'): h5repr += '\t' * lvl + '+' + key h5repr += '\n' h5repr += h5ls(h5f[key], lvl + 1) # dataset else: h5repr += '\t' * lvl h5repr += str(h5f[key]) h5repr += '\n' if isinstance(h5group, string_types): h5f.close() return h5repr def _open(filename): """ Load a file as an `h5py.File`-like object. Format supported: - h5 files, if `h5py` module is installed - SPEC files exposed as a NeXus layout - raster files exposed as a NeXus layout (if `fabio` is installed) - Numpy files ('npy' and 'npz' files) The file is opened in read-only mode. :param str filename: A filename :raises: IOError if the file can't be loaded as an h5py.File like object :rtype: h5py.File """ if not os.path.isfile(filename): raise IOError("Filename '%s' must be a file path" % filename) debugging_info = [] _, extension = os.path.splitext(filename) if not h5py_missing: if h5py.is_hdf5(filename): return h5py.File(filename, "r") if extension in [".npz", ".npy"]: try: from . import rawh5 return rawh5.NumpyFile(filename) except (IOError, ValueError) as e: debugging_info.append((sys.exc_info(), "File '%s' can't be read as a numpy file." % filename)) try: from . import fabioh5 return fabioh5.File(filename) except ImportError: debugging_info.append((sys.exc_info(), "fabioh5 can't be loaded.")) except Exception: debugging_info.append((sys.exc_info(), "File '%s' can't be read as fabio file." % filename)) try: from . import spech5 return spech5.SpecH5(filename) except ImportError: debugging_info.append((sys.exc_info(), "spech5 can't be loaded.")) except IOError: debugging_info.append((sys.exc_info(), "File '%s' can't be read as spec file." % filename)) for exc_info, message in debugging_info: logger.debug(message, exc_info=exc_info) raise IOError("File '%s' can't be read as HDF5" % filename) class _MainNode(Proxy): """A main node is a sub node of the HDF5 tree which is responsible of the closure of the file. It is a proxy to the sub node, plus support context manager and `close` method usually provided by `h5py.File`. :param h5_node: Target to the proxy. :param h5_file: Main file. This object became the owner of this file. """ def __init__(self, h5_node, h5_file): super(_MainNode, self).__init__(h5_node) self.__file = h5_file self.__class = get_h5py_class(h5_node) @property def h5py_class(self): """Returns the h5py classes which is mimicked by this class. It can be one of `h5py.File, h5py.Group` or `h5py.Dataset`. :rtype: Class """ return self.__class def __enter__(self): return self def __exit__(self, exc_type, exc_val, exc_tb): self.close() def close(self): """Close the file""" self.__file.close() self.__file = None def open(filename): # pylint:disable=redefined-builtin """ Open a file as an `h5py`-like object. Format supported: - h5 files, if `h5py` module is installed - SPEC files exposed as a NeXus layout - raster files exposed as a NeXus layout (if `fabio` is installed) - Numpy files ('npy' and 'npz' files) The filename can be trailled an HDF5 path using the separator `::`. In this case the object returned is a proxy to the target node, implementing the `close` function and supporting `with` context. The file is opened in read-only mode. :param str filename: A filename which can containt an HDF5 path by using `::` separator. :raises: IOError if the file can't be loaded or path can't be found :rtype: h5py-like node """ if "::" in filename: filename, h5_path = filename.split("::") else: filename, h5_path = filename, "/" h5_file = _open(filename) if h5_path in ["/", ""]: # Short cut return h5_file if h5_path not in h5_file: msg = "File '%s' do not contains path '%s'." % (filename, h5_path) raise IOError(msg) node = h5_file[h5_path] proxy = _MainNode(node, h5_file) return proxy @deprecated def load(filename): """ Load a file as an `h5py.File`-like object. Format supported: - h5 files, if `h5py` module is installed - Spec files if `SpecFile` module is installed .. deprecated:: 0.4 Use :meth:`open`, or :meth:`silx.io.open`. Will be removed in Silx 0.5. :param str filename: A filename :raises: IOError if the file can't be loaded as an h5py.File like object :rtype: h5py.File """ return open(filename) def get_h5py_class(obj): """Returns the h5py class from an object. If it is an h5py object or an h5py-like object, an h5py class is returned. If the object is not an h5py-like object, None is returned. :param obj: An object :return: An h5py object """ if hasattr(obj, "h5py_class"): return obj.h5py_class elif isinstance(obj, (h5py.File, h5py.Group, h5py.Dataset, h5py.SoftLink)): return obj.__class__ else: return None def is_file(obj): """ True is the object is an h5py.File-like object. :param obj: An object """ class_ = get_h5py_class(obj) if class_ is None: return False return issubclass(class_, h5py.File) def is_group(obj): """ True if the object is a h5py.Group-like object. :param obj: An object """ class_ = get_h5py_class(obj) if class_ is None: return False return issubclass(class_, h5py.Group) def is_dataset(obj): """ True if the object is a h5py.Dataset-like object. :param obj: An object """ class_ = get_h5py_class(obj) if class_ is None: return False return issubclass(class_, h5py.Dataset) def is_softlink(obj): """ True if the object is a h5py.SoftLink-like object. :param obj: An object """ class_ = get_h5py_class(obj) if class_ is None: return False return issubclass(class_, h5py.SoftLink) if h5py_missing: def raise_h5py_missing(obj): logger.error("get_h5py_class/is_file/is_group/is_dataset requires h5py") raise h5py_import_error get_h5py_class = raise_h5py_missing is_file = raise_h5py_missing is_group = raise_h5py_missing is_dataset = raise_h5py_missing is_softlink = raise_h5py_missing silx-0.6.1/silx/io/convert.py0000644023630100076410000003044313202530432016557 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """This module provides classes and function to convert file formats supported by *silx* into HDF5 file. Currently, SPEC file and fabio images are the supported formats. Read the documentation of :mod:`silx.io.spech5` and :mod:`silx.io.fabioh5` for information on the structure of the output HDF5 files. Strings are written to the HDF5 datasets as fixed-length ASCII (NumPy *S* type). This is done in order to produce files that have maximum compatibility with other HDF5 libraries, as recommended in the `h5py documentation `_. If you read the files back with *h5py* in Python 3, you will recover strings as bytes, which you should decode to transform them into python strings:: >>> import h5py >>> f = h5py.File("myfile.h5") >>> f["/1.1/instrument/specfile/scan_header"][0] b'#S 94 ascan del -0.5 0.5 20 1' >>> f["/1.1/instrument/specfile/scan_header"][0].decode() '#S 94 ascan del -0.5 0.5 20 1' Arrays of strings, such as file and scan headers, are stored as fixed-length strings. The length of all strings in an array is equal to the length of the longest string. Shorter strings are right-padded with blank spaces. .. note:: This module has a dependency on the `h5py `_ library, which is not a mandatory dependency for `silx`. You might need to install it if you don't already have it. """ import numpy import logging import silx.io from silx.io import is_dataset, is_group, is_softlink __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "14/09/2017" _logger = logging.getLogger(__name__) try: import h5py except ImportError as e: _logger.error("Module " + __name__ + " requires h5py") raise e def _create_link(h5f, link_name, target_name, link_type="soft", overwrite_data=False): """Create a link in a HDF5 file If member with name ``link_name`` already exists, delete it first or ignore link depending on global param ``overwrite_data``. :param h5f: :class:`h5py.File` object :param link_name: Link path :param target_name: Handle for target group or dataset :param str link_type: "soft" or "hard" :param bool overwrite_data: If True, delete existing member (group, dataset or link) with the same name. Default is False. """ if link_name not in h5f: _logger.debug("Creating link " + link_name + " -> " + target_name) elif overwrite_data: _logger.warn("Overwriting " + link_name + " with link to " + target_name) del h5f[link_name] else: _logger.warn(link_name + " already exist. Can't create link to " + target_name) return None if link_type == "hard": h5f[link_name] = h5f[target_name] elif link_type == "soft": h5f[link_name] = h5py.SoftLink(target_name) else: raise ValueError("link_type must be 'hard' or 'soft'") class Hdf5Writer(object): """Converter class to write the content of a data file to a HDF5 file. """ def __init__(self, h5path='/', overwrite_data=False, link_type="soft", create_dataset_args=None, min_size=500): """ :param h5path: Target path where the scan groups will be written in the output HDF5 file. :param bool overwrite_data: See documentation of :func:`write_to_h5` :param str link_type: ``"hard"`` or ``"soft"`` (default) :param dict create_dataset_args: Dictionary of args you want to pass to ``h5py.File.create_dataset``. See documentation of :func:`write_to_h5` :param int min_size: See documentation of :func:`write_to_h5` """ self.h5path = h5path if not h5path.startswith("/"): # target path must be absolute self.h5path = "/" + h5path if not self.h5path.endswith("/"): self.h5path += "/" self._h5f = None """h5py.File object, assigned in :meth:`write`""" if create_dataset_args is None: create_dataset_args = {} self.create_dataset_args = create_dataset_args self.min_size = min_size self.overwrite_data = overwrite_data # boolean self.link_type = link_type """'soft' or 'hard' """ self._links = [] """List of *(link_path, target_path)* tuples.""" def write(self, infile, h5f): """Do the conversion from :attr:`sfh5` (Spec file) to *h5f* (HDF5) All the parameters needed for the conversion have been initialized in the constructor. :param infile: :class:`SpecH5` object :param h5f: :class:`h5py.File` instance """ # Recurse through all groups and datasets to add them to the HDF5 self._h5f = h5f infile.visititems(self.append_member_to_h5, visit_links=True) # Handle the attributes of the root group root_grp = h5f[self.h5path] for key in infile.attrs: if self.overwrite_data or key not in root_grp.attrs: root_grp.attrs.create(key, numpy.string_(infile.attrs[key])) # Handle links at the end, when their targets are created for link_name, target_name in self._links: _create_link(self._h5f, link_name, target_name, link_type=self.link_type, overwrite_data=self.overwrite_data) self._links = [] def append_member_to_h5(self, h5like_name, obj): """Add one group or one dataset to :attr:`h5f`""" h5_name = self.h5path + h5like_name.lstrip("/") if is_softlink(obj): # links to be created after all groups and datasets h5_target = self.h5path + obj.path.lstrip("/") self._links.append((h5_name, h5_target)) elif is_dataset(obj): _logger.debug("Saving dataset: " + h5_name) member_initially_exists = h5_name in self._h5f if self.overwrite_data and member_initially_exists: _logger.warn("Overwriting dataset: " + h5_name) del self._h5f[h5_name] if self.overwrite_data or not member_initially_exists: # fancy arguments don't apply to small dataset if obj.size < self.min_size: ds = self._h5f.create_dataset(h5_name, data=obj.value) else: ds = self._h5f.create_dataset(h5_name, data=obj.value, **self.create_dataset_args) else: ds = self._h5f[h5_name] # add HDF5 attributes for key in obj.attrs: if self.overwrite_data or key not in ds.attrs: ds.attrs.create(key, numpy.string_(obj.attrs[key])) if not self.overwrite_data and member_initially_exists: _logger.warn("Ignoring existing dataset: " + h5_name) elif is_group(obj): if h5_name not in self._h5f: _logger.debug("Creating group: " + h5_name) grp = self._h5f.create_group(h5_name) else: grp = self._h5f[h5_name] # add HDF5 attributes for key in obj.attrs: if self.overwrite_data or key not in grp.attrs: grp.attrs.create(key, numpy.string_(obj.attrs[key])) def write_to_h5(infile, h5file, h5path='/', mode="a", overwrite_data=False, link_type="soft", create_dataset_args=None, min_size=500): """Write content of a h5py-like object into a HDF5 file. :param infile: Path of input file, or :class:`commonh5.File` object or :class:`commonh5.Group` object :param h5file: Path of output HDF5 file or HDF5 file handle (`h5py.File` object) :param str h5path: Target path in HDF5 file in which scan groups are created. Default is root (``"/"``) :param str mode: Can be ``"r+"`` (read/write, file must exist), ``"w"`` (write, existing file is lost), ``"w-"`` (write, fail if exists) or ``"a"`` (read/write if exists, create otherwise). This parameter is ignored if ``h5file`` is a file handle. :param bool overwrite_data: If ``True``, existing groups and datasets can be overwritten, if ``False`` they are skipped. This parameter is only relevant if ``file_mode`` is ``"r+"`` or ``"a"``. :param str link_type: *"soft"* (default) or *"hard"* :param dict create_dataset_args: Dictionary of args you want to pass to ``h5py.File.create_dataset``. This allows you to specify filters and compression parameters. Don't specify ``name`` and ``data``. These arguments are only applied to datasets larger than 1MB. :param int min_size: Minimum number of elements in a dataset to apply chunking and compression. Default is 500. The structure of the spec data in an HDF5 file is described in the documentation of :mod:`silx.io.spech5`. """ writer = Hdf5Writer(h5path=h5path, overwrite_data=overwrite_data, link_type=link_type, create_dataset_args=create_dataset_args, min_size=min_size) # both infile and h5file can be either file handle or a file name: 4 cases if not isinstance(h5file, h5py.File) and not is_group(infile): with silx.io.open(infile) as h5pylike: with h5py.File(h5file, mode) as h5f: writer.write(h5pylike, h5f) elif isinstance(h5file, h5py.File) and not is_group(infile): with silx.io.open(infile) as h5pylike: writer.write(h5pylike, h5file) elif is_group(infile) and not isinstance(h5file, h5py.File): with h5py.File(h5file, mode) as h5f: writer.write(infile, h5f) else: writer.write(infile, h5file) def convert(infile, h5file, mode="w-", create_dataset_args=None): """Convert a supported file into an HDF5 file, write scans into the root group (``/``). This is a convenience shortcut to call:: write_to_h5(h5like, h5file, h5path='/', mode="w-", link_type="soft") :param infile: Path of input file or :class:`commonh5.File` object or :class:`commonh5.Group` object :param h5file: Path of output HDF5 file, or h5py.File object :param mode: Can be ``"w"`` (write, existing file is lost), ``"w-"`` (write, fail if exists). This is ignored if ``h5file`` is a file handle. :param create_dataset_args: Dictionary of args you want to pass to ``h5py.File.create_dataset``. This allows you to specify filters and compression parameters. Don't specify ``name`` and ``data``. """ if mode not in ["w", "w-"]: raise IOError("File mode must be 'w' or 'w-'. Use write_to_h5" + " to append data to an existing HDF5 file.") write_to_h5(infile, h5file, h5path='/', mode=mode, create_dataset_args=create_dataset_args) silx-0.6.1/silx/io/specfile/0000755023630100076410000000000013202537043016320 5ustar knobelusers00000000000000silx-0.6.1/silx/io/specfile/include/0000755023630100076410000000000013202537043017743 5ustar knobelusers00000000000000silx-0.6.1/silx/io/specfile/include/SpecFileP.h0000644023630100076410000000601713202530432021725 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /*************************************************************************** * * File: SpecFileP.h * * Description: Include file for treating spec data files. * * Author: Vicente Rey * * Created: 2 March 1995 * * (copyright by E.S.R.F. March 1995) * ***************************************************************************/ #ifndef SPECFILE_P_H #define SPECFILE_P_H /* * Defines. */ #define FILE_HEADER 0 #define SCAN 1 #define FROM_SCAN 0 #define FROM_FILE 1 #define SF_COMMENT 'C' #define SF_DATE 'D' #define SF_EPOCH 'E' #define SF_FILE_NAME 'F' #define SF_GEOMETRY 'G' #define SF_INTENSITY 'I' #define SF_LABEL 'L' #define SF_MON_NORM 'M' #define SF_COLUMNS 'N' #define SF_MOTOR_NAMES 'O' #define SF_MOTOR_POSITIONS 'P' #define SF_RECIP_SPACE 'Q' #define SF_RESULTS 'R' #define SF_SCAN_NUM 'S' #define SF_TIME_NORM 'T' #define SF_USER_DEFINED 'U' #define SF_TEMPERATURE 'X' #define SF_MCA_DATA '@' /* * Library internal functions */ extern int sfSetCurrent ( SpecFile *sf, long index, int *error); extern ObjectList *findScanByIndex ( ListHeader *list, long index ); extern ObjectList *findScanByNo ( ListHeader *list, long scan_no, long order ); extern void freeArr ( void ***ptr, long lines ); extern void freeAllData ( SpecFile *sf ); extern long mulstrtod ( char *str, double **arr, int *error ); extern int sfGetHeaderLine ( SpecFile *sf, int from, char character, char **buf,int *error); #endif /* SPECFILE_P_H */ silx-0.6.1/silx/io/specfile/include/SpecFileCython.h0000644023630100076410000000263313202530306022772 0ustar knobelusers00000000000000#/*########################################################################## # coding: utf-8 # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ /* The original SpecFile.h has a `#define L 2` directive that breaks cython lists and memory views. */ #include "SpecFile.h" #undef L silx-0.6.1/silx/io/specfile/include/SpecFile.h0000644023630100076410000002701013202530432021601 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /*************************************************************************** * * File: SpecFile.h * * Description: Include file for treating spec data files. * * Author: Vicente Rey * * Created: 2 March 1995 * * (copyright by E.S.R.F. March 1995) * ***************************************************************************/ #ifndef SPECFILE_H #define SPECFILE_H #include #include #include #include #include /* #include */ #include #include #ifdef _WINDOWS /* compiling on windows */ #include #include #define SF_OPENFLAG O_RDONLY | O_BINARY #define SF_WRITEFLAG O_CREAT | O_WRONLY #define SF_UMASK 0666 #else /* if not windows */ #define SF_OPENFLAG O_RDONLY #define SF_WRITEFLAG O_CREAT | O_WRONLY #define SF_UMASK 0666 #endif #ifdef _GENLIB /* for windows dll generation */ #define DllExport __declspec (dllexport) #else #define DllExport #endif #ifdef SUN4 #define SEEK_SET 0 #define SEEK_CUR 1 #define SEEK_END 2 #endif /* * Defines. */ #define ROW 0 /* data_info index for no. of data rows */ #define COL 1 /* data_info index for no. of data columns*/ #define REG 2 /* data_info index for regular */ #define H 0 #define K 1 #define L 2 #define ABORTED -1 #define NOT_ABORTED 0 #define SF_ERR_NO_ERRORS 0 #define SF_ERR_MEMORY_ALLOC 1 #define SF_ERR_FILE_OPEN 2 #define SF_ERR_FILE_CLOSE 3 #define SF_ERR_FILE_READ 4 #define SF_ERR_FILE_WRITE 5 #define SF_ERR_LINE_NOT_FOUND 6 #define SF_ERR_SCAN_NOT_FOUND 7 #define SF_ERR_HEADER_NOT_FOUND 8 #define SF_ERR_LABEL_NOT_FOUND 9 #define SF_ERR_MOTOR_NOT_FOUND 10 #define SF_ERR_POSITION_NOT_FOUND 11 #define SF_ERR_LINE_EMPTY 12 #define SF_ERR_USER_NOT_FOUND 13 #define SF_ERR_COL_NOT_FOUND 14 #define SF_ERR_MCA_NOT_FOUND 15 typedef struct _SfCursor { long int scanno; /* nb of scans */ long int cursor; /* beginning of current scan */ long int hdafoffset; /* global offset of header after beginning of data */ long int datalines; /* contains nb of data lines */ long int dataoffset; /* contains data offset from begin of scan */ long int mcaspectra; /* contains nb of mca spectra in scan */ long int bytecnt; /* total file byte count */ long int what; /* scan of file block */ long int data; /* data flag */ long int file_header; /* address of file header for this scan */ long int fileh_size; /* size of it */ } SfCursor; typedef struct _SpecFile{ int fd; long m_time; char *sfname; struct _ListHeader list; long int no_scans; ObjectList *current; char *scanbuffer; long scanheadersize; char *filebuffer; long filebuffersize; long scansize; char **labels; long int no_labels; char **motor_names; long int no_motor_names; double *motor_pos; long int no_motor_pos; double **data; long *data_info; SfCursor cursor; short updating; } SpecFile; typedef struct _SpecFileOut{ SpecFile *sf; long *list; long list_size; long file_header; } SpecFileOut; typedef struct _SpecScan { long int index; long int scan_no; long int order; long int offset; long int size; long int last; long int file_header; long int data_offset; long int hdafter_offset; long int mcaspectra; } SpecScan; /* * Function declarations. */ /* * Init */ /* * init */ DllExport extern SpecFile *SfOpen ( char *name, int *error ); DllExport extern short SfUpdate ( SpecFile *sf,int *error ); DllExport extern int SfClose ( SpecFile *sf ); /* * indexes */ DllExport extern long SfScanNo ( SpecFile *sf ); DllExport extern long *SfList ( SpecFile *sf, int *error ); DllExport extern long SfCondList ( SpecFile *sf, long cond, long **scan_list, int *error ); DllExport extern long SfIndex ( SpecFile *sf, long number, long order ); DllExport extern long SfIndexes ( SpecFile *sf, long number, long **indexlist ); DllExport extern long SfNumber ( SpecFile *sf, long index ); DllExport extern long SfOrder ( SpecFile *sf, long index ); DllExport extern int SfNumberOrder ( SpecFile *sf, long index, long *number, long *order ); /* * Header */ DllExport extern char *SfCommand ( SpecFile *sf, long index, int *error ); DllExport extern long SfNoColumns ( SpecFile *sf, long index, int *error ); DllExport extern char *SfDate ( SpecFile *sf, long index, int *error ); DllExport extern long SfEpoch ( SpecFile *sf, long index, int *error ); DllExport extern long SfNoHeaderBefore ( SpecFile *sf, long index, int *error ); DllExport extern double *SfHKL ( SpecFile *sf, long index, int *error ); DllExport extern long SfHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error ); DllExport extern long SfGeometry ( SpecFile *sf, long index, char ***lines, int *error ); DllExport extern long SfFileHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error ); DllExport extern char *SfFileDate ( SpecFile *sf, long index, int *error ); DllExport extern char *SfUser ( SpecFile *sf, long index, int *error ); DllExport extern char *SfTitle ( SpecFile *sf, long index, int *error ); /* * Labels */ DllExport extern long SfAllLabels ( SpecFile *sf, long index, char ***labels, int *error ); DllExport extern char *SfLabel ( SpecFile *sf, long index, long column, int *error ); /* * Motors */ DllExport extern long SfAllMotors ( SpecFile *sf, long index, char ***names, int *error ); DllExport extern char * SfMotor ( SpecFile *sf, long index, long number, int *error ); DllExport extern long SfAllMotorPos ( SpecFile *sf, long index, double **pos, int *error ); DllExport extern double SfMotorPos ( SpecFile *sf, long index, long number, int *error ); DllExport extern double SfMotorPosByName ( SpecFile *sf, long index, char *name, int *error ); /* * Data */ DllExport extern long SfNoDataLines ( SpecFile *sf, long index, int *error ); DllExport extern int SfData ( SpecFile *sf, long index, double ***data, long **data_info, int *error ); DllExport extern long SfDataAsString ( SpecFile *sf, long index, char ***data, int *error ); DllExport extern long SfDataLine ( SpecFile *sf, long index, long line, double **data_line, int *error ); DllExport extern long SfDataCol ( SpecFile *sf, long index, long col, double **data_col, int *error ); DllExport extern long SfDataColByName ( SpecFile *sf, long index, char *label, double **data_col, int *error ); /* * MCA functions */ DllExport extern long SfNoMca ( SpecFile *sf, long index, int *error ); DllExport extern int SfGetMca ( SpecFile *sf, long index, long mcano, double **retdata, int *error ); DllExport extern long SfMcaCalib ( SpecFile *sf, long index, double **calib, int *error ); /* * Write and write related functions */ DllExport extern SpecFileOut *SfoInit ( SpecFile *sf, int *error ); DllExport extern void SfoClose ( SpecFileOut *sfo ); DllExport extern long SfoSelectAll ( SpecFileOut *sfo, int *error ); DllExport extern long SfoSelectOne ( SpecFileOut *sfo, long index, int *error ); DllExport extern long SfoSelect ( SpecFileOut *sfo, long *list, int *error ); DllExport extern long SfoSelectRange ( SpecFileOut *sfo, long begin, long end, int *error ); DllExport extern long SfoRemoveOne ( SpecFileOut *sfo, long index, int *error ); DllExport extern long SfoRemove ( SpecFileOut *sfo, long *list, int *error ); DllExport extern long SfoRemoveRange ( SpecFileOut *sfo, long begin, long end, int *error ); DllExport extern long SfoRemoveAll ( SpecFileOut *sfo, int *error ); DllExport extern long SfoWrite ( SpecFileOut *sfo, char *name, int *error ); DllExport extern long SfoGetList ( SpecFileOut *sfo, long **list, int *error ); /* * Memory free functions */ DllExport extern void freeArrNZ ( void ***ptr, long no_lines ); DllExport extern void freePtr ( void *ptr ); /* * Sf Tools */ DllExport extern void SfShow ( SpecFile *sf ); DllExport extern void SfShowScan ( SpecFile *sf ,long index); /* * Error */ DllExport extern char *SfError ( int code ); #endif /* SPECFILE_H */ silx-0.6.1/silx/io/specfile/include/Lists.h0000644023630100076410000000430013202530432021202 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /*************************************************************************** * * File: Lists.h * * Description: Include file for dealing with lists. * * Author: Vicente Rey * * Created: 22 May 1995 * * (copyright by E.S.R.F. March 1995) * ***************************************************************************/ #ifndef LISTS_H #define LISTS_H /* #include */ typedef struct _ObjectList { struct _ObjectList *next; struct _ObjectList *prev; void *contents; } ObjectList; typedef struct _ListHeader { struct _ObjectList *first; struct _ObjectList *last; } ListHeader; extern ObjectList * findInList ( ListHeader *list, int (*proc)(void *,void *), void *value ); extern long addToList ( ListHeader *list, void *object,long size); extern void unlinkFromList ( ListHeader *list, ObjectList *element); #endif /* LISTS_H */ silx-0.6.1/silx/io/specfile/include/locale_management.h0000644023630100076410000000255713202530432023553 0ustar knobelusers00000000000000#/*########################################################################## # Copyright (C) 2012-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ #ifndef PyMca_LOCALE_MANAGEMENT_H #define PyMca_LOCALE_MANAGEMENT_H double PyMcaAtof(const char*); #endif silx-0.6.1/silx/io/specfile/src/0000755023630100076410000000000013202537043017107 5ustar knobelusers00000000000000silx-0.6.1/silx/io/specfile/src/sflists.c0000644023630100076410000001273013202530432020740 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sflists.c * * Project: SpecFile library * * Description: Functions to handle lists * * Author: V.Rey * * Date: $Date: 2003/03/06 17:00:42 $ * ************************************************************************/ /* * Log: $Log: sflists.c,v $ * Log: Revision 1.1 2003/03/06 17:00:42 sole * Log: Initial revision * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Revision 2.1 2000/07/31 19:03:25 19:03:25 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ #include #include #include #include /* * Function declaration */ ObjectList * findInList ( ListHeader *list, int (*proc)(void *,void *), void *value ); long addToList ( ListHeader *list, void *object, long size ); void unlinkFromList ( ListHeader *list, ObjectList *element ); static long linkToList ( ListHeader *list, void *object ); /********************************************************************* * Function: ObjectList *findInList( list, proc, value ) * * Description: Looks for an list element. * * Parameters: * Input : (1) ListHeader pointer * (2) Comp. procedure * (3) value * Returns: * Pointer to the found element , * NULL if not found . * *********************************************************************/ ObjectList * findInList( ListHeader *list, int (*proc)(void * , void *), void *value ) { register ObjectList *ptr; for ( ptr=list->first ; ptr ; ptr=ptr->next ) { if ( (*proc)(ptr->contents, value) ) { return( ptr ); } } return (ObjectList *)NULL; } /********************************************************************* * Function: int addToList( list, object, size ) * * Description: Adds an element to the list. * * Parameters: * Input : (1) List pointer * (2) Pointer to the new element * (3) Size of the new element * Returns: * ( 0 ) => OK * ( -1 ) => error * *********************************************************************/ long addToList( ListHeader *list, void *object, long size ) { void *newobj; if ( (newobj = (void *)malloc(size)) == (void *)NULL ) return( -1 ); memcpy(newobj, object, size); return( linkToList( list, newobj ) ); } /********************************************************************* * Function: int linkToList( list, object ) * * Description: Adds an element to the list. * * Parameters: * Input: (1) ListHeader pointer * (2) pointer to the new element * Returns: * ( 0 ) => OK * ( -1 ) => error * *********************************************************************/ static long linkToList( ListHeader *list, void *object ) { ObjectList *newobj; if ((newobj = (ObjectList *) malloc(sizeof(ObjectList))) == (ObjectList *) NULL) return( -1 ); newobj->contents = object; newobj->prev = list->last; newobj->next = NULL; if (list->first == (ObjectList *)NULL) { list->first = newobj; } else { (list->last)->next = newobj; } list->last = newobj; return( 0 ); } /********************************************************************* * Function: int unlinkFromList( list, element ) * * Description: Removes an element from the list. * * Parameters: * Input : (1) List pointer * (2) Pointer to the element * *********************************************************************/ void unlinkFromList( ListHeader *list, ObjectList *element ) { if ( element != (ObjectList *)NULL ) { if ( element->next != (ObjectList *)NULL ) { element->next->prev = element->prev; } else { list->last = element->prev ; } if ( element->prev != (ObjectList *)NULL ) { element->prev->next = element->next; } else { list->first = element->next; } free( element->contents ); free( element ); } } silx-0.6.1/silx/io/specfile/src/sflabel.c0000644023630100076410000004167313202530432020671 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sflabel.c * * Project: SpecFile library * * Description: Access to labels and motors * * Author: V.Rey * * Date: $Date: 2003/02/03 13:15:35 $ * ************************************************************************/ /* * Log: * $Log: sflabel.c,v $ * Revision 1.3 2003/02/03 13:15:35 rey * Small change in handling of empty spaces at the beginning of the label buffer * * Revision 1.2 2002/11/20 09:56:31 sole * Some macros leave more than 1 space between #L and the first label. * Routine modified to be able to deal with already collected data. * The offending macro(s) should be re-written. * * Revision 1.1 2002/11/20 08:21:34 sole * Initial revision * * Revision 3.0 2000/12/20 14:17:19 rey * Python version available * * Revision 2.2 2000/12/20 12:12:08 rey * bug corrected with SfAllMotors * * Revision 2.1 2000/07/31 19:05:10 19:05:10 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ #include #include #include #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX #include #endif #endif /* * Declarations */ DllExport char * SfLabel ( SpecFile *sf, long index, long column, int *error ); DllExport long SfAllLabels ( SpecFile *sf, long index, char ***labels, int *error ); DllExport char * SfMotor ( SpecFile *sf, long index, long number, int *error ); DllExport long SfAllMotors ( SpecFile *sf, long index, char ***names, int *error ); DllExport double SfMotorPos ( SpecFile *sf, long index, long number, int *error ); DllExport double SfMotorPosByName( SpecFile *sf, long index, char *name, int *error ); DllExport long SfAllMotorPos ( SpecFile *sf, long index, double **pos, int *error ); /********************************************************************* * Function: char *SfLabel( sf, index, column, error ) * * Description: Reads one label. * * Parameters: * Input : (1) SpecScan pointer * (2) Scan index * (3) Column number * Output: (4) Error number * Returns: * Pointer to the label , * or NULL if errors occured. * Possible errors: * SF_ERR_MEMORY_ALLOC | => getStrFromArr() * SF_ERR_LABEL_NOT_FOUND * SF_ERR_LINE_EMPTY | * SF_ERR_LINE_NOT_FOUND | * SF_ERR_SCAN_NOT_FOUND | => SfAllLabels() * SF_ERR_FILE_READ | * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport char * SfLabel( SpecFile *sf, long index, long column, int *error ) { char **labels=NULL; long no_labels; char *label=NULL; long selection; if (sfSetCurrent(sf,index,error) == -1) return((char *)NULL); if (sf->no_labels != -1 ) { no_labels = sf->no_labels; } else { no_labels = SfAllLabels(sf,index,&labels,error); } if (no_labels == 0 || no_labels == -1) return((char *)NULL); if ( column < 0 ) { selection = no_labels + column; } else { selection = column - 1; } if (selection < 0 || selection > no_labels - 1 ) { *error = SF_ERR_COL_NOT_FOUND; if (labels != (char **) NULL ) freeArrNZ((void ***)&labels,no_labels); return((char *)NULL); } if (labels != (char **)NULL) { label = (char *)strdup(labels[selection]); freeArrNZ((void ***)&labels,no_labels); } else { label = (char *) strdup(sf->labels[selection]); } return( label ); } /********************************************************************* * Function: long SfAllLabels( sf, index, labels, error ) * * Description: Reads all labels in #L lines * * Parameters: * Input : (1) SpecScan pointer * (2) Scan index * Output: (3) Labels * (4) Error number * Returns: * Number of labels * ( -1 ) if error. * Possible errors: * SF_ERR_MEMORY_ALLOC ||=> cpyStrArr(),lines2words() * SF_ERR_SCAN_NOT_FOUND | => SfHeader() * SF_ERR_FILE_READ | * SF_ERR_LINE_EMPTY * SF_ERR_LINE_NOT_FOUND * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport long SfAllLabels( SpecFile *sf, long index, char ***labels, int *error ) { static char tmplab[40]; char **labarr; char *onelabel; char *ptr, *buf=NULL; long no_labels = 0; short i; /* * select scan */ if (sfSetCurrent(sf,index,error) == -1) { *labels = NULL; return(0); } /* * Do not do it if already done */ if (sf->labels != (char **)NULL ) { labarr = (char **)malloc(sizeof(char *) * sf->no_labels); for ( i=0;ino_labels;i++) labarr[i] = (char *)strdup(sf->labels[i]); *labels = labarr; return(sf->no_labels); } /* * else.. */ if (sfGetHeaderLine(sf,FROM_SCAN,SF_LABEL,&buf,error) == -1) { *labels = NULL; return(0); } if ( buf[0] == '\0') { *labels = NULL; return(0); } if ( (labarr = (char **)malloc( sizeof(char *))) == (char **)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(-1); } no_labels = 0; i = 0; /* * avoid problem of having too many spaces at the beginning * with bad written macros -> added check for empty string * * get rid of spaces at the beginning of the string buffer */ ptr = buf; while((ptr < buf + strlen(buf) -1) && (*ptr == ' ')) ptr++; for (i=0;ptr < buf + strlen(buf) -1;ptr++,i++) { if (*ptr==' ' && *(ptr+1) == ' ') { /* two spaces delimits one label */ tmplab[i] = '\0'; labarr = (char **)realloc( labarr, (no_labels+1) * sizeof(char *)); onelabel = (char *) malloc (i+2); strcpy(onelabel,tmplab); labarr[no_labels] = onelabel; no_labels++; i=-1; for(;*(ptr+1) == ' ' && ptr < buf+strlen(buf)-1;ptr++); } else { tmplab[i] = *ptr; } } if (*ptr != ' ') { tmplab[i] = *ptr; i++; } tmplab[i] = '\0'; labarr = (char **)realloc( labarr, (no_labels+1) * sizeof(char *)); onelabel = (char *) malloc (i+2); strcpy(onelabel,tmplab); labarr[no_labels] = onelabel; no_labels++; /* * Save in specfile structure */ sf->no_labels = no_labels; sf->labels = (char **) malloc( sizeof(char *) * no_labels); for (i=0;ilabels[i] = (char *) strdup(labarr[i]); *labels = labarr; return( no_labels ); } /********************************************************************* * Function: long SfAllMotors( sf, index, names, error ) * * Description: Reads all motor names in #O lines (in file header) * * Parameters: * Input : (1) SpecScan pointer * (2) Scan index * Output: (3) Names * (4) Error number * Returns: * Number of found names * ( -1 ) if errors. * Possible errors: * SF_ERR_SCAN_NOT_FOUND * SF_ERR_LINE_NOT_FOUND * SF_ERR_LINE_EMPTY * SF_ERR_MEMORY_ALLOC || => cpyStrArr(),lines2words() * SF_ERR_FILE_READ | * SF_ERR_HEADER_NOT_FOUND | => SfFileHeader() * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport long SfAllMotors( SpecFile *sf, long index, char ***names, int *error ) { char **lines; char *thisline, *endline; char **motarr; char *onemot; static char tmpmot[40]; char *ptr; long motct = 0; long no_lines; short i,j; /* * go to scan */ if (sfSetCurrent(sf,index,error) == -1) { *names = NULL; return(0); } /* * if motor names for this scan have already been read */ if (sf->motor_names != (char **)NULL) { motarr = (char **)malloc(sizeof(char *) * sf->no_motor_names); for (i=0;ino_motor_names;i++) { motarr[i] = (char *) strdup (sf->motor_names[i]); } *names = motarr; return(sf->no_motor_names); } /* * else */ no_lines = SfHeader(sf, index,"O",&lines,error); if (no_lines == -1 || no_lines == 0 ) { *names = (char **) NULL; return(-1); } if ( (motarr = (char **)malloc( sizeof(char *))) == (char **)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(-1); } motct = 0; for (j=0;jno_motor_names = motct; sf->motor_names = (char **)malloc(sizeof(char *) * motct); for (i=0;imotor_names[i] = (char *)strdup(motarr[i]); } *names = motarr; return( motct ); } DllExport char * SfMotor( SpecFile *sf, long index, long motnum, int *error ) { char **motors=NULL; long nb_mot; char *motor=NULL; long selection; /* * go to scan */ if (sfSetCurrent(sf,index,error) == -1) { return((char *)NULL); } if ( sf->no_motor_names != -1 ) { nb_mot = sf->no_motor_names; } else { nb_mot = SfAllMotors(sf,index,&motors,error); } if (nb_mot == 0 || nb_mot == -1) return((char *)NULL); if ( motnum < 0 ) { selection = nb_mot + motnum; } else { selection = motnum - 1; } if (selection < 0 || selection > nb_mot - 1 ) { *error = SF_ERR_COL_NOT_FOUND; if (motors != (char **) NULL) freeArrNZ((void ***)&motors,nb_mot); return((char *)NULL); } if (motors != (char **) NULL) { motor = (char *)strdup(motors[selection]); freeArrNZ((void ***)&motors,nb_mot); } else { motor = (char *)strdup(sf->motor_names[selection]); } return( motor ); } DllExport long SfAllMotorPos ( SpecFile *sf, long index, double **retpos, int *error ) { char **lines; char *thisline, *endline; double *posarr; static double pos[200]; static char posstr[40]; char *ptr; long motct = 0; long no_lines; short i,j; #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX char *currentLocaleBuffer; char localeBuffer[21]; #endif #endif if (sfSetCurrent(sf,index,error) == -1) { *retpos = (double *) NULL; return(0); } /* * if motors position for this scan have already been read */ if (sf->motor_pos != (double *)NULL) { posarr = (double *)malloc(sizeof(double) * sf->no_motor_pos); for (i=0;ino_motor_pos;i++) { posarr[i] = sf->motor_pos[i]; } *retpos = posarr; return(sf->no_motor_pos); } /* * else */ no_lines = SfHeader(sf, index,"P",&lines,error); if (no_lines == -1 || no_lines == 0 ) { *retpos = (double *) NULL; return(-1); } motct = 0; #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); strcpy(localeBuffer, currentLocaleBuffer); setlocale(LC_NUMERIC, "C\0"); #endif #endif for (j=0;jno_motor_pos = motct; sf->motor_pos = (double *)malloc(sizeof(double) * motct); memcpy(sf->motor_pos,pos,motct * sizeof(double)); /* * and return */ posarr = (double *) malloc ( sizeof(double) * motct ) ; memcpy(posarr,pos,motct * sizeof(double)); *retpos = posarr; return( motct ); } DllExport double SfMotorPos( SpecFile *sf, long index, long motnum, int *error ) { double *motorpos=NULL; long nb_mot; double retpos; long selection; if (sfSetCurrent(sf,index,error) == -1) return(HUGE_VAL); if (sf->no_motor_pos != -1 ) { nb_mot = sf->no_motor_pos; } else { nb_mot = SfAllMotorPos(sf,index,&motorpos,error); } if (nb_mot == 0 || nb_mot == -1) return(HUGE_VAL); if ( motnum < 0 ) { selection = nb_mot + motnum; } else { selection = motnum - 1; } if (selection < 0 || selection > nb_mot - 1 ) { *error = SF_ERR_COL_NOT_FOUND; if (motorpos != (double *)NULL) free(motorpos); return(HUGE_VAL); } if (motorpos != (double *)NULL) { retpos = motorpos[selection]; free(motorpos); } else { retpos = sf->motor_pos[selection]; } return( retpos ); } DllExport double SfMotorPosByName( SpecFile *sf, long index, char *name, int *error ) { char **motors=NULL; long nb_mot, idx, selection; short tofree=0; if (sfSetCurrent(sf,index,error) == -1) return(HUGE_VAL); if ( sf->no_motor_names != -1 ) { nb_mot = sf->no_motor_names; motors = sf->motor_names; } else { nb_mot = SfAllMotors(sf,index,&motors,error); tofree=1; } if (nb_mot == 0 || nb_mot == -1) return(HUGE_VAL); for (idx = 0;idx #include #ifdef WIN32 #include #include #else #include #endif #include #define ON_COMMENT 0 #define ON_ABO 1 #define ON_RES 2 /* * Declarations */ DllExport long * SfList ( SpecFile *sf, int *error ); DllExport long SfIndexes ( SpecFile *sf, long number, long **idxlist ); DllExport long SfIndex ( SpecFile *sf, long number, long order ); DllExport long SfCondList ( SpecFile *sf, long cond, long **scan_list, int *error ); DllExport long SfScanNo ( SpecFile *sf ); DllExport int SfNumberOrder ( SpecFile *sf, long index, long *number, long *order ); DllExport long SfNumber ( SpecFile *sf, long index ); DllExport long SfOrder ( SpecFile *sf, long index ); /* * Internal Functions */ static int checkAborted( SpecFile *sf, ObjectList *ptr, int *error ); /********************************************************************* * Function: long *SfList( sf, error ) * * Description: Creates an array with all scan numbers. * * Parameters: * Input : SpecFile pointer * Returns: * Array with scan numbers. * NULL if errors occured. * Possible errors: * SF_ERR_MEMORY_ALLOC * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport long * SfList( SpecFile *sf, int *error ) { register ObjectList *ptr; long *scan_list; long i = 0; scan_list = (long *)malloc( sizeof(long) * (sf->no_scans) ); if ( scan_list == (long *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( scan_list ); } for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ,i++) { scan_list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); } /*printf("scanlist[%li] = %li\n",i-1,scan_list[i-1]);*/ return( scan_list ); } /********************************************************************* * Function: long SfIndexes( sf, number , idxlist) * * Description: Creates an array with all indexes with the same scan * number. * * Parameters: * Input : SpecFile pointer * scan number * Output : array with scan indexes * Returns: * Number of indexes found * Possible errors: * None possible * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport long SfIndexes( SpecFile *sf, long number, long **idxlist ) { ObjectList *ptr; long i; long *indexes; long *arr; i = 0; indexes = (long *)malloc(sf->no_scans * sizeof(long)); for (ptr = sf->list.first; ptr; ptr=ptr->next ) { if ( number == ((SpecScan *)(ptr->contents))->scan_no) { indexes[i] = ((SpecScan *)(ptr->contents))->index; i++; } } if (i == 0) arr = (long *) NULL; else { arr = (long *)malloc(sizeof(long) * i); memcpy(arr,indexes,sizeof(long) * i); } *idxlist = arr; free(indexes); return( i ); } /********************************************************************* * Function: long SfIndex( sf, number, order ) * * Description: Gets scan index from scan number and order. * * Parameters: * Input : (1) Scan number * (2) Scan order * Returns: * Index number. * (-1) if not found. * *********************************************************************/ DllExport long SfIndex( SpecFile *sf, long number, long order ) { ObjectList *ptr; ptr = findScanByNo( &(sf->list), number, order ); if ( ptr != (ObjectList *)NULL ) return( ((SpecScan *)(ptr->contents))->index ); return( -1 ); } /********************************************************************* * Function: long SfCondList( sf, cond, scan_list, error ) * * Description: Creates an array with all scan numbers. * * Parameters: * Input : (1) SpecFile pointer * (2) Condition : 0 => not aborted scans ( NOT_ABORTED ) * -1 => aborted scans ( ABORTED ) * nn => more than 'nn' data lines * Output: (3) Scan list * (4) error code * Returns: * Number of found scans. * ( -1 ) if errors occured. * Possible errors: * SF_ERR_MEMORY_ALLOC * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport long SfCondList( SpecFile *sf, long cond, long **scan_list, int *error ) { register ObjectList *ptr; long *list; long i = 0; int retcheck; long index; *scan_list = (long *)NULL; list = (long *)malloc( sizeof(long) * (sf->no_scans) ); if ( list == (long *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( -1 ); } /* * Aborted scans . */ if ( cond < 0 ) { /* aborted scans */ for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ) { retcheck = checkAborted( sf, ptr, error ); if ( retcheck < 0 ) { free( list ); return( -1 ); } else if ( retcheck > 0) { list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); i++; } } } else if ( cond == 0 ) { /* not aborted scans */ for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ) { retcheck = checkAborted( sf, ptr, error ); if ( retcheck < 0 ) { free( list ); return( -1 ); } else if ( retcheck == 0 ) { list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); i++; } } } else { /* cond > 0 - more than n data_lines */ for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ) { index = ( ((SpecScan *)(ptr->contents))->index ); if ( SfNoDataLines(sf,index,error) <= cond ) continue; list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); i++; } } *scan_list = ( long * ) malloc ( i * sizeof(long)); if ( *scan_list == (long *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( -1 ); } memcpy(*scan_list,list, i * sizeof(long)); free(list); return( i ); } /********************************************************************* * Function: long SfScanNo( sf ) * * Description: Gets number of scans. * * Parameters: * Input :(1) SpecFile pointer * Returns: * Number of scans. * *********************************************************************/ DllExport long SfScanNo( SpecFile *sf ) { return( sf->no_scans ); } /********************************************************************* * Function: int SfNumberOrder( sf, index, number, order ) * * Description: Gets scan number and order from index. * * Parameters: * Input : * (1) SpecFile pointer * (2) Scan index * Output: * (3) Scan number * (4) Scan order * Returns: * ( -1 ) => not found * ( 0 ) => found * *********************************************************************/ DllExport int SfNumberOrder( SpecFile *sf, long index, long *number, long *order ) { register ObjectList *list; *number = -1; *order = -1; /* * Find scan . */ list = findScanByIndex( &(sf->list), index ); if ( list == (ObjectList *)NULL ) return( -1 ); *number = ((SpecScan *)list->contents)->scan_no; *order = ((SpecScan *)list->contents)->order; return( 0 ); } /********************************************************************* * Function: long SfNumber( sf, index ) * * Description: Gets scan number from index. * * Parameters: * Input : (1) SpecFile pointer * (2) Scan index * Returns: * Scan number. * ( -1 ) => not found * *********************************************************************/ DllExport long SfNumber( SpecFile *sf, long index ) { register ObjectList *list; /* * Find scan . */ list = findScanByIndex( &(sf->list), index ); if ( list == (ObjectList *)NULL ) return( -1 ); return( ((SpecScan *)list->contents)->scan_no ); } /********************************************************************* * Function: long SfOrder( sf, index ) * * Description: Gets scan order from index. * * Parameters: * Input : (1) SpecFile pointer * (2) Scan index * Returns: * Scan order. * ( -1 ) => not found * *********************************************************************/ DllExport long SfOrder( SpecFile *sf, long index ) { register ObjectList *list; /* * Find scan . */ list = findScanByIndex( &(sf->list), index ); if ( list == (ObjectList *)NULL ) return( -1 ); return( ((SpecScan *)list->contents)->order ); } /********************************************************************* * Function: int checkAborted( sf, ptr, error ) * * Description: Checks if scan was aborted or not . * * Parameters: * Input : (1) SpecScan pointer * (2) Pointer to the scan * Output: (3) Error number * Returns: * (-1 ) : error * ( 0 ) : not aborted * ( 1 ) : aborted * Possible errors: * SF_ERR_MEMORY_ALLOC | => readHeader() * SF_ERR_FILE_READ * *********************************************************************/ static int checkAborted( SpecFile *sf, ObjectList *ptr, int *error ) { long nbytes; long data_lines,size,from; SpecScan *scan; char *buffer,*cptr,next; int state=ON_COMMENT; int aborted=0; long index; scan = ptr->contents; index = scan->index; data_lines = SfNoDataLines(sf,index,error); if ( scan->hdafter_offset == -1 && data_lines > 0) { return(0); } else if ( data_lines <= 0 ) { /* * maybe aborted on first point * we have to all to know ( but no data anyway ) */ size = scan->size; from = scan->offset; } else { size = scan->last - scan->hdafter_offset; from = scan->hdafter_offset; } lseek(sf->fd,from,SEEK_SET); buffer = ( char * ) malloc (size); nbytes = read(sf->fd,buffer,size); if (nbytes == -1 ) { *error = SF_ERR_FILE_READ; return(-1); } if (buffer[0] == '#' && buffer[1] == 'C') { state = ON_COMMENT; } for ( cptr = buffer + 1; cptr < buffer + nbytes - 1; cptr++) { /* * Comment line */ if ( *cptr == '#' && *(cptr+1) == 'C' && *(cptr-1) == '\n') { state = ON_COMMENT; } /* * Check aborted */ if ( *(cptr-1) == 'a' && *cptr == 'b' && *(cptr+1) == 'o') { if ( state == ON_COMMENT ) { state = ON_ABO; } } if ( *(cptr-1) == 'r' && *cptr == 't' && *(cptr+1) == 'e') { if ( state == ON_ABO) { aborted = 1; } } /* * Check resume line */ if ( *(cptr-1) == 'r' && *cptr == 'e' && *(cptr+1) == 's') { if ( state == ON_COMMENT ) { state = ON_RES; } } if ( *(cptr-1) == 'u' && *cptr == 'm' && *(cptr+1) == 'e') { if ( state == ON_RES) { aborted = 0; } } /* * If data line... aborted is aborted */ if ( *cptr == '\n' ) { next = *(cptr+1); if (isdigit(next) || next == '+' || next == '-' || next == '@') { aborted = 0; } } } free(buffer); return(aborted); /* * To be implemented * - return 0 = not aborted * - return 1 = aborted * - return -1 = error * * implementation: read whole scan * - go to header after offset * - read all till end of scan with size * - search for a line with a) #C ( comment ) then "aborted" */ return( 0 ); } silx-0.6.1/silx/io/specfile/src/sftools.c0000644023630100076410000003550213202530432020744 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sftools.c * * Project: SpecFile library * * Description: General library tools * * Author: V.Rey * * Date: $Date: 2004/05/12 16:57:02 $ * ************************************************************************/ /* * Log: $Log: sftools.c,v $ * Log: Revision 1.2 2004/05/12 16:57:02 sole * Log: Windows support * Log: * Log: Revision 1.1 2003/09/12 10:34:11 sole * Log: Initial revision * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Log: Revision 2.2 2000/12/20 12:12:08 rey * Log: bug corrected with SfAllMotors * Log: * Revision 2.1 2000/07/31 19:05:07 19:05:07 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ #include #include #ifdef WIN32 #include #include #else #include #endif /* * Library Functions */ DllExport void freePtr ( void *ptr ); DllExport void freeArrNZ ( void ***ptr, long lines ); DllExport void SfShow (SpecFile *sf); DllExport void SfShowScan (SpecFile *sf, long index); /* * Function declaration */ void freeArr ( void ***ptr, long lines ); int sfSetCurrent ( SpecFile *sf, long index, int *error ); int sfSameFile ( SpecFile *sf, ObjectList *list ); int sfSameScan ( SpecFile *sf, long index ); int findIndex ( void *scan, void *number ); int findNoAndOr ( void *scan, void *number ); int findFirst ( void *scan, void *file_offset ); ObjectList *findScanByIndex ( ListHeader *list, long index ); ObjectList *findFirstInFile ( ListHeader *list, long file_offset ); ObjectList *findScanByNo ( ListHeader *list, long scan_no, long order ); long mulstrtod ( char *str, double **arr, int *error ); void freeAllData ( SpecFile *sf ); /* * Globals */ /********************************************************************* * Function: void sfSetCurrent( sf, list ) * * Description: Sets 'list' to current scan. * Updates SpecFile structure. * Parameters: * Input : (1) SpecFile pointer * (2) New scan * *********************************************************************/ int sfSetCurrent( SpecFile *sf, long index,int *error ) { ObjectList *list, *flist; SpecScan *scan, *fscan; long nbytes; long fileheadsize,start; /* * If same scan nothing to do */ if (sfSameScan(sf,index)) return(0); /* * It is a new scan. Free memory allocated for previous one. */ freeAllData(sf); /* * Find scan */ list = findScanByIndex(&(sf->list),index); if (list == (ObjectList *)NULL) { *error = SF_ERR_SCAN_NOT_FOUND; return(-1); } /* * Read full scan into buffer */ scan = list->contents; if (sf->scanbuffer != ( char * ) NULL) free(sf->scanbuffer); sf->scanbuffer = ( char *) malloc(scan->size); if (sf->scanbuffer == (char *)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(-1); } lseek(sf->fd,scan->offset,SEEK_SET); nbytes = read(sf->fd,sf->scanbuffer,scan->size); if ( nbytes == -1) { *error = SF_ERR_FILE_READ; return(-1); } if ( sf->scanbuffer[0] != '#' || sf->scanbuffer[1] != 'S') { *error = SF_ERR_FILE_READ; return(-1); } sf->scanheadersize = scan->data_offset - scan->offset; /* * if different file read fileheader also */ if (!sfSameFile(sf,list)) { if (sf->filebuffer != ( char * ) NULL) free(sf->filebuffer); start = scan->file_header; flist = findFirstInFile(&(sf->list),scan->file_header); if (flist == (ObjectList *) NULL) { fileheadsize = 0; sf->filebuffersize = fileheadsize; } else { fscan = flist->contents; fileheadsize = fscan->offset - start; } if (fileheadsize > 0) { sf->filebuffer = ( char *) malloc(fileheadsize); if (sf->filebuffer == (char *)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(-1); } lseek(sf->fd,start,SEEK_SET); read(sf->fd,sf->filebuffer,fileheadsize); if ( nbytes == -1) { *error = SF_ERR_FILE_READ; return(-1); } sf->filebuffersize = fileheadsize; } } sf->scansize = scan->size; sf->current = list; return(1); } /********************************************************************* * Function: int sfSameFile( sf, list ) * * Description: Checks if the current scan file header and * the new scan file header are the same. * Parameters: * Input : (1) SpecFile pointer * (2) New scan * Returns: * 1 - the same * 0 - not the same * *********************************************************************/ int sfSameFile( SpecFile *sf, ObjectList *list ) { if (sf->current) { return ( ((SpecScan *)sf->current->contents)->file_header == ((SpecScan *)list->contents)->file_header ); } else return(0); } /********************************************************************* * Function: int sfSameScan( sf, index ) * * Description: Checks if the current scan and * the new scan are the same. * Parameters: * Input : (1) SpecFile pointer * (2) New scan index * Returns: * 1 - the same * 0 - not the same * *********************************************************************/ int sfSameScan( SpecFile *sf, long index ) { if ( sf->current == (ObjectList *)NULL) return(0); return ( ((SpecScan *)sf->current->contents)->index == index ); } /********************************************************************* * Function: freePtr( ptr ); * * Description: Frees memory pointed to by 'ptr'. * * Parameters: * Input : (1) Pointer * *********************************************************************/ void freePtr( void *ptr ) { free( ptr ); } /********************************************************************* * Function: freeArrNZ( ptr, lines ); * * Description: Frees an array if 'lines' > zero. * * Parameters: * Input : (1) Array pointer * (2) No. of lines * *********************************************************************/ void freeArrNZ( void ***ptr, long lines ) { if ( *ptr != (void **)NULL && lines > 0 ) { for ( ; lines ; lines-- ) { free( (*ptr)[lines-1] ); } free( *ptr ); *ptr = ( void **)NULL ; } } /********************************************************************* * Function: freeArr( ptr, lines ); * * Description: Frees an array. * 'ptr' will be always freed !!! * * Parameters: * Input : (1) Array pointer * (2) No. of lines * *********************************************************************/ void freeArr( void ***ptr, long lines ) { if ( *ptr != (void **)NULL ) { if ( lines > 0 ) { for ( ; lines ; lines-- ) { free( (*ptr)[lines-1] ); } } free( *ptr ); *ptr = ( void **)NULL ; } } /********************************************************************* * Function: int findIndex( scan, number ) * * Description: Compares if number == scan index . * * Parameters: * Input : (1) SpecScan pointer * (2) number * Returns: * 0 : not found * 1 : found * *********************************************************************/ int findIndex( void *scan, void *number ) { return( ((SpecScan *)scan)->index == *(long *)number ); } /********************************************************************* * Function: int findFirst( scan, file_offset ) * * Description: Compares if scan offset > file_offset * * Parameters: * Input : (1) SpecScan pointer * (2) number * Returns: * 0 : not found * 1 : found * *********************************************************************/ int findFirst( void *scan, void *file_offset ) { return( ((SpecScan *)scan)->offset > *(long *)file_offset ); } /********************************************************************* * Function: int findNoAndOr( scan, number ) * ( Number * Order ) * * Description: Compares if number1 = scan number and * number2 = scan order * Parameters: * Input: (1) SpecScan pointer * (2) number[1] * Returns: * 0 : not found * 1 : found * *********************************************************************/ int findNoAndOr( void *scan, void *number ) { long *n = (long *)number; return( ( ((SpecScan *)scan)->scan_no == *n++ ) && ( ((SpecScan *)scan)->order == *n )); } /********************************************************************* * Function: ObjectList *findScanByIndex( list, index ) * * Description: Looks for a scan . * * Parameters: * Input: (1) List pointer * (2) scan index * Returns: * ObjectList pointer if found , * NULL if not. * *********************************************************************/ ObjectList * findScanByIndex( ListHeader *list, long index ) { return findInList( list, findIndex, (void *)&index ); } /********************************************************************* * Function: ObjectList findScanByNo( list, scan_no, order ) * * Description: Looks for a scan . * * Parameters: * Input: (1) List pointer * (2) scan number * (3) scan order * Returns: * ObjectList pointer if found , * NULL if not. * *********************************************************************/ ObjectList * findScanByNo( ListHeader *list, long scan_no, long order ) { long value[2]; value[0] = scan_no; value[1] = order; return( findInList( (void *)list, findNoAndOr, (void *)value) ); } /********************************************************************* * Function: ObjectList *findFirstInFile( list, file_offset ) * * Description: Looks for a scan . * * Parameters: * Input: (1) List pointer * (2) scan index * Returns: * ObjectList pointer if found , * NULL if not. * *********************************************************************/ ObjectList * findFirstInFile( ListHeader *list, long file_offset ) { return findInList( list, findFirst, (void *)&file_offset ); } /********************************************************************* * Function: long mulstrtod( str, arr, error ) * * Description: Converts string to data array.( double array ) * * Parameters: * Input : (1) String * * Output: * (2) Data array * (3) error number * Returns: * Number of values. * ( -1 ) in case of errors. * Possible errors: * SF_ERR_MEMORY_ALLOC * * Remark: The memory allocated should be freed by the application * *********************************************************************/ long mulstrtod( char *str, double **arr, int *error ) { int count,q,i=0; double *ret; char *str2; static double tmpret[200]; *arr = (double *)NULL; str2 = str; while( (q = sscanf(str2, "%lf%n", &(tmpret[i]), &count)) > 0 ) { i++; str2 += count; } str2++; if ( !i ) { return( i ); } ret = (double *)malloc( sizeof(double) * i ); if ( ret == (double *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( -1 ); } memcpy(ret, tmpret, i * sizeof(double) ); *arr = ret; return( i ); } void freeAllData(SpecFile *sf) { if (sf->motor_pos != (double *)NULL) { free(sf->motor_pos); sf->motor_pos = (double *)NULL; sf->no_motor_pos = -1; } if (sf->motor_names != (char **)NULL) { freeArrNZ((void ***)&(sf->motor_names),sf->no_motor_names); sf->motor_names = (char **)NULL; sf->no_motor_names = -1; } if (sf->labels != (char **)NULL) { freeArrNZ((void ***)&(sf->labels),sf->no_labels); sf->labels = (char **)NULL; sf->no_labels = -1; } if (sf->data_info != (long *)NULL) { freeArrNZ((void ***)&(sf->data),sf->data_info[ROW]); free(sf->data_info); sf->data = (double **)NULL; sf->data_info = (long *)NULL; } } DllExport void SfShow (SpecFile *sf) { printf(" - specfile: %s\n",sf->sfname); printf(" - no_scans: %ld\n",sf->no_scans); printf(" - current: %ld\n",((SpecScan*)sf->current->contents)->scan_no); printf(" Cursor:\n"); printf(" - no_scans: %ld\n",sf->cursor.scanno); printf(" - bytecnt: %ld\n",sf->cursor.bytecnt); } DllExport void SfShowScan (SpecFile *sf, long index) { int error; SpecScan *scan; printf(" - specfile: %s / idx %ld\n",sf->sfname,index); if (sfSetCurrent(sf,index,&error) == -1) { printf("Cannot get scan index %ld\n",index); } scan = (SpecScan *) sf->current->contents; printf(" - index: %ld\n",scan->index); printf(" - scan_no: %ld\n",scan->scan_no); printf(" - offset: %ld\n",scan->offset); printf(" - data_offset: %ld\n",scan->data_offset); } silx-0.6.1/silx/io/specfile/src/sfwrite.c0000644023630100076410000004231313202530432020734 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sfwrite.c * * Project: SpecFile library * * Description: Functions for scan output * * Author: V.Rey * * Date: $Date: 2003/09/12 13:20:35 $ * ************************************************************************/ /* * Log: $Log: sfwrite.c,v $ * Log: Revision 1.1 2003/09/12 13:20:35 rey * Log: Initial revision * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Revision 2.1 2000/07/31 19:05:14 19:05:14 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ #include #include #ifndef WIN32 #include #endif /* * Declarations */ DllExport SpecFileOut *SfoInit ( SpecFile *sf, int *error ); DllExport void SfoClose ( SpecFileOut *sfo ); DllExport long SfoSelectAll ( SpecFileOut *sfo, int *error ); DllExport long SfoSelectOne ( SpecFileOut *sfo, long index, int *error ); DllExport long SfoSelect ( SpecFileOut *sfo, long *list, int *error ); DllExport long SfoSelectRange ( SpecFileOut *sfo, long begin, long end, int *error ); DllExport long SfoRemoveOne ( SpecFileOut *sfo, long index, int *error ); DllExport long SfoRemove ( SpecFileOut *sfo, long *list, int *error ); DllExport long SfoRemoveRange ( SpecFileOut *sfo, long begin, long end, int *error ); DllExport long SfoRemoveAll ( SpecFileOut *sfo, int *error ); DllExport long SfoWrite ( SpecFileOut *sfo, char *name, int *error ); DllExport long SfoGetList ( SpecFileOut *sfo, long **list, int *error ); /* * Internal functions */ static int sfoWriteOne(SpecFileOut *sfo,int output, long index,int *error); /********************************************************************* * Function: SpecFileOut *SfoInit( sf, error ) * * Description: Initializes a SpecFileOut structure: * - pointer to SpecFile * - list of scans to be copied * - size of this list * - last written file header * Parameters: * Input : (1) SpecFile pointer * * Output: * (2) error number * Returns: * Pointer to the initialized SpecFileOut structure. * NULL in case of an error. * * Possible errors: * SF_ERR_MEMOREY_ALLOC * * Remark: This function MUST be the FIRST called before * any other WRITE function is called ! * *********************************************************************/ DllExport SpecFileOut * SfoInit( SpecFile *sf, int *error ) { SpecFileOut *sfo; /* * Alloc memory */ sfo = (SpecFileOut *) malloc ( sizeof(SpecFileOut) ); if ( sfo == (SpecFileOut *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( (SpecFileOut *)NULL ); } /* * Initialize */ sfo->sf = sf; sfo->list = (long *)NULL; sfo->list_size = 0; sfo->file_header = -1; return( sfo ); } /********************************************************************* * Function: long SfoGetList( sfo, list, error ) * * Description: Makes a copy of the SpecFileOut list. * * Parameters: * Input : (1) SpecFileOut pointer * * Output: (2) Copy of the output list of spec scan indices. * (3) error code * Returns: * Number of scan indices in the output list , * ( 0 ) => list empty( (long *)NULL ) ), no errors * ( -1 ) in case of an error. * * Possible errors: * SF_ERR_MEMOREY_ALLOC * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport long SfoGetList( SpecFileOut *sfo, long **list, int *error ) { long i; *list = (long *)NULL; if ( sfo->list_size > 0 ) { *list = (long *)malloc( sfo->list_size * sizeof(long) ); if ( *list == (long *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( -1 ); } for ( i=0 ; i < sfo->list_size ; i++ ) { (*list)[i] = sfo->list[i]; } } else *list = (long *)NULL; return( sfo->list_size ); } /********************************************************************* * Function: long SfoSelectOne( sfo, index, error ) * * Description: Adds one scan index to the SpecFileOut list. * * Parameters: * Input : (1) SpecFileOut pointer * (2) Scan index * Output: * (3) error code * Returns: * ( -1 ) => error * Number of scan indices in the SpecFileOut list. * * Possible errors: * SF_ERR_MEMORY_ALLOC * *********************************************************************/ DllExport long SfoSelectOne( SpecFileOut *sfo, long index, int *error ) { long i; /* * Check if index exists or if it's out of range. */ if ( index > sfo->sf->no_scans || index < 1 ) { return( sfo->list_size ); } /* * Alloc memory for the new index and add it to the list. */ if ( sfo->list == (long *)NULL ) { sfo->list = (long *)malloc( sizeof(long) ); if ( sfo->list == (long *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( -1 ); } sfo->list_size = 1; } else { /* * Is the new index already in list ? */ for ( i=0 ; ilist_size ; i++ ) if ( index == sfo->list[i] ) return( sfo->list_size ); sfo->list = realloc( sfo->list, ++(sfo->list_size) * sizeof(long) ); if ( sfo->list == (long *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; sfo->list_size = 0; return( -1 ); } } sfo->list[sfo->list_size-1] = index; printf("Adding scan %ld\n",index); return( sfo->list_size ); } /********************************************************************* * Function: long SfoSelect( sfo, list, error ) * * Description: Adds several scan indices to the SpecFileOut list. * * Parameters: * Input : (1) SpecFileOut pointer * (2) List scan indices (!The last element * MUST be a '0' !) * Output: * (3) error code * Returns: * ( -1 ) => error * Number of scan indices in the SpecFileOut list. * * Possible errors: * SF_ERR_MEMORY_ALLOC | => SfoSelectOne() * *********************************************************************/ DllExport long SfoSelect( SpecFileOut *sfo, long *list, int *error ) { for ( ; *list != 0 ; list++ ) { if ( SfoSelectOne( sfo, *list , error ) < 0 ) return( -1 ); } return( sfo->list_size ); } /********************************************************************* * Function: long SfoSelectRange( sfo, begin, end, error ) * * Description: Adds scan indices between 'begin' and 'end' * to the SpecFileOut list. * * Parameters: * Input : (1) SpecFileOut pointer * (2) First ... * (3) Last index to be added * Output: * (4) error code * Returns: * ( -1 ) => error * Number of scan indices in the SpecFileOut list. * * Possible errors: * SF_ERR_MEMORY_ALLOC | => SfoSelectOne() * *********************************************************************/ DllExport long SfoSelectRange( SpecFileOut *sfo, long begin, long end, int *error ) { long i; if ( begin > end ) { i=begin; begin = end; end = i; } if ( begin < 1 || end > sfo->sf->no_scans ) { return( sfo->list_size ); } for ( i=begin ; i<=end ; i++ ) { if ( SfoSelectOne( sfo, i , error ) < 0 ) return( -1 ); } return( sfo->list_size ); } /********************************************************************* * Function: long SfoSelectAll( sfo, error ) * * Description: Writes all scan indices in the SpecFileOut list. * * Parameters: * Input : (1) SpecFileOutput pointer * Output: (2) error number * Returns: * ( -1 ) => error * Number of scan indices in the SpecFileOut list. * * Possible errors: * SF_ERR_MEMORY_ALLOC * *********************************************************************/ DllExport long SfoSelectAll( SpecFileOut *sfo, int *error ) { long i; if ( sfo->sf->no_scans > 0 ) { for ( i=1 ; i<=sfo->sf->no_scans ; i++ ) { if ( SfoSelectOne( sfo, i , error ) < 0 ) return( -1 ); } } return( sfo->list_size ); } /********************************************************************* * Function: long SfoRemoveOne( sfo, index, error ) * * Description: Removes one scan index from the SpecFileOut list. * * Parameters: * Input : (1) SpecFileOut pointer * (2) Scan index to be removed * Output: * (3) error code * Returns: * Number of scans left , * ( 0 ) => list empty( (long *)NULL ) ), no errors * ( -1 ) => error. * * Possible errors: * SF_ERR_MEMORY_ALLOC * *********************************************************************/ DllExport long SfoRemoveOne( SpecFileOut *sfo, long index, int *error ) { long i; int found = 0; /* * Look for scan index and delete. */ for ( i=0 ; i < (sfo->list_size - found) ; i++ ) { if ( sfo->list[i] == index ) found = 1; if ( found ) sfo->list[i]=sfo->list[i+1]; } /* * Free unused memory */ if ( found ) { (sfo->list_size)--; sfo->list = realloc( sfo->list, sfo->list_size * sizeof(long) ); if ( sfo->list == (long *)NULL && sfo->list_size != 0 ) { *error = SF_ERR_MEMORY_ALLOC; return( -1 ); } } return( sfo->list_size ); } /********************************************************************* * Function: long SfoRemove( sfo, list, error ) * * Description: Removes several scans indices from the * SpecFileOut list. * * Parameters: * Input : (1) SpecFileOut pointer * (2) List of scan indices to be removed * ( !!! The last element MUST be a '0' !!! ) * Output: * (3) error code * Returns: * Number of scan indices left , * ( 0 ) => list empty( (long *)NULL ) ), no errors * ( -1 ) => error. * * Possible errors: * SF_ERR_MEMORY_ALLOC | => SfoRemoveOne() * *********************************************************************/ DllExport long SfoRemove( SpecFileOut *sfo, long *list, int *error ) { for ( ; *list != 0 ; list++ ) { if ( SfoRemoveOne( sfo, *list , error ) < 0 ) return( -1 ); } return( sfo->list_size ); } /********************************************************************* * Function: long SfoRemoveRange( sfo, begin, end, error ) * * Description: Removes scans indices from 'begin' to 'end' * from the SpecFileOut list. * * Parameters: * Input : * (1) SpecFileOut pointer * (2) First ... * (3) Last index to be removed * Output: * (4) error code * Returns: * Number of scan indices left , * ( 0 ) => list empty( (long *)NULL ) ), no errors * ( -1 ) => error. * * Possible errors: * SF_ERR_MEMORY_ALLOC | => SfoRemoveOne() * *********************************************************************/ DllExport long SfoRemoveRange( SpecFileOut *sfo, long begin, long end, int *error ) { long i; if ( begin > end ) { i=begin; begin = end; end = i; } if ( begin < 1 || end > sfo->sf->no_scans ) { return( sfo->list_size ); } for ( i=begin ; i <= end ; i++ ) { if ( SfoRemoveOne( sfo, i, error ) < 0 ) return( -1 ); } return( sfo->list_size ); } /********************************************************************* * Function: long SfoRemoveAll( sfo, error ) * * Description: Removes all scans indices * from the SpecFileOut list. * * Parameters: * Input : * (1) SpecFileOut pointer * Output: * (2) error code * Returns: * ( 0 ) => OK * *********************************************************************/ DllExport long SfoRemoveAll( SpecFileOut *sfo, int *error ) { free( sfo->list ); sfo->list = (long *)NULL; sfo->list_size = 0; sfo->file_header = -1; return( 0 ); } /********************************************************************* * Function: int SfoWrite( sfo, name, error ) * * Description: Writes (appends) SpecScans specified in the sfo->list * in the file 'name'. Related file headers are copied * too. * Parameters: * Input : (1) SpecFileOut pointer * (2) Output file name * Output: * (3) error number * Returns: * Number of written scans, * (-1 ) => Errors occured * Possible errors: * SF_ERR_FILE_WRITE | => cpyBlock() * SF_ERR_FILE_READ * SF_ERR_FILE_OPEN * SF_ERR_FILE_CLOSE * *********************************************************************/ DllExport long SfoWrite( SpecFileOut *sfo, char *name, int *error ) { int output; long i; if ( sfo == (SpecFileOut *)NULL || sfo->list_size<1 ) return( 0 ); /* * Open file */ if ( (output = open(name, O_CREAT | O_RDWR | O_APPEND, SF_UMASK )) == (int)NULL ) { *error = SF_ERR_FILE_OPEN; return( -1 ); } for ( i=0 ; i < sfo->list_size ; i++ ) sfoWriteOne(sfo,output,sfo->list[i],error); if ( close( output ) ) { *error = SF_ERR_FILE_CLOSE; return( -1 ); } return( sfo->list_size ); } /********************************************************************* * Function: int SfoClose( sfo ) * * Description: Frees all memory used by * SpecFileOut structure. * Parameters: * Input : (1) SpecFileOut pointer * * Remark: This function should be called after all * writing operations. * *********************************************************************/ DllExport void SfoClose( SpecFileOut *sfo ) { /* * Free memory. */ free( sfo->list ); free( sfo ); } static int sfoWriteOne(SpecFileOut *sfo,int output,long index,int *error) { long file_header,size; SpecFile *sf; if ( sfSetCurrent(sfo->sf,index,error) == -1 ) { *error = SF_ERR_SCAN_NOT_FOUND; return(-1); } /* * File header */ sf = sfo->sf; file_header = ((SpecScan *)sf->current->contents)->size; if (file_header != -1 && file_header != sfo->file_header ) { printf("Writing %ld bytes\n",sf->filebuffersize); write(output, (void *) sf->filebuffer, sf->filebuffersize); sfo->file_header = file_header; } /* * write scan */ size = ((SpecScan *)sf->current->contents)->size; if ( write(output,(void *) sf->scanbuffer,size) == -1 ) { *error = SF_ERR_FILE_WRITE; return(-1); } return(0); } silx-0.6.1/silx/io/specfile/src/locale_management.c0000644023630100076410000000425713202530432022711 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 2012-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ #include #include #ifdef _GNU_SOURCE #include #include #else #ifdef PYMCA_POSIX #else #ifdef SPECFILE_POSIX #include #endif #endif #endif #include double PyMcaAtof(const char * inputString) { #ifdef _GNU_SOURCE double result; locale_t newLocale; newLocale = newlocale(LC_NUMERIC_MASK, "C", NULL); result = strtod_l(inputString, NULL, newLocale); freelocale(newLocale); return result; #else #ifdef PYMCA_POSIX return atof(inputString); #else #ifdef SPECFILE_POSIX char *currentLocaleBuffer; char *restoredLocaleBuffer; char localeBuffer[21]; double result; currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); strcpy(localeBuffer, currentLocaleBuffer); setlocale(LC_NUMERIC, "C\0"); result = atof(inputString); restoredLocaleBuffer = setlocale(LC_NUMERIC, localeBuffer); return(result); #else return atof(inputString); #endif #endif #endif } silx-0.6.1/silx/io/specfile/src/sfheader.c0000644023630100076410000005306513202530432021040 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sfheader.c * * Project: SpecFile library * * Description: Functions to access file and scan headers * * Author: V.Rey * * Date: $Date: 2002/11/20 09:01:29 $ * ************************************************************************/ /* * Log: $Log: sfheader.c,v $ * Log: Revision 1.3 2002/11/20 09:01:29 sole * Log: Added free(line); in SfTitle * Log: * Log: Revision 1.2 2002/11/14 16:18:48 sole * Log: stupid bug removed * Log: * Log: Revision 1.1 2002/11/14 15:25:39 sole * Log: Initial revision * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Revision 2.1 2000/07/31 19:05:09 19:05:09 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ #include #include /* * Function Declaration */ DllExport char * SfCommand ( SpecFile *sf, long index, int *error ); DllExport long SfNoColumns ( SpecFile *sf, long index, int *error ); DllExport char * SfDate ( SpecFile *sf, long index, int *error ); DllExport double * SfHKL ( SpecFile *sf, long index, int *error ); DllExport long SfEpoch ( SpecFile *sf, long index, int *error ); DllExport char * SfUser ( SpecFile *sf, long index, int *error ); DllExport char * SfTitle ( SpecFile *sf, long index, int *error ); DllExport char * SfFileDate ( SpecFile *sf, long index, int *error ); DllExport long SfNoHeaderBefore ( SpecFile *sf, long index, int *error ); DllExport long SfGeometry ( SpecFile *sf, long index, char ***lines, int *error); DllExport long SfHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error); DllExport long SfFileHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error); int sfGetHeaderLine ( SpecFile *sf, int from, char character, char **buf,int *error); /* * Internal functions */ static char *sfFindWord ( char *line, char *word, int *error ); static long sfFindLines ( char *from, char *to,char *string, char ***lines,int *error); static char *sfOneLine ( char *from, char *end, int *error); /********************************************************************* * Function: char *SfCommand( sf, index, error ) * * Description: Reads '#S' line ( without #S and scan number ). * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * String pointer, * NULL => errors. * Possible errors: * SF_ERR_MEMORY_ALLOC * SF_ERR_FILE_READ * SF_ERR_SCAN_NOT_FOUND * SF_ERR_LINE_NOT_FOUND * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport char * SfCommand( SpecFile *sf, long index, int *error ) { char *ret_line=NULL; long cnt,start,length; char *ptr; /* * Choose scan */ if (sfSetCurrent(sf,index,error) == -1) return(ret_line); cnt = 3; for ( ptr = sf->scanbuffer + cnt; *ptr != ' ' ; ptr++,cnt++); for ( ptr = sf->scanbuffer + cnt; *ptr == ' ' || *ptr == '\t'; ptr++,cnt++); start = cnt; for ( ptr = sf->scanbuffer + cnt; *ptr != '\n' ; ptr++,cnt++); length = cnt - start; /* * Return the rest . */ ret_line = (char *) malloc ( sizeof(char) * ( length + 1) ); if (ret_line == (char *)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(ret_line); } ptr = sf->scanbuffer + start; memcpy(ret_line,ptr,sizeof(char) * length ); ret_line[length] = '\0'; return( ret_line ); } /********************************************************************* * Function: long SfNoColumns( sf, index, error ) * * Description: Gets number of columns in a scan * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Number of scan columns.(From #N line !) * ( -1 ) if errors occured. * Possible errors: * SF_ERR_MEMORY_ALLOC | => readHeader() * SF_ERR_LINE_NOT_FOUND * SF_ERR_FILE_READ * SF_ERR_SCAN_NOT_FOUND * *********************************************************************/ DllExport long SfNoColumns( SpecFile *sf, long index, int *error ) { long col = -1; char *buf=NULL; if ( sfSetCurrent(sf,index,error) == -1) return(-1); if ( sfGetHeaderLine( sf, FROM_SCAN, SF_COLUMNS, &buf, error) == -1) return(-1); col = atol( buf ); free(buf); return( col ); } /********************************************************************* * Function: char *SfDate( sf, index, error ) * * Description: Gets date from scan header * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Date.(From #D line !), * NULL => errors. * Possible errors: * SF_ERR_MEMORY_ALLOC | => readHeader() * SF_ERR_LINE_NOT_FOUND * SF_ERR_FILE_READ * SF_ERR_SCAN_NOT_FOUND * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport char * SfDate(SpecFile *sf, long index, int *error ) { char *line=NULL; if ( sfSetCurrent(sf,index,error) == -1 ) return(line); if ( sfGetHeaderLine( sf, FROM_SCAN, SF_DATE, &line, error)) return((char *)NULL); return( line ); } /********************************************************************* * Function: double *SfHKL( sf, index, error ) * * Description: Reads '#Q' line. * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Poiter to a 3x1 dbl. array( HKL[0]=HKL[H]=H_value, * HKL[1]=HKL[K]=K_value, * HKL[2]=HKL[L]=L_value. * NULL => errors. * * Possible errors: * SF_ERR_LINE_EMPTY * SF_ERR_FILE_READ * SF_ERR_SCAN_NOT_FOUND * SF_ERR_LINE_NOT_FOUND * SF_ERR_MEMORY_ALLOC | => mulstrtod() * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport double * SfHKL( SpecFile *sf, long index, int *error ) { char *line=NULL; double *HKL = NULL; long i; if ( sfSetCurrent(sf,index,error) == -1 ) return((double *)NULL); if ( sfGetHeaderLine( sf, FROM_SCAN, SF_RECIP_SPACE, &line, error) == -1 ) return((double *)NULL); /* * Convert into double . */ i = mulstrtod( line, &HKL, error ); free(line); if ( i < 0) return( (double *)NULL ); if ( i != 3 ) { *error = SF_ERR_LINE_EMPTY; free( HKL ); return( (double *)NULL ); } return( HKL ); } /********************************************************************* * Function: long SfEpoch( sf, index, error ) * * Description: Gets epoch from the last file header. * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Epoch.(From #E line !) * ( -1 ) if errors occured. * Possible errors: * SF_ERR_MEMORY_ALLOC | => readHeader() * SF_ERR_LINE_NOT_FOUND * SF_ERR_FILE_READ * SF_ERR_HEADER_NOT_FOUND * SF_ERR_SCAN_NOT_FOUND * *********************************************************************/ DllExport long SfEpoch( SpecFile *sf, long index, int *error ) { char *buf=NULL; long epoch = -1; if ( sfSetCurrent(sf,index,error) == -1 ) return(-1); if ( sfGetHeaderLine(sf,FROM_FILE,SF_EPOCH,&buf,error) == -1 ) return(-1); epoch = atol( buf ); free(buf); return( epoch ); } /********************************************************************* * Function: char SfFileDate( sf, index, error ) * * Description: Gets date from the last file header * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Date.(From #D line !) * NULL => errors. * * Possible errors: * SF_ERR_MEMORY_ALLOC | => readHeader() * SF_ERR_LINE_NOT_FOUND * SF_ERR_LINE_EMPTY * SF_ERR_FILE_READ * SF_ERR_HEADER_NOT_FOUND * SF_ERR_SCAN_NOT_FOUND * *********************************************************************/ DllExport char * SfFileDate( SpecFile *sf, long index, int *error ) { char *date = NULL; if ( sfSetCurrent(sf,index,error) == -1 ) return((char *)NULL); if ( sfGetHeaderLine(sf,FROM_FILE,SF_DATE,&date,error) == -1 ) return((char *)NULL); return( date ); } /********************************************************************* * Function: long SfNoHeaderBefore( sf, index, error ) * * Description: Gets number of scan header lines before data. * * Parameters: * Input : (1) File pointer * (2) Scan index * Output: * (3) error number * Returns: * Number of scan header lines before data , * ( -1 ) => errors. * Possible errors: * SF_ERR_SCAN_NOT_FOUND * *********************************************************************/ DllExport long SfNoHeaderBefore( SpecFile *sf, long index, int *error ) { if ( sfSetCurrent(sf,index,error) == -1 ) return(-1); /* * Obsolete... give some reasonable! */ return(-1); } /********************************************************************* * Function: char *SfUser( sf, index, error ) * * Description: Gets spec user information from the last file header * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * User.(From 1st #C line !) * Possible errors: * SF_ERR_MEMORY_ALLOC ||=> findWordInLine() * SF_ERR_LINE_NOT_FOUND | * SF_ERR_FILE_READ | * SF_ERR_SCAN_NOT_FOUND | => getFirstFileC() * SF_ERR_HEADER_NOT_FOUND | * SF_ERR_USER_NOT_FOUND * *********************************************************************/ DllExport char * SfUser( SpecFile *sf, long index, int *error ) { char *line=NULL; char *user; char word[] = "User ="; if (sfSetCurrent(sf,index,error) == -1) return((char *)NULL); if (sfGetHeaderLine( sf, FROM_FILE, SF_COMMENT, &line, error) == -1) return((char *)NULL); /* * Find user. */ user = sfFindWord( line, word, error ); if ( user == (char *) NULL) { *error = SF_ERR_USER_NOT_FOUND; return((char *)NULL); } free(line); return( user ); } /********************************************************************* * Function: long SfTitle( sf, index, error ) * * Description: Gets spec title information from the last file header * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Title.(From 1st #C line !) * NULL => errors. * Possible errors: * SF_ERR_LINE_EMPTY * SF_ERR_MEMORY_ALLOC * SF_ERR_LINE_NOT_FOUND | * SF_ERR_FILE_READ | * SF_ERR_SCAN_NOT_FOUND | => getFirstFileC() * SF_ERR_HEADER_NOT_FOUND | * *********************************************************************/ DllExport char * SfTitle( SpecFile *sf, long index, int *error ) { char *line=NULL; char *title; char *ptr; long i; if (sfSetCurrent(sf,index,error) == -1) return((char *)NULL); if (sfGetHeaderLine( sf, FROM_FILE, SF_COMMENT, &line, error) == -1) return((char *)NULL); /* * Get title.( first word ) */ ptr = line; for ( i=0,ptr=line ; *ptr!='\t' && *ptr!='\n' && *ptr!='\0' ; i++ ) { if ( *ptr==' ' ) { if ( *(++ptr)==' ' ) { break; } else ptr--; } ptr++; } if ( i==0 ) { *error = SF_ERR_LINE_EMPTY; return( (char *)NULL ); } title = (char *)malloc( sizeof(char) * ( i+1 ) ); if ( title == (char *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return( title ); } memcpy( title, line, sizeof(char) * i ); /* Next line added by Armando, it may be wrong */ free(line); title[i] = '\0'; return( title ); } DllExport long SfGeometry ( SpecFile *sf, long index, char ***lines, int *error) { char string[] = " \0"; string[0] = SF_GEOMETRY; return(SfHeader(sf,index,string,lines,error)); } DllExport long SfHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error) { char *headbuf, *endheader; long nb_found; if (sfSetCurrent(sf,index,error) == -1) return(-1); headbuf = sf->scanbuffer; endheader = sf->scanbuffer + sf->scansize; nb_found = sfFindLines(headbuf, endheader,string, lines,error); if (nb_found == 0) { return SfFileHeader(sf,index,string,lines,error); } else { return nb_found; } } DllExport long SfFileHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error) { char *headbuf, *endheader; if (sfSetCurrent(sf,index,error) == -1) return(-1); if (sf->filebuffersize > 0) { headbuf = sf->filebuffer; endheader = sf->filebuffer + sf->filebuffersize; return(sfFindLines(headbuf,endheader,string,lines,error)); } else { return 0; } } static long sfFindLines(char *from,char *to,char *string,char ***ret,int *error) { char **lines; long found; unsigned long j; char *ptr; short all=0; found = 0; ptr = from; if ( string == (char *) NULL || strlen(string) == 0) all = 1; /* * Allocate memory for an array of strings */ if ( (lines = (char **)malloc( sizeof(char *) )) == (char **)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return ( -1 ); } /* * First line */ if ( ptr[0] == '#' ) { if ( all ) { lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); lines[found] = sfOneLine(ptr,to,error); found++; } else if ( ptr[1] == string[0]) { for ( j=0; j < strlen(string) && ptr+j< to;j++) if ( ptr[j+1] != string[j]) break; if ( j == strlen(string)) { lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); lines[found] = sfOneLine(ptr,to,error); found++; } } } /* * The rest */ for ( ptr = from + 1;ptr < to - 1;ptr++) { if ( *(ptr - 1) == '\n' && *ptr == '#' ) { if ( all ) { lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); lines[found] = sfOneLine(ptr,to,error); found++; } else if ( *(ptr+1) == string[0]) { for ( j=0; j < strlen(string) && (ptr + j) < to;j++) if ( ptr[j+1] != string[j]) break; if ( j == strlen(string)) { lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); lines[found] = sfOneLine(ptr,to,error); found++; } } } } if (found) *ret = lines; else free(lines); return(found); } /********************************************************************* * Function: char *sfGetHeaderLine( SpecFile *sf, sf_char, end, error ) * * Description: Gets one '#sf_char' line. * * Parameters: * Input : (1) File pointer * (2) sf_character * (3) end ( where to stop the search ) * Output: * (4) error number * Returns: * Pointer to the line , * NULL in case of errors. * Possible errors: * SF_ERR_MEMORY_ALLOC * SF_ERR_FILE_READ | => findLine() * * Remark: The memory allocated should be freed by the application * *********************************************************************/ int sfGetHeaderLine( SpecFile *sf, int from , char sf_char, char **buf, int *error) { char *ptr,*headbuf; char *endheader; int found; found = 0; if ( from == FROM_SCAN ) { headbuf = sf->scanbuffer; endheader = sf->scanbuffer + sf->scanheadersize; } else if ( from == FROM_FILE ) { if ( sf->filebuffersize == 0 ) { *error = SF_ERR_LINE_NOT_FOUND; return(-1); } headbuf = sf->filebuffer; endheader = sf->filebuffer + sf->filebuffersize; } else { *error = SF_ERR_LINE_NOT_FOUND; return(-1); } if ( headbuf[0] == '#' && headbuf[1] == sf_char) { found = 1; ptr = headbuf; } else { for ( ptr = headbuf + 1;ptr < endheader - 1;ptr++) { if ( *(ptr - 1) == '\n' && *ptr == '#' && *(ptr+1) == sf_char) { found = 1; break; } } } if (!found) { *error = SF_ERR_LINE_NOT_FOUND; return(-1); } /* * Beginning of the thing after '#X ' */ ptr = ptr + 3; *buf = sfOneLine(ptr,endheader,error); return( 0 ); } static char * sfOneLine(char *from,char *end,int *error) { static char linebuf[5000]; char *ptr,*buf; long i; ptr = from; for(i=0;*ptr != '\n' && ptr < end;ptr++,i++) { linebuf[i] = *ptr; } linebuf[i]='\0'; buf = (char *) malloc ( i+1 ); if (buf == ( char * ) NULL ) { *error = SF_ERR_MEMORY_ALLOC; return((char *)NULL); } strcpy(buf,(char *)linebuf); return(buf); } /********************************************************************* * Function: char *sfFindWord( line, word, error ) * * Description: Looks for 'word' in given line and returns a * copy of the rest of the line after the found word . * * Parameters: * Input : (1) Line pointer * (2) Word pointer * Output: * (3) error number * Returns: * Rest of the line after word. * NULL => not found. * Possible errors: * SF_ERR_MEMORY_ALLOC * *********************************************************************/ static char * sfFindWord( char *line, char *word, int *error ) { char *ret; line = strstr( line, word ); if ( line == (char *)NULL ) { return( line ); } line += strlen( word ); /* * Delete blanks. */ while ( *line == ' ' || *line == '\t' ) line++; /* * Copy the rest. */ ret = (char *)malloc( sizeof(char) * ( 1 + strlen( line )) ); if ( ret == (char *)NULL ) { *error = SF_ERR_MEMORY_ALLOC; return(ret); } memcpy( ret, line, sizeof(char) * ( 1 + strlen( line )) ); return( ret ); } silx-0.6.1/silx/io/specfile/src/sfdata.c0000644023630100076410000005333513202530432020521 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sfdata.c * * Project: SpecFile library * * Description: Functions for getting data * * Author: V.Rey * * Date: $Date: 2005/07/04 15:02:38 $ * ************************************************************************/ /* * Log: $Log: sfdata.c,v $ * Log: Revision 1.8 2005/07/04 15:02:38 ahoms * Log: Fixed memory leak in SfNoDataLines * Log: * Log: Revision 1.7 2004/01/20 09:23:50 sole * Log: Small change in sfdata (ptr < (to-1)) changed to (ptr <= (to-1)) * Log: * Log: Revision 1.6 2003/03/06 16:56:40 sole * Log: Check if to is beyond the scan size in SfData (still not finished but it seems to solve a crash) * Log: * Log: Revision 1.5 2002/12/09 13:04:05 sole * Log: Added a check in SfNoDataLines * Log: * Log: Revision 1.4 2002/11/13 15:02:38 sole * Log: Removed some printing in SfData * Log: * Log: Revision 1.3 2002/11/12 16:22:07 sole * Log: WARNING: Developing version - Improved MCA reading and reading properly the end of the file. * Log: * Log: Revision 1.2 2002/11/12 13:15:52 sole * Log: 1st version from Armando. The idea behind is to take the last line only if it ends with \n * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Revision 2.1 2000/07/31 19:05:11 19:05:11 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA * */ #include #include #include #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX #include #endif #endif #include /* * Define macro */ #define isnumber(this) ( isdigit(this) || this == '-' || this == '+' || this == '.' || this == 'E' || this == 'e') /* * Mca continuation character */ #define MCA_CONT '\\' #define D_INFO 3 /* * Declarations */ DllExport long SfNoDataLines ( SpecFile *sf, long index, int *error ); DllExport int SfData ( SpecFile *sf, long index, double ***retdata, long **retinfo, int *error ); DllExport long SfDataAsString ( SpecFile *sf, long index, char ***data, int *error ); DllExport long SfDataLine ( SpecFile *sf, long index, long line, double **data_line, int *error ); DllExport long SfDataCol ( SpecFile *sf, long index, long col, double **data_col, int *error ); DllExport long SfDataColByName( SpecFile *sf, long index, char *label, double **data_col, int *error ); /********************************************************************* * Function: long SfNoDataLines( sf, index, error ) * * Description: Gets number of data lines in a scan * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Number of data lines , * ( -1 ) => errors. * Possible errors: * SF_ERR_SCAN_NOT_FOUND * *********************************************************************/ DllExport long SfNoDataLines( SpecFile *sf, long index, int *error ) { long *dinfo = NULL; double **data = NULL; long nrlines = 0; int ret, i; ret = SfData(sf,index,&data,&dinfo,error); if (ret == -1) { return(-1); } if (dinfo == (long *) NULL){ return(-1); } if (dinfo[ROW] < 0){ printf("Negative number of points!\n"); /*free(dinfo);*/ return(-1); } nrlines = dinfo[ROW]; /* now free all stuff that SfData allocated */ for (i = 0; i < nrlines; i++) free(data[i]); free(data); free(dinfo); return nrlines; } /********************************************************************* * Function: int SfData(sf, index, data, data_info, error) * * Description: Gets data. * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) Data array * (4) Data info : [0] => no_lines * [1] => no_columns * [2] = ( 0 ) => regular * ( 1 ) => not regular ! * (5) error number * Returns: * ( 0 ) => OK * ( -1 ) => errors occured * Possible errors: * SF_ERR_MEMORY_ALLOC * SF_ERR_FILE_READ * SF_ERR_SCAN_NOT_FOUND * SF_ERR_LINE_NOT_FOUND * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport int SfData( SpecFile *sf, long index, double ***retdata, long **retinfo, int *error ) { long *dinfo = NULL; double **data = NULL; double *dataline = NULL; long headersize; char *ptr, *from, *to; char strval[100]; double val; double valline[512]; long cols, maxcol=512; long rows; int i; #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX char *currentLocaleBuffer; char localeBuffer[21]; #endif #endif if (index <= 0 ){ return(-1); } if (sfSetCurrent(sf,index,error) == -1 ) return(-1); /* * Copy if already there */ if (sf->data_info != (long *)NULL) { dinfo = ( long * ) malloc ( sizeof(long) * D_INFO); dinfo[ROW] = sf->data_info[ROW]; dinfo[COL] = sf->data_info[COL]; dinfo[REG] = sf->data_info[REG]; data = ( double **) malloc ( sizeof(double *) * dinfo[ROW]); for (i=0;idata[i],sizeof(double) * dinfo[COL]); } *retdata = data; *retinfo = dinfo; return(0); } /* * else do the job */ if ( ((SpecScan *)sf->current->contents)->data_offset == -1 ) { *retdata = data; *retinfo = dinfo; return(-1); } headersize = ((SpecScan *)sf->current->contents)->data_offset - ((SpecScan *)sf->current->contents)->offset; from = sf->scanbuffer + headersize; to = sf->scanbuffer + ((SpecScan *)sf->current->contents)->size; if (to > sf->scanbuffer+sf->scansize){ /* the -32 found "experimentaly" */ ptr = sf->scanbuffer+sf->scansize - 32; while (*ptr != '\n') ptr--; to=ptr; /*printf("I let it crash ...\n");*/ } i=0; ptr = from; rows = -1; cols = -1; /* * Alloc memory */ if ( (data = (double **) malloc (sizeof(double *)) ) == (double **)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(-1); } if ( (dinfo = (long *) malloc(sizeof(long) * D_INFO) ) == (long *)NULL) { free(data); *error = SF_ERR_MEMORY_ALLOC; return(-1); } ptr = from; dinfo[ROW] = dinfo[COL] = dinfo[REG] = 0; if(0){ /* * first characters of buffer */ while (*ptr == ' ') ptr++; /* get rid of empty spaces */ if (*ptr == '@') { /* * read all mca block: go while in buffer ( ptr < to - 1 ) * and while a newline is preceded by a slash */ for ( ptr = ptr + 2; (*ptr != '\n' || (*(ptr-1) == MCA_CONT)) && ptr < to ; ptr++); } if ( *ptr == '#') { /* Comment --> pass one line */ for (ptr = ptr + 1; *ptr != '\n';ptr++); } /* * continue */ ptr++; } #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); strcpy(localeBuffer, currentLocaleBuffer); setlocale(LC_NUMERIC, "C\0"); #endif #endif for ( ; ptr < to; ptr++) { /* get a complete line */ i=0; cols=0; /*I should be at the start of a line */ while(*(ptr) != '\n'){ if (*(ptr-1) == '\n'){ /*I am at the start of a line */ while(*ptr == '#'){ if (ptr >= to) break; for (ptr = ptr; ptr < to;ptr++){ if (*ptr == '\n'){ break; } }; /* on exit is equal to newline */ if (ptr < to) { ptr++; } } if (*ptr == '@') { /* * read all mca block: go while in buffer ( ptr < to - 1 ) * and while a newline is preceded by a slash */ for ( ptr = ptr + 2; (*ptr != '\n' || (*(ptr-1) == MCA_CONT)) && ptr < to ; ptr++); if (ptr >= to){ break; } } while(*ptr == '#'){ if (ptr >= to) break; for (ptr = ptr; ptr < to;ptr++){ if (*ptr == '\n'){ break; } }; /* on exit is equal to newline */ if (ptr < to) { ptr++; } } /* first characters of buffer */ while (*ptr == ' ' && ptr < to) ptr++; /* get rid of empty spaces */ } /* * in the middle of a line */ if (*ptr == ' ' || *ptr == '\t' ) { strval[i] = '\0'; i = 0; val = PyMcaAtof(strval); valline[cols] = val; cols++; if (cols >= maxcol) return(-1); while(*(ptr+1) == ' ' || *(ptr+1) == '\t') ptr++; } else { if isnumber(*ptr){ strval[i] = *ptr; i++; } } if (ptr >= (to-1)){ break; } ptr++; } if ((*(ptr)== '\n') && (i != 0)){ strval[i] = '\0'; val = PyMcaAtof(strval); valline[cols] = val; cols++; if (cols >= maxcol) return(-1); /*while(*(ptr+1) == ' ' || *(ptr+1) == '\t') ptr++;*/ } /*printf("%c",*ptr);*/ /* diffract31 crash -> changed from i!=0 to i==0 */ /*cols>0 necessary scan 59 of 31oct98 */ if ((ptr < to) && (cols >0)) { rows++; /*cols++;*/ if (cols >= maxcol) return(-1); /* printf("Adding a new row, nrows = %ld, ncols= %ld\n",rows,cols);*/ /*printf("info col = %d cols = %d\n", dinfo[COL], cols);*/ if (dinfo[COL] != 0 && cols != dinfo[COL]) { ; /*diffract31 crash -> nextline uncommented */ dinfo[REG] = 1; } else { dinfo[COL] = cols; } if(dinfo[COL]==cols){ dataline = (double *)malloc(sizeof(double) * cols); memcpy(dataline,valline,sizeof(double) * cols); data = (double **) realloc ( data, sizeof(double) * (rows+1)); data[rows] = dataline; dinfo[ROW]=rows+1; }else{ printf("Error on scan %d line %d\n", (int) index, (int) (rows+1)); /* just ignore the line instead of stopping there with a break; */ rows--; } } } #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX setlocale(LC_NUMERIC, localeBuffer); #endif #endif /* * make a copy in specfile structure */ if ( dinfo[ROW] != 0 && dinfo[REG] == 0) { if (sf->data_info != (long *)NULL){ printf("I should not be here!/n"); sf->data_info[ROW] = dinfo[ROW]; sf->data_info[COL] = dinfo[COL]; sf->data_info[REG] = dinfo[REG]; for (i=0;idata[i]= (double *)realloc (sf->data[i],sizeof(double) * dinfo[COL]); if (sf->data[i] == (double *) NULL){ printf("Realloc problem"); return (-1); } memcpy(sf->data[i],data[i],sizeof(double) * dinfo[COL]); } *retdata = data; *retinfo = dinfo; return(0); }else{ sf->data_info = ( long * ) malloc ( sizeof(long) * D_INFO); sf->data_info[ROW] = dinfo[ROW]; sf->data_info[COL] = dinfo[COL]; sf->data_info[REG] = dinfo[REG]; sf->data = ( double **) malloc ( sizeof(double *) * dinfo[ROW]); if (sf->data == (double **) NULL){ printf("malloc1 problem"); return (-1); } for (i=0;idata[i] = (double *)malloc (sizeof(double) * dinfo[COL]); if (sf->data[i] == (double *) NULL){ printf("malloc2 problem"); return (-1); } memcpy(sf->data[i],data[i],sizeof(double) * dinfo[COL]); } } } else { if (dinfo[REG] == 0) { ; /*printf("Not Freeing data:!\n");*/ /* I can be in the case of an mca without scan points */ /*free(data); return(-1);*/ } } *retinfo = dinfo; *retdata = data; return( 0 ); } DllExport long SfDataCol ( SpecFile *sf, long index, long col, double **retdata, int *error ) { double *datacol=NULL; long *dinfo = NULL; double **data = NULL; long selection; int i,ret; ret = SfData(sf,index,&data,&dinfo,error); if (ret == -1) { *error = SF_ERR_COL_NOT_FOUND; *retdata = datacol; return(-1); } if (col < 0) { selection = dinfo[COL] + col; } else { selection = col - 1; } if (selection > dinfo[COL] - 1) { selection=dinfo[COL] - 1; } if ( selection < 0 || selection > dinfo[COL] - 1) { *error = SF_ERR_COL_NOT_FOUND; if ( dinfo != (long *)NULL) { freeArrNZ((void ***)&data,dinfo[ROW]); } free(dinfo); return(-1); } datacol = (double *) malloc( sizeof(double) * dinfo[ROW]); if (datacol == (double *)NULL) { *error = SF_ERR_MEMORY_ALLOC; if ( dinfo != (long *)NULL) freeArrNZ((void ***)&data,dinfo[ROW]); free(dinfo); return(-1); } for (i=0;i dinfo[ROW] - 1) { *error = SF_ERR_LINE_NOT_FOUND; if ( dinfo != (long *)NULL) { freeArrNZ((void ***)&data,dinfo[ROW]); } free(dinfo); return(-1); } datarow = (double *) malloc( sizeof(double) * dinfo[COL]); if (datarow == (double *)NULL) { *error = SF_ERR_MEMORY_ALLOC; if ( dinfo != (long *)NULL) freeArrNZ((void ***)&data,dinfo[ROW]); free(dinfo); return(-1); } memcpy(datarow,data[selection],sizeof(double) * dinfo[COL]); ret = dinfo[COL]; if ( dinfo != (long *)NULL) freeArrNZ((void ***)&data,dinfo[ROW]); free(dinfo); *retdata = datarow; return(ret); } DllExport long SfDataColByName( SpecFile *sf, long index, char *label, double **retdata, int *error ) { double *datacol; long *dinfo = NULL; double **data = NULL; int i,ret; char **labels = NULL; long nb_lab, idx; short tofree=0; if ( sfSetCurrent(sf,index,error) == -1) { *retdata = (double *)NULL; return(-1); } if ( sf->no_labels != -1 ) { nb_lab = sf->no_labels; labels = sf->labels; } else { nb_lab = SfAllLabels(sf,index,&labels,error); tofree = 1; } if ( nb_lab == 0 || nb_lab == -1) { *retdata = (double *)NULL; return(-1); } for (idx=0;idxcurrent->contents)->data_offset == -1 ) { *retdata = data; return(-1); } data = (char **) malloc (sizeof(char *)); headersize = ((SpecScan *)sf->current->contents)->data_offset - ((SpecScan *)sf->current->contents)->offset; from = sf->scanbuffer + headersize; to = sf->scanbuffer + ((SpecScan *)sf->current->contents)->size; rows = -1; i = 0; /* * first characters of buffer */ ptr = from; if (isnumber(*ptr)) { rows++; oneline[i] = *ptr; i++; } else if (*ptr == '@') { /* * read all mca block: go while in buffer ( ptr < to - 1 ) * and while a newline is preceded by a slash */ for ( ptr = ptr + 2; (*(ptr+1) != '\n' || (*ptr == MCA_CONT)) && ptr < to - 1 ; ptr++); } /* * continue */ ptr++; for ( ; ptr < to - 1; ptr++) { /* * check for lines and for mca */ if ( *(ptr-1) == '\n' ) { if ( i != 0 ) { oneline[i-1] = '\0'; i = 0; dataline = (char *)strdup(oneline); data = (char **) realloc ( data, sizeof(char *) * (rows +1)); data[rows] = dataline; } if ( *ptr == '@') { /* Mca --> pass it all */ for ( ptr = ptr + 2; (*ptr != '\n' || (*(ptr-1) == MCA_CONT)) && ptr < to ; ptr++); } else if ( *ptr == '#') { /* Comment --> pass one line */ for (ptr = ptr + 1; *ptr != '\n';ptr++); } else if ( isnumber(*ptr) ) { rows++; oneline[i] = *ptr; i++; } } else { if (rows == -1) continue; oneline[i] = *ptr; i++; } } /* * last line */ if (rows != -1 && i) { oneline[i-1] = '\0'; dataline = (char *)strdup(oneline); data = (char **) realloc ( data, sizeof(char *) * (rows+1)); data[rows] = dataline; } *retdata = data; return(rows+1); } silx-0.6.1/silx/io/specfile/src/sfmca.c0000644023630100076410000002215113202530432020340 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 2000-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sfmca.c * * Project: SpecFile library * * Description: Access to MCA spectra * * Author: V.Rey * * Date: $Date: 2002/11/15 16:25:44 $ * ************************************************************************/ /* * Log: $Log: sfmca.c,v $ * Log: Revision 1.3 2002/11/15 16:25:44 sole * Log: free(retline) replaced by freeArrNZ((void ***) &retline,nb_lines); to eliminate the memory leak when reading mca * Log: * Log: Revision 1.2 2002/11/15 10:44:36 sole * Log: added free(retline) after call to SfHeader * Log: * Log: Revision 1.1 2002/11/15 10:17:38 sole * Log: Initial revision * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Revision 2.1 2000/07/31 19:05:12 19:05:12 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ #include #include #include #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX #include #endif #endif #include #include /* * Define macro */ #define isnumber(this) ( isdigit(this) || this == '-' || this == '+' || this =='e' || this == 'E' || this == '.' ) /* * Mca continuation character */ #define MCA_CONT '\\' #define D_INFO 3 /* * Declarations */ DllExport long SfNoMca ( SpecFile *sf, long index, int *error ); DllExport int SfGetMca ( SpecFile *sf, long index, long mcano, double **retdata, int *error ); DllExport long SfMcaCalib ( SpecFile *sf, long index, double **calib, int *error ); /********************************************************************* * Function: long SfNoMca( sf, index, error ) * * Description: Gets number of mca spectra in a scan * * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) error number * Returns: * Number of data lines , * ( -1 ) => errors. * Possible errors: * SF_ERR_SCAN_NOT_FOUND * *********************************************************************/ DllExport long SfNoMca( SpecFile *sf, long index, int *error ) { if (sfSetCurrent(sf,index,error) == -1 ) return(-1); return( ((SpecScan *)sf->current->contents)->mcaspectra ); } /********************************************************************* * Function: int SfGetMca(sf, index, number, data, error) * * Description: Gets data. * Parameters: * Input : (1) File pointer * (2) Index * Output: * (3) Data array * (4) Data info : [0] => no_lines * [1] => no_columns * [2] = ( 0 ) => regular * ( 1 ) => not regular ! * (5) error number * Returns: * ( 0 ) => OK * ( -1 ) => errors occured * Possible errors: * SF_ERR_MEMORY_ALLOC * SF_ERR_FILE_READ * SF_ERR_SCAN_NOT_FOUND * SF_ERR_LINE_NOT_FOUND * * Remark: The memory allocated should be freed by the application * *********************************************************************/ DllExport int SfGetMca( SpecFile *sf, long index, long number, double **retdata, int *error ) { double *data = NULL; long headersize; int old_fashion; static char* last_from = NULL; static char* last_pos = NULL; static long last_number = 0; long int scanno = 0; static long int last_scanno = 0; char *ptr, *from, *to; char strval[100]; double val; int i,spect_no=0; long vals; long blocks=1, initsize=1024; #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX char *currentLocaleBuffer; char localeBuffer[21]; #endif #endif headersize = ((SpecScan *)sf->current->contents)->data_offset - ((SpecScan *)sf->current->contents)->offset; scanno = ((SpecScan *)sf->current->contents)->scan_no; /* * check that mca number is available */ if (number < 1) { *error = SF_ERR_MCA_NOT_FOUND; *retdata = (double *)NULL; return(-1); } /* * Get MCA info from header */ from = sf->scanbuffer + headersize; to = sf->scanbuffer + ((SpecScan *)sf->current->contents)->size; old_fashion = 1; if (last_scanno == scanno) { if (last_from == from) { /* same scan as before */ if (number > last_number) { spect_no = last_number; old_fashion = 0; } } } if (old_fashion) { last_scanno = scanno; last_from = from; spect_no = 0; last_pos = from; } /* * go and find the beginning of spectrum */ ptr = last_pos; if ( *ptr == '@' ) { spect_no++; ptr++; last_pos = ptr; } while ( spect_no != number && ptr < to ) { if (*ptr == '@') spect_no++; ptr++; last_pos = ptr; } ptr++; if ( spect_no != number ) { *error = SF_ERR_MCA_NOT_FOUND; *retdata = (double *)NULL; return(-1); } last_number = spect_no; /* * Calculate size and book memory */ initsize = 2048; i = 0; vals = 0; /* * Alloc memory */ if ((data = (double *)malloc (sizeof(double) * initsize)) == (double *)NULL) { *error = SF_ERR_MEMORY_ALLOC; return(-1); } /* * continue */ #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); strcpy(localeBuffer, currentLocaleBuffer); setlocale(LC_NUMERIC, "C\0"); #endif #endif for ( ;(*(ptr+1) != '\n' || (*ptr == MCA_CONT)) && ptr < to - 1 ; ptr++) { if (*ptr == ' ' || *ptr == '\t' || *ptr == '\\' || *ptr == '\n') { if ( i ) { if ( vals%initsize == 0 ) { blocks++; if ((data = (double *)realloc (data, sizeof(double) * blocks * initsize)) == (double *)NULL) { *error = SF_ERR_MEMORY_ALLOC; #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX setlocale(LC_NUMERIC, localeBuffer); #endif #endif return(-1); } } strval[i] = '\0'; i = 0; val = PyMcaAtof(strval); data[vals] = val; vals++; } } else if (isnumber(*ptr)) { strval[i] = *ptr; i++; } } if (isnumber(*ptr)) { strval[i] = *ptr; strval[i+1] = '\0'; val = PyMcaAtof(strval); data[vals] = val; vals++; } #ifndef _GNU_SOURCE #ifdef PYMCA_POSIX setlocale(LC_NUMERIC, localeBuffer); #endif #endif *retdata = data; return( vals ); } DllExport long SfMcaCalib ( SpecFile *sf, long index, double **calib, int *error ) { long nb_lines; char **retline; char *strptr; double val1,val2,val3; double *retdata; nb_lines = SfHeader(sf,index,"@CALIB",&retline,error); if (nb_lines > 0) { strptr = retline[0] + 8; sscanf(strptr,"%lf %lf %lf",&val1,&val2,&val3); } else { *calib = (double *)NULL; return(-1); } retdata = (double *) malloc(sizeof(double) * 3 ); retdata[0] = val1; retdata[1] = val2; retdata[2] = val3; *calib = retdata; return(0); } silx-0.6.1/silx/io/specfile/src/sfinit.c0000644023630100076410000005403213202530432020546 0ustar knobelusers00000000000000# /*########################################################################## # Copyright (C) 1995-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ /************************************************************************ * * File: sfinit.c * * Project: SpecFile library * * Description: Initialization routines ( open/update/close ) * * Author: V.Rey * * Date: $Date: 2005/05/25 13:01:32 $ * ************************************************************************/ /* * Log: $Log: sfinit.c,v $ * Log: Revision 1.5 2005/05/25 13:01:32 sole * Log: Back to revision 1.3 * Log: * Log: Revision 1.3 2004/05/12 16:57:32 sole * Log: windows support * Log: * Log: Revision 1.2 2002/11/12 13:23:43 sole * Log: Version with added support for the new sf->updating flag * Log: * Log: Revision 3.0 2000/12/20 14:17:19 rey * Log: Python version available * Log: * Log: Revision 2.2 2000/12/20 12:12:08 rey * Log: bug corrected with SfAllMotors * Log: * Revision 2.1 2000/07/31 19:04:42 19:04:42 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA */ /* * File: sfinit.c * * Description: This file implements basic routines on SPEC datafiles * SfOpen / SfClose / SfError * * SfUpdate is kept but it is obsolete * * Version: 2.0 * * Date: March 2000 * * Author: Vicente REY * * Copyright: E.S.R.F. European Synchrotron Radiation Facility (c) 2000 */ /* * $Log: sfinit.c,v $ * Revision 1.5 2005/05/25 13:01:32 sole * Back to revision 1.3 * * Revision 1.3 2004/05/12 16:57:32 sole * windows support * * Revision 1.2 2002/11/12 13:23:43 sole * Version with added support for the new sf->updating flag * * Revision 3.0 2000/12/20 14:17:19 rey * Python version available * * Revision 2.2 2000/12/20 12:12:08 rey * bug corrected with SfAllMotors * * Revision 2.1 2000/07/31 19:04:42 19:04:42 rey (Vicente Rey-Bakaikoa) * SfUpdate and bug corrected in ReadIndex * * Revision 2.0 2000/04/13 13:27:19 13:27:19 rey (Vicente Rey-Bakaikoa) * New version of the library. Complete rewrite * Adds support for MCA * * *********************************************************************/ #include #include #include #include #include #ifdef WIN32 #include #include #else #include #endif #include #include /* * Defines */ #define ANY 0 #define NEWLINE 1 #define COMMENT 2 #define SF_ISFX ".sfI" #define SF_INIT 0 #define SF_READY 1 #define SF_MODIFIED 2 /* * Function declaration */ DllExport SpecFile * SfOpen ( char *name,int *error); DllExport SpecFile * SfOpen2 ( int fd, char *name,int *error); DllExport int SfClose ( SpecFile *sf); DllExport short SfUpdate ( SpecFile *sf, int *error); DllExport char * SfError ( int error); #ifdef linux char SF_SIGNATURE[] = "Linux 2ruru Sf2.0"; #else char SF_SIGNATURE[] = "2ruru Sf2.0"; #endif /* * Internal functions */ static short statusEnd ( char c2, char c1); static void sfStartBuffer ( SpecFile *sf, SfCursor *cursor, short status,char c0, char c1,int *error); static void sfNewLine ( SpecFile *sf, SfCursor *cursor, char c0,char c1,int *error); static void sfHeaderLine ( SpecFile *sf, SfCursor *cursor, char c,int *error); static void sfNewBlock ( SpecFile *sf, SfCursor *cursor, short how,int *error); static void sfSaveScan ( SpecFile *sf, SfCursor *cursor, int *error); static void sfAssignScanNumbers (SpecFile *sf); static void sfReadFile ( SpecFile *sf, SfCursor *cursor, int *error); static void sfResumeRead ( SpecFile *sf, SfCursor *cursor, int *error); #ifdef SPECFILE_USE_INDEX_FILE static short sfOpenIndex ( SpecFile *sf, SfCursor *cursor, int *error); static short sfReadIndex ( int sfi, SpecFile *sf, SfCursor *cursor, int *error); static void sfWriteIndex ( SpecFile *sf, SfCursor *cursor, int *error); #endif /* * errors */ typedef struct _errors { int code; char *message; } sf_errors ; static sf_errors errors[]={ { SF_ERR_MEMORY_ALLOC , "Memory allocation error ( SpecFile )" }, { SF_ERR_FILE_OPEN , "File open error ( SpecFile )" }, { SF_ERR_FILE_CLOSE , "File close error ( SpecFile )" }, { SF_ERR_FILE_READ , "File read error ( SpecFile )" }, { SF_ERR_FILE_WRITE , "File write error ( SpecFile )" }, { SF_ERR_LINE_NOT_FOUND , "Line not found error ( SpecFile )" }, { SF_ERR_SCAN_NOT_FOUND , "Scan not found error ( SpecFile )" }, { SF_ERR_HEADER_NOT_FOUND , "Header not found error ( SpecFile )" }, { SF_ERR_LABEL_NOT_FOUND , "Label not found error ( SpecFile )" }, { SF_ERR_MOTOR_NOT_FOUND , "Motor not found error ( SpecFile )" }, { SF_ERR_POSITION_NOT_FOUND , "Position not found error ( SpecFile )" }, { SF_ERR_LINE_EMPTY , "Line empty or wrong data error ( SpecFile )"}, { SF_ERR_USER_NOT_FOUND , "User not found error ( SpecFile )" }, { SF_ERR_COL_NOT_FOUND , "Column not found error ( SpecFile )" }, { SF_ERR_MCA_NOT_FOUND , "Mca not found ( SpecFile )" }, /* MUST be always the last one : */ { SF_ERR_NO_ERRORS , "OK ( SpecFile )" }, }; /********************************************************************* * Function: SpecFile *SfOpen( name, error) * * Description: Opens connection to Spec data file. * Creates index list in memory. * * Parameters: * Input : * (1) Filename * Output: * (2) error number * Returns: * SpecFile pointer. * NULL if not successful. * * Possible errors: * SF_ERR_FILE_OPEN * SF_ERR_MEMORY_ALLOC * *********************************************************************/ DllExport SpecFile * SfOpen(char *name, int *error) { int fd; fd = open(name,SF_OPENFLAG); return (SfOpen2(fd, name, error)); } /********************************************************************* * Function: SpecFile *SfOpen2( fd, name, error) * * Description: Opens connection to Spec data file. * Creates index list in memory. * * Parameters: * Input : * (1) Integer file handle * (2) Filename * Output: * (3) error number * Returns: * SpecFile pointer. * NULL if not successful. * * Possible errors: * SF_ERR_FILE_OPEN * SF_ERR_MEMORY_ALLOC * *********************************************************************/ DllExport SpecFile * SfOpen2(int fd, char *name,int *error) { SpecFile *sf; short idxret; SfCursor cursor; struct stat mystat; if ( fd == -1 ) { *error = SF_ERR_FILE_OPEN; return ( (SpecFile *) NULL ); } /* * Init specfile strucure */ #ifdef _WINDOWS static HANDLE hglb; hglb = GlobalAlloc(GPTR,sizeof(SpecFile)); sf = (SpecFile * ) GlobalLock(hglb); #else sf = (SpecFile *) malloc ( sizeof(SpecFile )); #endif stat(name,&mystat); sf->fd = fd; sf->m_time = mystat.st_mtime; sf->sfname = (char *)strdup(name); sf->list.first = (ObjectList *)NULL; sf->list.last = (ObjectList *)NULL; sf->no_scans = 0; sf->current = (ObjectList *)NULL; sf->scanbuffer = (char *)NULL; sf->scanheadersize = 0; sf->filebuffer = (char *)NULL; sf->filebuffersize = 0; sf->no_labels = -1; sf->labels = (char **)NULL; sf->no_motor_names = -1; sf->motor_names = (char **)NULL; sf->no_motor_pos = -1; sf->motor_pos = (double *)NULL; sf->data = (double **)NULL; sf->data_info = (long *)NULL; sf->updating = 0; /* * Init cursor */ cursor.bytecnt = 0; cursor.cursor = 0; cursor.scanno = 0; cursor.hdafoffset = -1; cursor.dataoffset = -1; cursor.mcaspectra = 0; cursor.what = 0; cursor.data = 0; cursor.file_header = 0; #ifdef SPECFILE_USE_INDEX_FILE /* * Check if index file * open it and continue from there */ idxret = sfOpenIndex(sf,&cursor,error); #else idxret = SF_INIT; #endif switch(idxret) { case SF_MODIFIED: sfResumeRead(sf,&cursor,error); sfReadFile(sf,&cursor,error); break; case SF_INIT: sfReadFile(sf,&cursor,error); break; case SF_READY: break; default: break; } sf->cursor = cursor; /* * Once is all done assign scan numbers and orders */ sfAssignScanNumbers(sf); #ifdef SPECFILE_USE_INDEX_FILE if (idxret != SF_READY) sfWriteIndex(sf,&cursor,error); #endif return(sf); } /********************************************************************* * * Function: int SfClose( sf ) * * Description: Closes a file previously opened with SfOpen() * and frees all memory . * Parameters: * Input: * File pointer * Returns: * 0 : close successful * -1 : errors occured * *********************************************************************/ DllExport int SfClose( SpecFile *sf ) { register ObjectList *ptr; register ObjectList *prevptr; freeAllData(sf); for( ptr=sf->list.last ; ptr ; ptr=prevptr ) { free( (SpecScan *)ptr->contents ); prevptr = ptr->prev; free( (ObjectList *)ptr ); } free ((char *)sf->sfname); if (sf->scanbuffer != NULL) free ((char *)sf->scanbuffer); if (sf->filebuffer != NULL) free ((char *)sf->filebuffer); if( close(sf->fd) ) { return( -1 ) ; } free ( sf ); sf = (SpecFile *)NULL; return ( 0 ); } /********************************************************************* * * Function: short SfUpdate( sf, error ) * * Description: Updates connection to Spec data file . * Appends to index list in memory. * * Parameters: * Input : * (1) sf (pointer to the index list in memory) * Output: * (2) error number * Returns: * ( 0 ) => Nothing done. * ( 1 ) => File was updated * * Possible errors: * SF_ERR_FILE_OPEN * SF_ERR_MEMORY_ALLOC * *********************************************************************/ DllExport short SfUpdate ( SpecFile *sf, int *error ) { struct stat mystat; long mtime; /*printf("In SfUpdate\n"); __asm("int3");*/ stat(sf->sfname,&mystat); mtime = mystat.st_mtime; if (sf->m_time != mtime) { sfResumeRead (sf,&(sf->cursor),error); sfReadFile (sf,&(sf->cursor),error); sf->m_time = mtime; sfAssignScanNumbers(sf); #ifdef SPECFILE_USE_INDEX_FILE sfWriteIndex (sf,&(sf->cursor),error); #endif return(1); }else{ return(0); } } /********************************************************************* * * Function: char *SfError( code ) * * Description: Returns the message associated with error 'code'. * * Parameters: * Input : error code * *********************************************************************/ DllExport char * SfError(int code ) { int i; for ( i=0 ; errors[i].code!=0 ; i++ ) { if ( errors[i].code == code ) break; } return( errors[i].message ); } static void sfReadFile(SpecFile *sf,SfCursor *cursor,int *error) { int fd; char *buffer,*ptr; long size,bytesread; short status; fd = sf->fd; size = 1024*1024; if ( (buffer = (char *) malloc(size)) == NULL ) { /* * Try smaller buffer */ size = 128 * 128; if ( (buffer = (char *) malloc(size)) == NULL ) { /* * Uhmmm */ *error = SF_ERR_MEMORY_ALLOC; free(sf->sfname); free(sf); sf = (SpecFile *)NULL; return; } } status = NEWLINE; while ((bytesread = read(fd,buffer,size)) > 0 ) { sfStartBuffer(sf,cursor,status,buffer[0],buffer[1],error); cursor->bytecnt++; for (ptr=buffer+1;ptr < buffer + bytesread -1; ptr++,cursor->bytecnt++) { if (*(ptr-1) == '\n' ) { sfNewLine(sf,cursor,*ptr,*(ptr+1),error); } } cursor->bytecnt++; status = statusEnd(buffer[bytesread-2],buffer[bytesread-1]); } free(buffer); sf->no_scans = cursor->scanno; /* * Save last */ sfSaveScan(sf,cursor,error); return; } static void sfResumeRead ( SpecFile *sf, SfCursor *cursor, int *error) { cursor->bytecnt = cursor->cursor; cursor->what = 0; cursor->hdafoffset = -1; cursor->dataoffset = -1; cursor->mcaspectra = 0; cursor->data = 0; cursor->scanno--; sf->updating = 1; lseek(sf->fd,cursor->bytecnt,SEEK_SET); return; } #ifdef SPECFILE_USE_INDEX_FILE static short sfOpenIndex ( SpecFile *sf, SfCursor *cursor, int *error) { char *idxname; short namelength; int sfi; namelength = strlen(sf->sfname) + strlen(SF_ISFX) + 1; idxname = (char *)malloc(sizeof(char) * namelength); sprintf(idxname,"%s%s",sf->sfname,SF_ISFX); if ((sfi = open(idxname,SF_OPENFLAG)) == -1) { free(idxname); return(SF_INIT); } else { free(idxname); return(sfReadIndex(sfi,sf,cursor,error)); } } static short sfReadIndex ( int sfi, SpecFile *sf, SfCursor *cursor, int *error) { SfCursor filecurs; char buffer[200]; long bytesread,i=0; SpecScan scan; short modif = 0; long mtime; /* * read signature */ bytesread = read(sfi,buffer,sizeof(SF_SIGNATURE)); if (strcmp(buffer,SF_SIGNATURE) || bytesread == 0 ) { return(SF_INIT); } /* * read cursor and specfile structure */ if ( read(sfi,&mtime, sizeof(long)) == 0) return(SF_INIT); if ( read(sfi,&filecurs, sizeof(SfCursor)) == 0) return(SF_INIT); if (sf->m_time != mtime) modif = 1; while(read(sfi,&scan, sizeof(SpecScan))) { addToList(&(sf->list), (void *)&scan, (long)sizeof(SpecScan)); i++; } sf->no_scans = i; memcpy(cursor,&filecurs,sizeof(SfCursor)); if (modif) return(SF_MODIFIED); return(SF_READY); } static void sfWriteIndex ( SpecFile *sf, SfCursor *cursor, int *error) { int fdi; char *idxname; short namelength; ObjectList *obj; long mtime; namelength = strlen(sf->sfname) + strlen(SF_ISFX) + 1; idxname = (char *)malloc(sizeof(char) * namelength); sprintf(idxname,"%s%s",sf->sfname,SF_ISFX); /* if ((fdi = open(idxname,SF_WRITEFLAG,SF_UMASK)) == -1) { */ if ((fdi = open(idxname,O_CREAT | O_WRONLY,SF_UMASK)) == -1) { printf(" - cannot open. Error: (%d)\n",errno); free(idxname); return; } else { mtime = sf->m_time; write(fdi,SF_SIGNATURE,sizeof(SF_SIGNATURE)); /* * Swap bytes for linux */ write(fdi, (void *) &mtime, sizeof(long)); write(fdi, (void *) cursor, sizeof(SfCursor)); for( obj = sf->list.first; obj ; obj = obj->next) write(fdi,(void *) obj->contents, sizeof(SpecScan)); close(fdi); free(idxname); return; } } #endif /***************************************************************************** * * Function: static void sfStartBuffer() * * Description: start analyzing file buffer and takes into account the last * bytes of previous reading as defined in variable status * *****************************************************************************/ static void sfStartBuffer(SpecFile *sf,SfCursor *cursor,short status,char c0,char c1,int *error) { if ( status == ANY ) { return; } else if ( status == NEWLINE ) { sfNewLine(sf,cursor,c0,c1,error); } else if ( status == COMMENT ) { cursor->bytecnt--; sfHeaderLine(sf,cursor,c0,error); cursor->bytecnt++; } } /******************************************************************************* * * Function: static void statusEnd() * * Description: ends analysis of file buffer and returns a variable * indicating staus ( last character is COMMENT,NEWLINE of ANY ) * *******************************************************************************/ static short statusEnd(char c2,char c1) { if (c2=='\n' && c1=='#') { return(COMMENT); } else if (c1=='\n') { return(NEWLINE); } else { return(ANY); } } static void sfNewLine(SpecFile *sf,SfCursor *cursor,char c0,char c1,int *error) { if (c0 == '#') { sfHeaderLine(sf,cursor,c1,error); } else if (c0 == '@') { if ( cursor->data == 0 ) { cursor->dataoffset = cursor->bytecnt; cursor->data = 1; } cursor->mcaspectra++; } else if ( isdigit(c0) || c0 == '-' || c0 == '+' || c0 == ' ' || c0 == '\t') { if ( cursor->data == 0 ) { cursor->dataoffset = cursor->bytecnt; cursor->data = 1; } } } static void sfHeaderLine(SpecFile *sf,SfCursor *cursor,char c,int *error) { if ( c == 'S') { sfNewBlock(sf,cursor,SCAN,error); } else if ( c == 'F') { sfNewBlock(sf,cursor,FILE_HEADER,error); } else { if (cursor->data && cursor->hdafoffset == -1 ) cursor->hdafoffset = cursor->bytecnt; } } static void sfNewBlock(SpecFile *sf,SfCursor *cursor,short newblock,int *error) { /* * Dispatch opened block */ if (cursor->what == SCAN) { sfSaveScan(sf,cursor,error); } else if ( cursor->what == FILE_HEADER) { cursor->fileh_size = cursor->bytecnt - cursor->cursor + 1; } /* * Open new block */ if (newblock == SCAN) { cursor->scanno++; cursor->what = SCAN; } else { cursor->file_header = cursor->bytecnt; } cursor->what = newblock; cursor->hdafoffset = -1; cursor->dataoffset = -1; cursor->mcaspectra = 0; cursor->data = 0; cursor->cursor = cursor->bytecnt; } static void sfSaveScan(SpecFile *sf, SfCursor *cursor,int *error) { SpecScan scan; SpecScan *oldscan; register ObjectList *ptr; scan.index = cursor->scanno; scan.offset = cursor->cursor; scan.size = cursor->bytecnt - cursor->cursor; scan.last = cursor->bytecnt - 1; scan.data_offset = cursor->dataoffset; scan.hdafter_offset = cursor->hdafoffset; scan.mcaspectra = cursor->mcaspectra; scan.file_header = cursor->file_header; if(sf->updating == 1){ ptr = sf->list.last; oldscan=(SpecScan *)(ptr->contents); oldscan->index=scan.index; oldscan->offset=scan.offset; oldscan->size=scan.size; oldscan->last=scan.last; oldscan->data_offset=scan.data_offset; oldscan->hdafter_offset=scan.hdafter_offset; oldscan->mcaspectra=scan.mcaspectra; oldscan->file_header=scan.file_header; sf->updating=0; }else{ addToList( &(sf->list), (void *)&scan, (long) sizeof(SpecScan)); } } static void sfAssignScanNumbers(SpecFile *sf) { int size,i; char *buffer,*ptr; char buffer2[50]; register ObjectList *object, *object2; SpecScan *scan, *scan2; size = 50; buffer = (char *) malloc(size); for ( object = (sf->list).first; object; object=object->next) { scan = (SpecScan *) object->contents; lseek(sf->fd,scan->offset,SEEK_SET); read(sf->fd,buffer,size); buffer[49] = '\0'; for ( ptr = buffer+3,i=0; *ptr != ' ';ptr++,i++) buffer2[i] = *ptr; buffer2[i] = '\0'; scan->scan_no = atol(buffer2); scan->order = 1; for ( object2 = (sf->list).first; object2 != object; object2=object2->next) { scan2 = (SpecScan *) object2->contents; if (scan2->scan_no == scan->scan_no) scan->order++; } } } void printCursor(SfCursor *cursor) { printf("\n"); printf(" - Bytecnt: %ld\n",cursor->bytecnt); printf(" - Cursor: %ld\n",cursor->cursor); printf(" - Scanno: %ld\n",cursor->scanno); } silx-0.6.1/silx/io/specfile_wrapper.pxd0000644023630100076410000000575513202530432020604 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "17/03/2016" cimport cython cdef extern from "SpecFileCython.h": struct _SpecFile: pass # Renaming struct because we have too many SpecFile items (files, classes…) ctypedef _SpecFile SpecFileHandle cdef extern from "SpecFileCython.h": # sfinit SpecFileHandle* SfOpen(char*, int*) int SfClose(SpecFileHandle*) char* SfError(int) # sfindex long* SfList(SpecFileHandle*, int*) long SfScanNo(SpecFileHandle*) long SfIndex(SpecFileHandle*, long, long) long SfNumber(SpecFileHandle*, long) long SfOrder(SpecFileHandle*, long) # sfdata int SfData(SpecFileHandle*, long, double***, long**, int*) long SfDataLine(SpecFileHandle*, long, long, double**, int*) long SfDataColByName(SpecFileHandle*, long, char*, double**, int*) # sfheader #char* SfTitle(SpecFileHandle*, long, int*) long SfHeader(SpecFileHandle*, long, char*, char***, int*) long SfFileHeader(SpecFileHandle*, long, char*, char***, int*) char* SfCommand(SpecFileHandle*, long, int*) long SfNoColumns(SpecFileHandle*, long, int*) char* SfDate(SpecFileHandle*, long, int*) # sflabel long SfAllLabels(SpecFileHandle*, long, char***, int*) char* SfLabel(SpecFileHandle*, long, long, int *) long SfAllMotors(SpecFileHandle*, long, char***, int*) long SfAllMotorPos(SpecFileHandle*, long, double**, int*) double SfMotorPosByName(SpecFileHandle*, long, char*, int*) # sftools void freeArrNZ(void***, long) # sfmca long SfNoMca(SpecFileHandle*, long, int*) int SfGetMca(SpecFileHandle*, long, long , double**, int*) long SfMcaCalib(SpecFileHandle*, long, double**, int*) silx-0.6.1/silx/io/spectoh5.py0000644023630100076410000000653713202530432016640 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Deprecated module. Use :mod:`convert` instead.""" from .convert import Hdf5Writer from .convert import write_to_h5 from .convert import convert as other_convert from silx.utils import deprecation deprecation.deprecated_warning(type_="Module", name="silx.io.spectoh5", since_version="0.6", replacement="silx.io.convert") class SpecToHdf5Writer(Hdf5Writer): def __init__(self, h5path='/', overwrite_data=False, link_type="hard", create_dataset_args=None): deprecation.deprecated_warning( type_="Class", name="SpecToHdf5Writer", since_version="0.6", replacement="silx.io.convert.Hdf5Writer") Hdf5Writer.__init__(self, h5path, overwrite_data, link_type, create_dataset_args) # methods whose signatures changed def write(self, sfh5, h5f): Hdf5Writer.write(self, infile=sfh5, h5f=h5f) def append_spec_member_to_h5(self, spec_h5_name, obj): Hdf5Writer.append_member_to_h5(self, h5like_name=spec_h5_name, obj=obj) @deprecation.deprecated(replacement="silx.io.convert.write_to_h5", since_version="0.6") def write_spec_to_h5(specfile, h5file, h5path='/', mode="a", overwrite_data=False, link_type="hard", create_dataset_args=None): write_to_h5(infile=specfile, h5file=h5file, h5path=h5path, mode=mode, overwrite_data=overwrite_data, link_type=link_type, create_dataset_args=create_dataset_args) @deprecation.deprecated(replacement="silx.io.convert.convert", since_version="0.6") def convert(specfile, h5file, mode="w-", create_dataset_args=None): other_convert(infile=specfile, h5file=h5file, mode=mode, create_dataset_args=create_dataset_args) silx-0.6.1/silx/io/__init__.py0000644023630100076410000000325713202530432016641 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """I/O modules""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "15/05/2017" from .utils import open # pylint:disable=redefined-builtin from .utils import save1D from .utils import is_dataset from .utils import is_file from .utils import is_group from .utils import is_softlink # avoid to import open with "import *" __all__ = ["save1D", "is_dataset", "is_file", "is_group", "is_softlink"] silx-0.6.1/silx/io/specfile.pyx0000644023630100076410000012152213202530432017060 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module is a cython binding to wrap the C SpecFile library, to access SpecFile data within a python program. Documentation for the original C library SpecFile can be found on the ESRF website: `The manual for the SpecFile Library `_ Examples ======== Start by importing :class:`SpecFile` and instantiate it: .. code-block:: python from silx.io.specfile import SpecFile sf = SpecFile("test.dat") A :class:`SpecFile` instance can be accessed like a dictionary to obtain a :class:`Scan` instance. If the key is a string representing two values separated by a dot (e.g. ``"1.2"``), they will be treated as the scan number (``#S`` header line) and the scan order:: # get second occurrence of scan "#S 1" myscan = sf["1.2"] # access scan data as a numpy array nlines, ncolumns = myscan.data.shape If the key is an integer, it will be treated as a 0-based index:: first_scan = sf[0] second_scan = sf[1] It is also possible to browse through all scans using :class:`SpecFile` as an iterator:: for scan in sf: print(scan.scan_header_dict['S']) MCA spectra can be selectively loaded using an instance of :class:`MCA` provided by :class:`Scan`:: # Only one MCA spectrum is loaded in memory second_mca = first_scan.mca[1] # Iterating trough all MCA spectra in a scan: for mca_data in first_scan.mca: print(sum(mca_data)) Classes ======= - :class:`SpecFile` - :class:`Scan` - :class:`MCA` Exceptions ========== - :class:`SfError` - :class:`SfErrMemoryAlloc` - :class:`SfErrFileOpen` - :class:`SfErrFileClose` - :class:`SfErrFileRead` - :class:`SfErrFileWrite` - :class:`SfErrLineNotFound` - :class:`SfErrScanNotFound` - :class:`SfErrHeaderNotFound` - :class:`SfErrLabelNotFound` - :class:`SfErrMotorNotFound` - :class:`SfErrPositionNotFound` - :class:`SfErrLineEmpty` - :class:`SfErrUserNotFound` - :class:`SfErrColNotFound` - :class:`SfErrMcaNotFound` """ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "11/08/2017" import os.path import logging import numpy import re import sys _logger = logging.getLogger(__name__) cimport numpy cimport cython from libc.stdlib cimport free cimport specfile_wrapper # hack to avoid C compiler warnings about unused functions in the NumPy header files # Sources: Cython test suite. cdef extern from *: bint FALSE "0" void import_array() void import_umath() if FALSE: import_array() import_umath() numpy.import_array() SF_ERR_NO_ERRORS = 0 SF_ERR_FILE_OPEN = 2 SF_ERR_SCAN_NOT_FOUND = 7 # custom errors class SfError(Exception): """Base exception inherited by all exceptions raised when a C function from the legacy SpecFile library returns an error code. """ pass class SfErrMemoryAlloc(SfError, MemoryError): pass class SfErrFileOpen(SfError, IOError): pass class SfErrFileClose(SfError, IOError): pass class SfErrFileRead(SfError, IOError): pass class SfErrFileWrite(SfError, IOError): pass class SfErrLineNotFound(SfError, KeyError): pass class SfErrScanNotFound(SfError, IndexError): pass class SfErrHeaderNotFound(SfError, KeyError): pass class SfErrLabelNotFound(SfError, KeyError): pass class SfErrMotorNotFound(SfError, KeyError): pass class SfErrPositionNotFound(SfError, KeyError): pass class SfErrLineEmpty(SfError, IOError): pass class SfErrUserNotFound(SfError, KeyError): pass class SfErrColNotFound(SfError, KeyError): pass class SfErrMcaNotFound(SfError, IndexError): pass ERRORS = { 1: SfErrMemoryAlloc, 2: SfErrFileOpen, 3: SfErrFileClose, 4: SfErrFileRead, 5: SfErrFileWrite, 6: SfErrLineNotFound, 7: SfErrScanNotFound, 8: SfErrHeaderNotFound, 9: SfErrLabelNotFound, 10: SfErrMotorNotFound, 11: SfErrPositionNotFound, 12: SfErrLineEmpty, 13: SfErrUserNotFound, 14: SfErrColNotFound, 15: SfErrMcaNotFound, } class SfNoMcaError(SfError): """Custom exception raised when ``SfNoMca()`` returns ``-1`` """ pass class MCA(object): """ :param scan: Parent Scan instance :type scan: :class:`Scan` :var calibration: MCA calibration :math:`(a, b, c)` (as in :math:`a + b x + c x²`) from ``#@CALIB`` scan header. :type calibration: list of 3 floats, default ``[0., 1., 0.]`` :var channels: MCA channels list from ``#@CHANN`` scan header. In the absence of a ``#@CHANN`` header, this attribute is a list ``[0, …, N-1]`` where ``N`` is the length of the first spectrum. In the absence of MCA spectra, this attribute defaults to ``None``. :type channels: list of int This class provides access to Multi-Channel Analysis data. A :class:`MCA` instance can be indexed to access 1D numpy arrays representing single MCA spectra. To create a :class:`MCA` instance, you must provide a parent :class:`Scan` instance, which in turn will provide a reference to the original :class:`SpecFile` instance:: sf = SpecFile("/path/to/specfile.dat") scan2 = Scan(sf, scan_index=2) mcas_in_scan2 = MCA(scan2) for i in len(mcas_in_scan2): mca_data = mcas_in_scan2[i] ... # do some something with mca_data (1D numpy array) A more pythonic way to do the same work, without having to explicitly instantiate ``scan`` and ``mcas_in_scan``, would be:: sf = SpecFile("specfilename.dat") # scan2 from previous example can be referred to as sf[2] # mcas_in_scan2 from previous example can be referred to as scan2.mca for mca_data in sf[2].mca: ... # do some something with mca_data (1D numpy array) """ def __init__(self, scan): self._scan = scan # Header dict self._header = scan.mca_header_dict self.calibration = [] """List of lists of calibration values, one list of 3 floats per MCA device or a single list applying to all devices """ self._parse_calibration() self.channels = [] """List of lists of channels, one list of integers per MCA device or a single list applying to all devices""" self._parse_channels() def _parse_channels(self): """Fill :attr:`channels`""" # Channels list if "CHANN" in self._header: chann_lines = self._header["CHANN"].split("\n") all_chann_values = [chann_line.split() for chann_line in chann_lines] for one_line_chann_values in all_chann_values: length, start, stop, increment = map(int, one_line_chann_values) self.channels.append(list(range(start, stop + 1, increment))) elif len(self): # in the absence of #@CHANN, use shape of first MCA length = self[0].shape[0] start, stop, increment = (0, length - 1, 1) self.channels.append(list(range(start, stop + 1, increment))) def _parse_calibration(self): """Fill :attr:`calibration`""" # Channels list if "CALIB" in self._header: calib_lines = self._header["CALIB"].split("\n") all_calib_values = [calib_line.split() for calib_line in calib_lines] for one_line_calib_values in all_calib_values: self.calibration.append(list(map(float, one_line_calib_values))) else: # in the absence of #@calib, use default self.calibration.append([0., 1., 0.]) def __len__(self): """ :return: Number of mca in Scan :rtype: int """ return self._scan._specfile.number_of_mca(self._scan.index) def __getitem__(self, key): """Return a single MCA data line :param key: 0-based index of MCA within Scan :type key: int :return: Single MCA :rtype: 1D numpy array """ if not len(self): raise IndexError("No MCA spectrum found in this scan") if isinstance(key, (int, long)): mca_index = key # allow negative index, like lists if mca_index < 0: mca_index = len(self) + mca_index else: raise TypeError("MCA index should be an integer (%s provided)" % (type(key))) if not 0 <= mca_index < len(self): msg = "MCA index must be in range 0-%d" % (len(self) - 1) raise IndexError(msg) return self._scan._specfile.get_mca(self._scan.index, mca_index) def __iter__(self): """Return the next MCA data line each time this method is called. :return: Single MCA :rtype: 1D numpy array """ for mca_index in range(len(self)): yield self._scan._specfile.get_mca(self._scan.index, mca_index) def _add_or_concatenate(dictionary, key, value): """If key doesn't exist in dictionary, create a new ``key: value`` pair. Else append/concatenate the new value to the existing one """ try: if key not in dictionary: dictionary[key] = value else: dictionary[key] += "\n" + value except TypeError: raise TypeError("Parameter value must be a string.") class Scan(object): """ :param specfile: Parent SpecFile from which this scan is extracted. :type specfile: :class:`SpecFile` :param scan_index: Unique index defining the scan in the SpecFile :type scan_index: int Interface to access a SpecFile scan A scan is a block of descriptive header lines followed by a 2D data array. Following three ways of accessing a scan are equivalent:: sf = SpecFile("/path/to/specfile.dat") # Explicit class instantiation scan2 = Scan(sf, scan_index=2) # 0-based index on a SpecFile object scan2 = sf[2] # Using a "n.m" key (scan number starting with 1, scan order) scan2 = sf["3.1"] """ def __init__(self, specfile, scan_index): self._specfile = specfile self._index = scan_index self._number = specfile.number(scan_index) self._order = specfile.order(scan_index) self._scan_header_lines = self._specfile.scan_header(self._index) self._file_header_lines = self._specfile.file_header(self._index) if self._file_header_lines == self._scan_header_lines: self._file_header_lines = [] self._header = self._file_header_lines + self._scan_header_lines self._scan_header_dict = {} self._mca_header_dict = {} for line in self._scan_header_lines: match = re.search(r"#(\w+) *(.*)", line) match_mca = re.search(r"#@(\w+) *(.*)", line) if match: hkey = match.group(1).lstrip("#").strip() hvalue = match.group(2).strip() _add_or_concatenate(self._scan_header_dict, hkey, hvalue) elif match_mca: hkey = match_mca.group(1).lstrip("#").strip() hvalue = match_mca.group(2).strip() _add_or_concatenate(self._mca_header_dict, hkey, hvalue) else: # this shouldn't happen _logger.warning("Unable to parse scan header line " + line) self._labels = [] if self.record_exists_in_hdr('L'): try: self._labels = self._specfile.labels(self._index) except SfErrLineNotFound: # SpecFile.labels raises an IndexError when encountering # a Scan with no data, even if the header exists. L_header = re.sub(r" {2,}", " ", # max. 2 spaces self._scan_header_dict["L"]) self._labels = L_header.split(" ") self._file_header_dict = {} for line in self._file_header_lines: match = re.search(r"#(\w+) *(.*)", line) if match: # header type hkey = match.group(1).lstrip("#").strip() hvalue = match.group(2).strip() _add_or_concatenate(self._file_header_dict, hkey, hvalue) else: _logger.warning("Unable to parse file header line " + line) self._motor_names = self._specfile.motor_names(self._index) self._motor_positions = self._specfile.motor_positions(self._index) self._data = None self._mca = None @cython.embedsignature(False) @property def index(self): """Unique scan index 0 - len(specfile)-1 This attribute is implemented as a read-only property as changing its value may cause nasty side-effects (such as loading data from a different scan without updating the header accordingly.""" return self._index @cython.embedsignature(False) @property def number(self): """First value on #S line (as int)""" return self._number @cython.embedsignature(False) @property def order(self): """Order can be > 1 if the same number is repeated in a specfile""" return self._order @cython.embedsignature(False) @property def header(self): """List of raw header lines (as a list of strings). This includes the file header, the scan header and possibly a MCA header. """ return self._header @cython.embedsignature(False) @property def scan_header(self): """List of raw scan header lines (as a list of strings). """ return self._scan_header_lines @cython.embedsignature(False) @property def file_header(self): """List of raw file header lines (as a list of strings). """ return self._file_header_lines @cython.embedsignature(False) @property def scan_header_dict(self): """ Dictionary of scan header strings, keys without the leading``#`` (e.g. ``scan_header_dict["S"]``). Note: this does not include MCA header lines starting with ``#@``. """ return self._scan_header_dict @cython.embedsignature(False) @property def mca_header_dict(self): """ Dictionary of MCA header strings, keys without the leading ``#@`` (e.g. ``mca_header_dict["CALIB"]``). """ return self._mca_header_dict @cython.embedsignature(False) @property def file_header_dict(self): """ Dictionary of file header strings, keys without the leading ``#`` (e.g. ``file_header_dict["F"]``). """ return self._file_header_dict @cython.embedsignature(False) @property def labels(self): """ List of data column headers from ``#L`` scan header """ return self._labels @cython.embedsignature(False) @property def data(self): """Scan data as a 2D numpy.ndarray with the usual attributes (e.g. data.shape). The first index is the detector, the second index is the sample index. """ if self._data is None: self._data = numpy.transpose(self._specfile.data(self._index)) return self._data @cython.embedsignature(False) @property def mca(self): """MCA data in this scan. Each multichannel analysis is a 1D numpy array. Metadata about MCA data is to be found in :py:attr:`mca_header`. :rtype: :class:`MCA` """ if self._mca is None: self._mca = MCA(self) return self._mca @cython.embedsignature(False) @property def motor_names(self): """List of motor names from the ``#O`` file header line. """ return self._motor_names @cython.embedsignature(False) @property def motor_positions(self): """List of motor positions as floats from the ``#P`` scan header line. """ return self._motor_positions def record_exists_in_hdr(self, record): """Check whether a scan header line exists. This should be used before attempting to retrieve header information using a C function that may crash with a *segmentation fault* if the header isn't defined in the SpecFile. :param record: single upper case letter corresponding to the header you want to test (e.g. ``L`` for labels) :type record: str :return: True or False :rtype: boolean """ for line in self._header: if line.startswith("#" + record): return True return False def data_line(self, line_index): """Returns data for a given line of this scan. .. note:: A data line returned by this method, corresponds to a data line in the original specfile (a series of data points, one per detector). In the :attr:`data` array, this line index corresponds to the index in the second dimension (~ column) of the array. :param line_index: Index of data line to retrieve (starting with 0) :type line_index: int :return: Line data as a 1D array of doubles :rtype: numpy.ndarray """ # attribute data corresponds to a transposed version of the original # specfile data (where detectors correspond to columns) return self.data[:, line_index] def data_column_by_name(self, label): """Returns a data column :param label: Label of data column to retrieve, as defined on the ``#L`` line of the scan header. :type label: str :return: Line data as a 1D array of doubles :rtype: numpy.ndarray """ try: ret = self._specfile.data_column_by_name(self._index, label) except SfErrLineNotFound: # Could be a "#C Scan aborted after 0 points" _logger.warning("Cannot get data column %s in scan %d.%d", label, self.number, self.order) ret = numpy.empty((0, ), numpy.double) return ret def motor_position_by_name(self, name): """Returns the position for a given motor :param name: Name of motor, as defined on the ``#O`` line of the file header. :type name: str :return: Motor position :rtype: float """ return self._specfile.motor_position_by_name(self._index, name) def _string_to_char_star(string_): """Convert a string to ASCII encoded bytes when using python3""" if sys.version.startswith("3") and not isinstance(string_, bytes): return bytes(string_, "ascii") return string_ def is_specfile(filename): """Test if a file is a SPEC file, by checking if one of the first two lines starts with *#F* (SPEC file header) or *#S* (scan header). :param str filename: File path :return: *True* if file is a SPEC file, *False* if it is not a SPEC file :rtype: bool """ if not os.path.isfile(filename): return False # test for presence of #S or #F in first two lines f = open(filename) for i, line in enumerate(f): if line.startswith("#S ") or line.startswith("#F "): f.close() return True if i >= 10: break f.close() return False cdef class SpecFile(object): """ :param filename: Path of the SpecFile to read This class wraps the main data and header access functions of the C SpecFile library. """ cdef: specfile_wrapper.SpecFileHandle *handle str filename def __cinit__(self, filename): cdef int error = SF_ERR_NO_ERRORS self.handle = NULL if is_specfile(filename): filename = _string_to_char_star(filename) self.handle = specfile_wrapper.SfOpen(filename, &error) if error: self._handle_error(error) else: # handle_error takes care of raising the correct error, # this causes the destructor to be called self._handle_error(SF_ERR_FILE_OPEN) def __init__(self, filename): if not isinstance(filename, str): # encode unicode to str in python 2 if sys.version_info[0] < 3: self.filename = filename.encode() # decode bytes to str in python 3 elif sys.version_info[0] >= 3: self.filename = filename.decode() else: self.filename = filename def __dealloc__(self): """Destructor: Calls SfClose(self.handle)""" # handle is NULL if SfOpen failed if self.handle: if specfile_wrapper.SfClose(self.handle): _logger.warning("Error while closing SpecFile") def __len__(self): """Return the number of scans in the SpecFile """ return specfile_wrapper.SfScanNo(self.handle) def __iter__(self): """Return the next :class:`Scan` in a SpecFile each time this method is called. This usually happens when the python built-in function ``next()`` is called with a :class:`SpecFile` instance as a parameter, or when a :class:`SpecFile` instance is used as an iterator (e.g. in a ``for`` loop). """ for scan_index in range(len(self)): yield Scan(self, scan_index) def __getitem__(self, key): """Return a :class:`Scan` object. This special method is called when a :class:`SpecFile` instance is accessed as a dictionary (e.g. ``sf[key]``). :param key: 0-based scan index or ``"n.m"`` key, where ``n`` is the scan number defined on the ``#S`` header line and ``m`` is the order :type key: int or str :return: Scan defined by its 0-based index or its ``"n.m"`` key :rtype: :class:`Scan` """ msg = "The scan identification key can be an integer representing " msg += "the unique scan index or a string 'N.M' with N being the scan" msg += " number and M the order (eg '2.3')." if isinstance(key, int): scan_index = key # allow negative index, like lists if scan_index < 0: scan_index = len(self) + scan_index else: try: (number, order) = map(int, key.split(".")) scan_index = self.index(number, order) except (ValueError, SfErrScanNotFound, KeyError): # int() can raise a value error raise KeyError(msg + "\nValid keys: '" + "', '".join(self.keys()) + "'") except AttributeError: # e.g. "AttrErr: 'float' object has no attribute 'split'" raise TypeError(msg) if not 0 <= scan_index < len(self): msg = "Scan index must be in range 0-%d" % (len(self) - 1) raise IndexError(msg) return Scan(self, scan_index) def keys(self): """Returns list of scan keys (eg ``['1.1', '2.1',...]``). :return: list of scan keys :rtype: list of strings """ ret_list = [] list_of_numbers = self._list() count = {} for number in list_of_numbers: if number not in count: count[number] = 1 else: count[number] += 1 ret_list.append(u'%d.%d' % (number, count[number])) return ret_list def __contains__(self, key): """Return ``True`` if ``key`` is a valid scan key. Valid keys can be a string such as ``"1.1"`` or a 0-based scan index. """ return key in (self.keys() + list(range(len(self)))) def _get_error_string(self, error_code): """Returns the error message corresponding to the error code. :param code: Error code :type code: int :return: Human readable error message :rtype: str """ return ( specfile_wrapper.SfError(error_code)).decode() def _handle_error(self, error_code): """Inspect error code, raise adequate error type if necessary. :param code: Error code :type code: int """ error_message = self._get_error_string(error_code) if error_code in ERRORS: raise ERRORS[error_code](error_message) def index(self, scan_number, scan_order=1): """Returns scan index from scan number and order. :param scan_number: Scan number (possibly non-unique). :type scan_number: int :param scan_order: Scan order. :type scan_order: int default 1 :return: Unique scan index :rtype: int Scan indices are increasing from ``0`` to ``len(self)-1`` in the order in which they appear in the file. Scan numbers are defined by users and are not necessarily unique. The scan order for a given scan number increments each time the scan number appears in a given file. """ idx = specfile_wrapper.SfIndex(self.handle, scan_number, scan_order) if idx == -1: self._handle_error(SF_ERR_SCAN_NOT_FOUND) return idx - 1 def number(self, scan_index): """Returns scan number from scan index. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: User defined scan number. :rtype: int """ idx = specfile_wrapper.SfNumber(self.handle, scan_index + 1) if idx == -1: self._handle_error(SF_ERR_SCAN_NOT_FOUND) return idx def order(self, scan_index): """Returns scan order from scan index. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: Scan order (sequential number incrementing each time a non-unique occurrence of a scan number is encountered). :rtype: int """ ordr = specfile_wrapper.SfOrder(self.handle, scan_index + 1) if ordr == -1: self._handle_error(SF_ERR_SCAN_NOT_FOUND) return ordr def _list(self): """see documentation of :meth:`list` """ cdef: long *scan_numbers int error = SF_ERR_NO_ERRORS scan_numbers = specfile_wrapper.SfList(self.handle, &error) self._handle_error(error) ret_list = [] for i in range(len(self)): ret_list.append(scan_numbers[i]) free(scan_numbers) return ret_list def list(self): """Returns list (1D numpy array) of scan numbers in SpecFile. :return: list of scan numbers (from `` #S`` lines) in the same order as in the original SpecFile (e.g ``[1, 1, 2, 3, …]``). :rtype: numpy array """ # this method is overloaded in specfilewrapper to output a string # representation of the list return self._list() def data(self, scan_index): """Returns data for the specified scan index. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: Complete scan data as a 2D array of doubles :rtype: numpy.ndarray """ cdef: double** mydata long* data_info int i, j int error = SF_ERR_NO_ERRORS long nlines, ncolumns, regular sfdata_error = specfile_wrapper.SfData(self.handle, scan_index + 1, &mydata, &data_info, &error) self._handle_error(error) if data_info != 0: nlines = data_info[0] ncolumns = data_info[1] regular = data_info[2] else: nlines = 0 ncolumns = 0 regular = 0 cdef numpy.ndarray ret_array = numpy.empty((nlines, ncolumns), dtype=numpy.double) for i in range(nlines): for j in range(ncolumns): ret_array[i, j] = mydata[i][j] specfile_wrapper.freeArrNZ(&mydata, nlines) free(data_info) return ret_array def data_column_by_name(self, scan_index, label): """Returns data column for the specified scan index and column label. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :param label: Label of data column, as defined in the ``#L`` line of the scan header. :type label: str :return: Data column as a 1D array of doubles :rtype: numpy.ndarray """ cdef: double* data_column long i, nlines int error = SF_ERR_NO_ERRORS label = _string_to_char_star(label) nlines = specfile_wrapper.SfDataColByName(self.handle, scan_index + 1, label, &data_column, &error) self._handle_error(error) cdef numpy.ndarray ret_array = numpy.empty((nlines,), dtype=numpy.double) for i in range(nlines): ret_array[i] = data_column[i] free(data_column) return ret_array def scan_header(self, scan_index): """Return list of scan header lines. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: List of raw scan header lines :rtype: list of str """ cdef: char** lines int error = SF_ERR_NO_ERRORS nlines = specfile_wrapper.SfHeader(self.handle, scan_index + 1, "", # no pattern matching &lines, &error) self._handle_error(error) lines_list = [] for i in range(nlines): line = lines[i].decode() lines_list.append(line) specfile_wrapper.freeArrNZ(&lines, nlines) return lines_list def file_header(self, scan_index=0): """Return list of file header lines. A file header contains all lines between a ``#F`` header line and a ``#S`` header line (start of scan). We need to specify a scan number because there can be more than one file header in a given file. A file header applies to all subsequent scans, until a new file header is defined. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: List of raw file header lines :rtype: list of str """ cdef: char** lines int error = SF_ERR_NO_ERRORS nlines = specfile_wrapper.SfFileHeader(self.handle, scan_index + 1, "", # no pattern matching &lines, &error) self._handle_error(error) lines_list = [] for i in range(nlines): line = lines[i].decode() lines_list.append(line) specfile_wrapper.freeArrNZ(&lines, nlines) return lines_list def columns(self, scan_index): """Return number of columns in a scan from the ``#N`` header line (without ``#N`` and scan number) :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: Number of columns in scan from ``#N`` line :rtype: int """ cdef: int error = SF_ERR_NO_ERRORS ncolumns = specfile_wrapper.SfNoColumns(self.handle, scan_index + 1, &error) self._handle_error(error) return ncolumns def command(self, scan_index): """Return ``#S`` line (without ``#S`` and scan number) :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: S line :rtype: str """ cdef: int error = SF_ERR_NO_ERRORS s_record = specfile_wrapper.SfCommand(self.handle, scan_index + 1, &error) self._handle_error(error) return s_record.decode() def date(self, scan_index=0): """Return date from ``#D`` line :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: Date from ``#D`` line :rtype: str """ cdef: int error = SF_ERR_NO_ERRORS d_line = specfile_wrapper.SfDate(self.handle, scan_index + 1, &error) self._handle_error(error) return d_line.decode() def labels(self, scan_index): """Return all labels from ``#L`` line :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: All labels from ``#L`` line :rtype: list of strings """ cdef: char** all_labels int error = SF_ERR_NO_ERRORS nlabels = specfile_wrapper.SfAllLabels(self.handle, scan_index + 1, &all_labels, &error) self._handle_error(error) labels_list = [] for i in range(nlabels): labels_list.append(all_labels[i].decode()) specfile_wrapper.freeArrNZ(&all_labels, nlabels) return labels_list def motor_names(self, scan_index=0): """Return all motor names from ``#O`` lines :param scan_index: Unique scan index between ``0`` and ``len(self)-1``.If not specified, defaults to 0 (meaning the function returns motors names associated with the first scan). This parameter makes a difference only if there are more than on file header in the file, in which case the file header applies to all following scans until a new file header appears. :type scan_index: int :return: All motor names :rtype: list of strings """ cdef: char** all_motors int error = SF_ERR_NO_ERRORS nmotors = specfile_wrapper.SfAllMotors(self.handle, scan_index + 1, &all_motors, &error) self._handle_error(error) motors_list = [] for i in range(nmotors): motors_list.append(all_motors[i].decode()) specfile_wrapper.freeArrNZ(&all_motors, nmotors) return motors_list def motor_positions(self, scan_index): """Return all motor positions :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: All motor positions :rtype: list of double """ cdef: double* motor_positions int error = SF_ERR_NO_ERRORS nmotors = specfile_wrapper.SfAllMotorPos(self.handle, scan_index + 1, &motor_positions, &error) self._handle_error(error) motor_positions_list = [] for i in range(nmotors): motor_positions_list.append(motor_positions[i]) free(motor_positions) return motor_positions_list def motor_position_by_name(self, scan_index, name): """Return motor position :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: Specified motor position :rtype: double """ cdef: int error = SF_ERR_NO_ERRORS name = _string_to_char_star(name) motor_position = specfile_wrapper.SfMotorPosByName(self.handle, scan_index + 1, name, &error) self._handle_error(error) return motor_position def number_of_mca(self, scan_index): """Return number of mca spectra in a scan. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: Number of mca spectra. :rtype: int """ cdef: int error = SF_ERR_NO_ERRORS num_mca = specfile_wrapper.SfNoMca(self.handle, scan_index + 1, &error) # error code updating isn't implemented in SfNoMCA if num_mca == -1: raise SfNoMcaError("Failed to retrieve number of MCA " + "(SfNoMca returned -1)") return num_mca def mca_calibration(self, scan_index): """Return MCA calibration in the form :math:`a + b x + c x²` Raise a KeyError if there is no ``@CALIB`` line in the scan header. :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :return: MCA calibration as a list of 3 values :math:`(a, b, c)` :rtype: list of floats """ cdef: int error = SF_ERR_NO_ERRORS double* mca_calib mca_calib_error = specfile_wrapper.SfMcaCalib(self.handle, scan_index + 1, &mca_calib, &error) # error code updating isn't implemented in SfMcaCalib if mca_calib_error: raise KeyError("MCA calibration line (@CALIB) not found") mca_calib_list = [] for i in range(3): mca_calib_list.append(mca_calib[i]) free(mca_calib) return mca_calib_list def get_mca(self, scan_index, mca_index): """Return one MCA spectrum :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. :type scan_index: int :param mca_index: Index of MCA in the scan :type mca_index: int :return: MCA spectrum :rtype: 1D numpy array """ cdef: int error = SF_ERR_NO_ERRORS double* mca_data long len_mca len_mca = specfile_wrapper.SfGetMca(self.handle, scan_index + 1, mca_index + 1, &mca_data, &error) self._handle_error(error) cdef numpy.ndarray ret_array = numpy.empty((len_mca,), dtype=numpy.double) for i in range(len_mca): ret_array[i] = mca_data[i] free(mca_data) return ret_array silx-0.6.1/silx/io/fabioh5.py0000644023630100076410000006601213202530432016415 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """This module provides functions to read fabio images as an HDF5 file. >>> import silx.io.fabioh5 >>> f = silx.io.fabioh5.File("foobar.edf") .. note:: This module has a dependency on the `h5py `_ and `fabio `_ libraries, which are not mandatory dependencies for `silx`. """ import collections import datetime import logging import numbers import fabio import numpy from . import commonh5 from silx.third_party import six from silx import version as silx_version try: import h5py except ImportError as e: h5py = None _logger = logging.getLogger(__name__) class FrameData(commonh5.LazyLoadableDataset): """Expose a cube of image from a Fabio file using `FabioReader` as cache.""" def __init__(self, name, fabio_reader, parent=None): attrs = {"interpretation": "image"} commonh5.LazyLoadableDataset.__init__(self, name, parent, attrs=attrs) self.__fabio_reader = fabio_reader def _create_data(self): return self.__fabio_reader.get_data() class RawHeaderData(commonh5.LazyLoadableDataset): """Lazy loadable raw header""" def __init__(self, name, fabio_file, parent=None): commonh5.LazyLoadableDataset.__init__(self, name, parent) self.__fabio_file = fabio_file def _create_data(self): """Initialize hold data by merging all headers of each frames. """ headers = [] types = set([]) for frame in range(self.__fabio_file.nframes): if self.__fabio_file.nframes == 1: header = self.__fabio_file.header else: header = self.__fabio_file.getframe(frame).header data = [] for key, value in header.items(): data.append("%s: %s" % (str(key), str(value))) data = "\n".join(data) try: line = data.encode("ascii") types.add(numpy.string_) except UnicodeEncodeError: try: line = data.encode("utf-8") types.add(numpy.unicode_) except UnicodeEncodeError: # Fallback in void line = numpy.void(data) types.add(numpy.void) headers.append(line) if numpy.void in types: dtype = numpy.void elif numpy.unicode_ in types: dtype = numpy.unicode_ else: dtype = numpy.string_ if dtype == numpy.unicode_ and h5py is not None: # h5py only support vlen unicode dtype = h5py.special_dtype(vlen=six.text_type) return numpy.array(headers, dtype=dtype) class MetadataGroup(commonh5.LazyLoadableGroup): """Abstract class for groups containing a reference to a fabio image. """ def __init__(self, name, metadata_reader, kind, parent=None, attrs=None): commonh5.LazyLoadableGroup.__init__(self, name, parent, attrs) self.__metadata_reader = metadata_reader self.__kind = kind def _create_child(self): keys = self.__metadata_reader.get_keys(self.__kind) for name in keys: data = self.__metadata_reader.get_value(self.__kind, name) dataset = commonh5.Dataset(name, data) self.add_node(dataset) @property def _metadata_reader(self): return self.__metadata_reader class DetectorGroup(commonh5.LazyLoadableGroup): """Define the detector group (sub group of instrument) using Fabio data. """ def __init__(self, name, fabio_reader, parent=None, attrs=None): if attrs is None: attrs = {"NX_class": "NXdetector"} commonh5.LazyLoadableGroup.__init__(self, name, parent, attrs) self.__fabio_reader = fabio_reader def _create_child(self): data = FrameData("data", self.__fabio_reader) self.add_node(data) # TODO we should add here Nexus informations we can extract from the # metadata others = MetadataGroup("others", self.__fabio_reader, kind=FabioReader.DEFAULT) self.add_node(others) class ImageGroup(commonh5.LazyLoadableGroup): """Define the image group (sub group of measurement) using Fabio data. """ def __init__(self, name, fabio_reader, parent=None, attrs=None): commonh5.LazyLoadableGroup.__init__(self, name, parent, attrs) self.__fabio_reader = fabio_reader def _create_child(self): basepath = self.parent.parent.name data = commonh5.SoftLink("data", path=basepath + "/instrument/detector_0/data") self.add_node(data) detector = commonh5.SoftLink("info", path=basepath + "/instrument/detector_0") self.add_node(detector) class SampleGroup(commonh5.LazyLoadableGroup): """Define the image group (sub group of measurement) using Fabio data. """ def __init__(self, name, fabio_reader, parent=None): attrs = {"NXclass": "NXsample"} commonh5.LazyLoadableGroup.__init__(self, name, parent, attrs) self.__fabio_reader = fabio_reader def _create_child(self): if self.__fabio_reader.has_ub_matrix(): scalar = {"interpretation": "scalar"} data = self.__fabio_reader.get_unit_cell_abc() data = commonh5.Dataset("unit_cell_abc", data, attrs=scalar) self.add_node(data) unit_cell_data = numpy.zeros((1, 6), numpy.float32) unit_cell_data[0, :3] = data data = self.__fabio_reader.get_unit_cell_alphabetagamma() data = commonh5.Dataset("unit_cell_alphabetagamma", data, attrs=scalar) self.add_node(data) unit_cell_data[0, 3:] = data data = commonh5.Dataset("unit_cell", unit_cell_data, attrs=scalar) self.add_node(data) data = self.__fabio_reader.get_ub_matrix() data = commonh5.Dataset("ub_matrix", data, attrs=scalar) self.add_node(data) class MeasurementGroup(commonh5.LazyLoadableGroup): """Define the measurement group for fabio file. """ def __init__(self, name, fabio_reader, parent=None, attrs=None): commonh5.LazyLoadableGroup.__init__(self, name, parent, attrs) self.__fabio_reader = fabio_reader def _create_child(self): keys = self.__fabio_reader.get_keys(FabioReader.COUNTER) # create image measurement but take care that no other metadata use # this name for i in range(1000): name = "image_%i" % i if name not in keys: data = ImageGroup(name, self.__fabio_reader) self.add_node(data) break else: raise Exception("image_i for 0..1000 already used") # add all counters for name in keys: data = self.__fabio_reader.get_value(FabioReader.COUNTER, name) dataset = commonh5.Dataset(name, data) self.add_node(dataset) class FabioReader(object): """Class which read and cache data and metadata from a fabio image.""" DEFAULT = 0 COUNTER = 1 POSITIONER = 2 def __init__(self, fabio_file): self.__fabio_file = fabio_file self.__counters = {} self.__positioners = {} self.__measurements = {} self.__key_filters = set([]) self.__data = None self.__frame_count = self.__fabio_file.nframes self._read(self.__fabio_file) def fabio_file(self): return self.__fabio_file def _create_data(self): """Initialize hold data by merging all frames into a single cube. Choose the cube size which fit the best the data. If some images are smaller than expected, the empty space is set to 0. The computation is cached into the class, and only done ones. """ images = [] for frame in range(self.__fabio_file.nframes): if self.__fabio_file.nframes == 1: image = self.__fabio_file.data else: image = self.__fabio_file.getframe(frame).data images.append(image) # returns the data without extra dim in case of single frame if len(images) == 1: return images[0] # get the max size max_dim = max([i.ndim for i in images]) max_shape = [0] * max_dim for image in images: for dim in range(image.ndim): if image.shape[dim] > max_shape[dim]: max_shape[dim] = image.shape[dim] max_shape = tuple(max_shape) # fix smallest images for index, image in enumerate(images): if image.shape == max_shape: continue location = [slice(0, i) for i in image.shape] while len(location) < max_dim: location.append(0) normalized_image = numpy.zeros(max_shape, dtype=image.dtype) normalized_image[location] = image images[index] = normalized_image # create a cube return numpy.array(images) def __get_dict(self, kind): """Returns a dictionary from according to an expected kind""" if kind == self.DEFAULT: return self.__measurements elif kind == self.COUNTER: return self.__counters elif kind == self.POSITIONER: return self.__positioners else: raise Exception("Unexpected kind %s", kind) def get_data(self): """Returns a cube from all available data from frames :rtype: numpy.ndarray """ if self.__data is None: self.__data = self._create_data() return self.__data def get_keys(self, kind): """Get all available keys according to a kind of metadata. :rtype: list """ return self.__get_dict(kind).keys() def get_value(self, kind, name): """Get a metadata value according to the kind and the name. :rtype: numpy.ndarray """ value = self.__get_dict(kind)[name] if not isinstance(value, numpy.ndarray): value = self._convert_metadata_vector(value) self.__get_dict(kind)[name] = value return value def _set_counter_value(self, frame_id, name, value): """Set a counter metadata according to the frame id""" if name not in self.__counters: self.__counters[name] = [None] * self.__frame_count self.__counters[name][frame_id] = value def _set_positioner_value(self, frame_id, name, value): """Set a positioner metadata according to the frame id""" if name not in self.__positioners: self.__positioners[name] = [None] * self.__frame_count self.__positioners[name][frame_id] = value def _set_measurement_value(self, frame_id, name, value): """Set a measurement metadata according to the frame id""" if name not in self.__measurements: self.__measurements[name] = [None] * self.__frame_count self.__measurements[name][frame_id] = value def _read(self, fabio_file): """Read all metadata from the fabio file and store it into this object.""" self.__key_filters.clear() if hasattr(fabio_file, "RESERVED_HEADER_KEYS"): # Provided in fabio 0.5 for key in fabio_file.RESERVED_HEADER_KEYS: self.__key_filters.add(key.lower()) for frame in range(fabio_file.nframes): if fabio_file.nframes == 1: header = fabio_file.header else: header = fabio_file.getframe(frame).header self._read_frame(frame, header) def _is_filtered_key(self, key): """ If this function returns True, the :meth:`_read_key` while not be called with this `key`while reading the metatdata frame. :param str key: A key of the metadata :rtype: bool """ return key.lower() in self.__key_filters def _read_frame(self, frame_id, header): """Read all metadata from a frame and store it into this object.""" for key, value in header.items(): if self._is_filtered_key(key): continue self._read_key(frame_id, key, value) def _read_key(self, frame_id, name, value): """Read a key from the metadata and cache it into this object.""" self._set_measurement_value(frame_id, name, value) def _convert_metadata_vector(self, values): """Convert a list of numpy data into a numpy array with the better fitting type.""" converted = [] types = set([]) has_none = False for v in values: if v is None: converted.append(None) has_none = True else: c = self._convert_value(v) converted.append(c) types.add(c.dtype) if has_none and len(types) == 0: # That's a list of none values return numpy.array([0] * len(values), numpy.int8) result_type = numpy.result_type(*types) if issubclass(result_type.type, numpy.string_): # use the raw data to create the array result = values elif issubclass(result_type.type, numpy.unicode_): # use the raw data to create the array result = values else: result = converted if has_none: # Fix missing data according to the array type if result_type.kind == "S": none_value = b"" elif result_type.kind == "U": none_value = u"" elif result_type.kind == "f": none_value = numpy.float("NaN") elif result_type.kind == "i": none_value = numpy.int(0) elif result_type.kind == "u": none_value = numpy.int(0) elif result_type.kind == "b": none_value = numpy.bool(False) else: none_value = None for index, r in enumerate(result): if r is not None: continue result[index] = none_value return numpy.array(result, dtype=result_type) def _convert_value(self, value): """Convert a string into a numpy object (scalar or array). The value is most of the time a string, but it can be python object in case if TIFF decoder for example. """ if isinstance(value, list): # convert to a numpy array return numpy.array(value) if isinstance(value, dict): # convert to a numpy associative array key_dtype = numpy.min_scalar_type(list(value.keys())) value_dtype = numpy.min_scalar_type(list(value.values())) associative_type = [('key', key_dtype), ('value', value_dtype)] assert key_dtype.kind != "O" and value_dtype.kind != "O" return numpy.array(list(value.items()), dtype=associative_type) if isinstance(value, numbers.Number): dtype = numpy.min_scalar_type(value) assert dtype.kind != "O" return dtype.type(value) if isinstance(value, six.binary_type): try: value = value.decode('utf-8') except UnicodeDecodeError: return numpy.void(value) if " " in value: result = self._convert_list(value) else: result = self._convert_scalar_value(value) return result def _convert_scalar_value(self, value): """Convert a string into a numpy int or float. If it is not possible it returns a numpy string. """ try: value = int(value) dtype = numpy.min_scalar_type(value) assert dtype.kind != "O" return dtype.type(value) except ValueError: try: # numpy.min_scalar_type is not able to do very well the job # when there is a lot of digit after the dot # https://github.com/numpy/numpy/issues/8207 # Let's count the digit of the string digits = len(value) - 1 # minus the dot if digits <= 7: # A float32 is accurate with about 7 digits return numpy.float32(value) elif digits <= 16: # A float64 is accurate with about 16 digits return numpy.float64(value) else: if hasattr(numpy, "float128"): return numpy.float128(value) else: return numpy.float64(value) except ValueError: return numpy.string_(value) def _convert_list(self, value): """Convert a string into a typed numpy array. If it is not possible it returns a numpy string. """ try: numpy_values = [] values = value.split(" ") types = set([]) for string_value in values: v = self._convert_scalar_value(string_value) numpy_values.append(v) types.add(v.dtype.type) result_type = numpy.result_type(*types) if issubclass(result_type.type, (numpy.string_, six.binary_type)): # use the raw data to create the result return numpy.string_(value) elif issubclass(result_type.type, (numpy.unicode_, six.text_type)): # use the raw data to create the result return numpy.unicode_(value) else: return numpy.array(numpy_values, dtype=result_type) except ValueError: return numpy.string_(value) def has_sample_information(self): """Returns true if there is information about the sample in the file :rtype: bool """ return self.has_ub_matrix() def has_ub_matrix(self): """Returns true if a UB matrix is available. :rtype: bool """ return False class EdfFabioReader(FabioReader): """Class which read and cache data and metadata from a fabio image. It is mostly the same as FabioReader, but counter_mne and motor_mne are parsed using a special way. """ def __init__(self, fabio_file): FabioReader.__init__(self, fabio_file) self.__unit_cell_abc = None self.__unit_cell_alphabetagamma = None self.__ub_matrix = None def _read_frame(self, frame_id, header): """Overwrite the method to check and parse special keys: counter and motors keys.""" self.__catch_keys = set([]) if "motor_pos" in header and "motor_mne" in header: self.__catch_keys.add("motor_pos") self.__catch_keys.add("motor_mne") self._read_mnemonic_key(frame_id, "motor", header) if "counter_pos" in header and "counter_mne" in header: self.__catch_keys.add("counter_pos") self.__catch_keys.add("counter_mne") self._read_mnemonic_key(frame_id, "counter", header) FabioReader._read_frame(self, frame_id, header) def _is_filtered_key(self, key): if key in self.__catch_keys: return True return FabioReader._is_filtered_key(self, key) def _get_mnemonic_key(self, base_key, header): mnemonic_values_key = base_key + "_mne" mnemonic_values = header.get(mnemonic_values_key, "") mnemonic_values = mnemonic_values.split() pos_values_key = base_key + "_pos" pos_values = header.get(pos_values_key, "") pos_values = pos_values.split() result = collections.OrderedDict() nbitems = max(len(mnemonic_values), len(pos_values)) for i in range(nbitems): if i < len(mnemonic_values): mnemonic = mnemonic_values[i] else: # skip the element continue if i < len(pos_values): pos = pos_values[i] else: pos = None result[mnemonic] = pos return result def _read_mnemonic_key(self, frame_id, base_key, header): """Parse a mnemonic key""" is_counter = base_key == "counter" is_positioner = base_key == "motor" data = self._get_mnemonic_key(base_key, header) for mnemonic, pos in data.items(): if is_counter: self._set_counter_value(frame_id, mnemonic, pos) elif is_positioner: self._set_positioner_value(frame_id, mnemonic, pos) else: raise Exception("State unexpected (base_key: %s)" % base_key) def has_ub_matrix(self): """Returns true if a UB matrix is available. :rtype: bool """ header = self.fabio_file().header expected_keys = set(["UB_mne", "UB_pos", "sample_mne", "sample_pos"]) return expected_keys.issubset(header) def parse_ub_matrix(self): header = self.fabio_file().header ub_data = self._get_mnemonic_key("UB", header) s_data = self._get_mnemonic_key("sample", header) if len(ub_data) > 9: _logger.warning("UB_mne and UB_pos contains more than expected keys.") if len(s_data) > 6: _logger.warning("sample_mne and sample_pos contains more than expected keys.") data = numpy.array([s_data["U0"], s_data["U1"], s_data["U2"]], dtype=float) unit_cell_abc = data data = numpy.array([s_data["U3"], s_data["U4"], s_data["U5"]], dtype=float) unit_cell_alphabetagamma = data ub_matrix = numpy.array([[ [ub_data["UB0"], ub_data["UB1"], ub_data["UB2"]], [ub_data["UB3"], ub_data["UB4"], ub_data["UB5"]], [ub_data["UB6"], ub_data["UB7"], ub_data["UB8"]]]], dtype=float) self.__unit_cell_abc = unit_cell_abc self.__unit_cell_alphabetagamma = unit_cell_alphabetagamma self.__ub_matrix = ub_matrix def get_unit_cell_abc(self): """Get a numpy array data as defined for the dataset unit_cell_abc from the NXsample dataset. :rtype: numpy.ndarray """ if self.__unit_cell_abc is None: self.parse_ub_matrix() return self.__unit_cell_abc def get_unit_cell_alphabetagamma(self): """Get a numpy array data as defined for the dataset unit_cell_alphabetagamma from the NXsample dataset. :rtype: numpy.ndarray """ if self.__unit_cell_alphabetagamma is None: self.parse_ub_matrix() return self.__unit_cell_alphabetagamma def get_ub_matrix(self): """Get a numpy array data as defined for the dataset ub_matrix from the NXsample dataset. :rtype: numpy.ndarray """ if self.__ub_matrix is None: self.parse_ub_matrix() return self.__ub_matrix class File(commonh5.File): """Class which handle a fabio image as a mimick of a h5py.File. """ def __init__(self, file_name=None, fabio_image=None): self.__must_be_closed = False if file_name is not None and fabio_image is not None: raise TypeError("Parameters file_name and fabio_image are mutually exclusive.") if file_name is not None: self.__fabio_image = fabio.open(file_name) self.__must_be_closed = True elif fabio_image is not None: self.__fabio_image = fabio_image file_name = self.__fabio_image.filename attrs = {"NX_class": "NXroot", "file_time": datetime.datetime.now().isoformat(), "file_name": file_name, "creator": "silx %s" % silx_version} commonh5.File.__init__(self, name=file_name, attrs=attrs) self.__fabio_reader = self.create_fabio_reader(self.__fabio_image) scan = self.create_scan_group(self.__fabio_image, self.__fabio_reader) self.add_node(scan) def create_scan_group(self, fabio_image, fabio_reader): """Factory to create the scan group. :param FabioImage fabio_image: A Fabio image :param FabioReader fabio_reader: A reader for the Fabio image :rtype: commonh5.Group """ scan = commonh5.Group("scan_0", attrs={"NX_class": "NXentry"}) instrument = commonh5.Group("instrument", attrs={"NX_class": "NXinstrument"}) measurement = MeasurementGroup("measurement", fabio_reader, attrs={"NX_class": "NXcollection"}) file_ = commonh5.Group("file", attrs={"NX_class": "NXcollection"}) positioners = MetadataGroup("positioners", fabio_reader, FabioReader.POSITIONER, attrs={"NX_class": "NXpositioner"}) raw_header = RawHeaderData("scan_header", fabio_image, self) detector = DetectorGroup("detector_0", fabio_reader) scan.add_node(instrument) instrument.add_node(positioners) instrument.add_node(file_) instrument.add_node(detector) file_.add_node(raw_header) scan.add_node(measurement) if fabio_reader.has_sample_information(): sample = SampleGroup("sample", fabio_reader) scan.add_node(sample) return scan def create_fabio_reader(self, fabio_file): """Factory to create fabio reader. :rtype: FabioReader""" if isinstance(fabio_file, fabio.edfimage.EdfImage): metadata = EdfFabioReader(fabio_file) else: metadata = FabioReader(fabio_file) return metadata def close(self): """Close the object, and free up associated resources. The associated FabioImage is closed anyway the object was created from a filename or from a FabioImage. After calling this method, attempts to use the object may fail. """ if self.__must_be_closed: # It looks like there is no close on FabioImage # self.__fabio_image.close() pass self.__fabio_image = None silx-0.6.1/silx/io/rawh5.py0000644023630100076410000000533513202530432016127 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module contains wrapper from file format to h5py. The exposed layout is as close as possible to the original file format. """ import numpy from . import commonh5 import logging __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "21/09/2017" _logger = logging.getLogger(__name__) class _FreeDataset(commonh5.Dataset): def _check_data(self, data): """Release the constriants checked on types cause we can reach more types than the one available on h5py, and it is not supposed to be converted into h5py.""" chartype = data.dtype.char if chartype in ["U", "O"]: msg = "Dataset '%s' uses an unsupported type '%s'." msg = msg % (self.name, data.dtype) _logger.warning(msg) class NumpyFile(commonh5.File): """ Expose a numpy file `npy`, or `npz` as an h5py.File-like. :param str name: Filename to load """ def __init__(self, name=None): commonh5.File.__init__(self, name=name, mode="w") np_file = numpy.load(name) if hasattr(np_file, "close"): # For npz (created using by numpy.savez, numpy.savez_compressed) for key, value in np_file.items(): self[key] = _FreeDataset(None, data=value) np_file.close() else: # For npy (created using numpy.save) value = np_file dataset = _FreeDataset("data", data=value) self.add_node(dataset) silx-0.6.1/silx/io/commonh5.py0000644023630100076410000007532713202530432016636 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module contains generic objects, emulating *h5py* groups, datasets and files. They are used in :mod:`spech5` and :mod:`fabioh5`. .. note:: This module has a dependency on the `h5py `_ library, which is not a mandatory dependency for `silx`. """ import collections import h5py import numpy from silx.third_party import six from .utils import is_dataset __authors__ = ["V. Valls", "P. Knobel"] __license__ = "MIT" __date__ = "02/10/2017" class _MappingProxyType(collections.MutableMapping): """Read-only dictionary This class is available since Python 3.3, but not on earlyer Python versions. """ def __init__(self, data): self._data = data def __getitem__(self, key): return self._data[key] def __len__(self): return len(self._data) def __iter__(self): return iter(self._data) def get(self, key, default=None): return self._data.get(key, default) def __setitem__(self, key, value): raise RuntimeError("Cannot modify read-only dictionary") def __delitem__(self, key): raise RuntimeError("Cannot modify read-only dictionary") def pop(self, key): raise RuntimeError("Cannot modify read-only dictionary") def clear(self): raise RuntimeError("Cannot modify read-only dictionary") def update(self, key, value): raise RuntimeError("Cannot modify read-only dictionary") def setdefault(self, key): raise RuntimeError("Cannot modify read-only dictionary") class Node(object): """This is the base class for all :mod:`spech5` and :mod:`fabioh5` classes. It represents a tree node, and knows its parent node (:attr:`parent`). The API mimics a *h5py* node, with following attributes: :attr:`file`, :attr:`attrs`, :attr:`name`, and :attr:`basename`. """ def __init__(self, name, parent=None, attrs=None): self.__parent = parent self.__basename = name self.__attrs = {} if attrs is not None: self.__attrs.update(attrs) def _set_basename(self, name): self.__basename = name @property def h5py_class(self): """Returns the h5py classes which is mimicked by this class. It can be one of `h5py.File, h5py.Group` or `h5py.Dataset` :rtype: Class """ raise NotImplementedError() @property def parent(self): """Returns the parent of the node. :rtype: Node """ return self.__parent @property def file(self): """Returns the file node of this node. :rtype: Node """ node = self while node.__parent is not None: node = node.__parent if isinstance(node, File): return node else: return None def _set_parent(self, parent): """Set the parent of this node. It do not update the parent object. :param Node parent: New parent for this node """ self.__parent = parent @property def attrs(self): """Returns HDF5 attributes of this node. :rtype: dict """ if self._is_editable(): return self.__attrs else: return _MappingProxyType(self.__attrs) @property def name(self): """Returns the HDF5 name of this node. """ if self.__parent is None: return "/" if self.__parent.name == "/": return "/" + self.basename return self.__parent.name + "/" + self.basename @property def basename(self): """Returns the HDF5 basename of this node. """ return self.__basename def _is_editable(self): """Returns true if the file is editable or if the node is not linked to a tree. :rtype: bool """ f = self.file return f is None or f.mode == "w" class Dataset(Node): """This class handles a numpy data object, as a mimicry of a *h5py.Dataset*. """ def __init__(self, name, data, parent=None, attrs=None): Node.__init__(self, name, parent, attrs=attrs) if data is not None: self._check_data(data) self.__data = data def _check_data(self, data): """Check that the data provided by the dataset is valid. It is valid when it can be stored in a HDF5 using h5py. :param numpy.ndarray data: Data associated to the dataset :raises TypeError: In the case the data is not valid. """ if isinstance(data, (six.text_type, six.binary_type)): return chartype = data.dtype.char if chartype == "U": pass elif chartype == "O": d = h5py.special_dtype(vlen=data.dtype) if d is not None: return d = h5py.special_dtype(ref=data.dtype) if d is not None: return else: return msg = "Type of the dataset '%s' is not supported. Found '%s'." raise TypeError(msg % (self.name, data.dtype)) def _set_data(self, data): """Set the data exposed by the dataset. It have to be called only one time before the data is used. It should not be edited after use. :param numpy.ndarray data: Data associated to the dataset """ self._check_data(data) self.__data = data def _get_data(self): """Returns the exposed data :rtype: numpy.ndarray """ return self.__data @property def h5py_class(self): """Returns the h5py classes which is mimicked by this class. It can be one of `h5py.File, h5py.Group` or `h5py.Dataset` :rtype: Class """ return h5py.Dataset @property def dtype(self): """Returns the numpy datatype exposed by this dataset. :rtype: numpy.dtype """ return self._get_data().dtype @property def shape(self): """Returns the shape of the data exposed by this dataset. :rtype: tuple """ if isinstance(self._get_data(), numpy.ndarray): return self._get_data().shape else: return tuple() @property def size(self): """Returns the size of the data exposed by this dataset. :rtype: int """ if isinstance(self._get_data(), numpy.ndarray): return self._get_data().size else: # It is returned as float64 1.0 by h5py return numpy.float64(1.0) def __len__(self): """Returns the size of the data exposed by this dataset. :rtype: int """ if isinstance(self._get_data(), numpy.ndarray): return len(self._get_data()) else: # It is returned as float64 1.0 by h5py raise TypeError("Attempt to take len() of scalar dataset") def __getitem__(self, item): """Returns the slice of the data exposed by this dataset. :rtype: numpy.ndarray """ if not isinstance(self._get_data(), numpy.ndarray): if item == Ellipsis: return numpy.array(self._get_data()) elif item == tuple(): return self._get_data() else: raise ValueError("Scalar can only be reached with an ellipsis or an empty tuple") return self._get_data().__getitem__(item) def __str__(self): basename = self.name.split("/")[-1] return '' % \ (basename, self.shape, self.dtype.str) def __getslice__(self, i, j): """Returns the slice of the data exposed by this dataset. Deprecated but still in use for python 2.7 :rtype: numpy.ndarray """ return self.__getitem__(slice(i, j, None)) @property def value(self): """Returns the data exposed by this dataset. Deprecated by h5py. It is prefered to use indexing `[()]`. :rtype: numpy.ndarray """ return self._get_data() @property def compression(self): """Returns compression as provided by `h5py.Dataset`. There is no compression.""" return None @property def compression_opts(self): """Returns compression options as provided by `h5py.Dataset`. There is no compression.""" return None @property def chunks(self): """Returns chunks as provided by `h5py.Dataset`. There is no chunks.""" return None def __array__(self, dtype=None): # Special case for (0,)*-shape datasets if numpy.product(self.shape) == 0: return self[()] else: return numpy.array(self[...], dtype=self.dtype if dtype is None else dtype) def __iter__(self): """Iterate over the first axis. TypeError if scalar.""" if len(self.shape) == 0: raise TypeError("Can't iterate over a scalar dataset") return self._get_data().__iter__() # make comparisons and operations on the data def __eq__(self, other): """When comparing datasets, compare the actual data.""" if is_dataset(other): return self[()] == other[()] return self[()] == other def __add__(self, other): return self[()] + other def __radd__(self, other): return other + self[()] def __sub__(self, other): return self[()] - other def __rsub__(self, other): return other - self[()] def __mul__(self, other): return self[()] * other def __rmul__(self, other): return other * self[()] def __truediv__(self, other): return self[()] / other def __rtruediv__(self, other): return other / self[()] def __floordiv__(self, other): return self[()] // other def __rfloordiv__(self, other): return other // self[()] def __neg__(self): return -self[()] def __abs__(self): return abs(self[()]) def __float__(self): return float(self[()]) def __int__(self): return int(self[()]) def __bool__(self): if self[()]: return True return False def __nonzero__(self): # python 2 return self.__bool__() def __ne__(self, other): if is_dataset(other): return self[()] != other[()] else: return self[()] != other def __lt__(self, other): if is_dataset(other): return self[()] < other[()] else: return self[()] < other def __le__(self, other): if is_dataset(other): return self[()] <= other[()] else: return self[()] <= other def __gt__(self, other): if is_dataset(other): return self[()] > other[()] else: return self[()] > other def __ge__(self, other): if is_dataset(other): return self[()] >= other[()] else: return self[()] >= other def __getattr__(self, item): """Proxy to underlying numpy array methods. """ data = self._get_data() if hasattr(data, item): return getattr(data, item) raise AttributeError("Dataset has no attribute %s" % item) class _LinkToDataset(Dataset): """Virtual dataset providing link to another dataset""" def __init__(self, name, target, parent=None): Dataset.__init__(self, name, data=None, parent=parent) self.__target = target def _get_data(self): return self.__target._get_data() @property def attrs(self): return self.__target.attrs class LazyLoadableDataset(Dataset): """Abstract dataset which provides a lazy loading of the data. The class has to be inherited and the :meth:`_create_data` method has to be implemented to return the numpy data exposed by the dataset. This factory method is only called once, when the data is needed. """ def __init__(self, name, parent=None, attrs=None): super(LazyLoadableDataset, self).__init__(name, None, parent, attrs=attrs) self._is_initialized = False def _create_data(self): """ Factory to create the data exposed by the dataset when it is needed. It has to be implemented for the class to work. :rtype: numpy.ndarray """ raise NotImplementedError() def _get_data(self): """Returns the data exposed by the dataset. Overwrite Dataset method :meth:`_get_data` to implement the lazy loading feature. :rtype: numpy.ndarray """ if not self._is_initialized: data = self._create_data() # is_initialized before set_data to avoid infinit initialization # is case of wrong check of the data self._is_initialized = True self._set_data(data) return super(LazyLoadableDataset, self)._get_data() class SoftLink(Node): """This class is a tree node that mimics a *h5py.Softlink*. In this implementation, the path to the target must be absolute. """ def __init__(self, name, path, parent=None): assert str(path).startswith("/") # TODO: h5py also allows a relative path Node.__init__(self, name, parent) # attr target defined for spech5 backward compatibility self.target = str(path) @property def h5py_class(self): """Returns the h5py class which is mimicked by this class (:class:`h5py.SoftLink`). :rtype: Class """ return h5py.SoftLink @property def path(self): """Soft link value. Not guaranteed to be a valid path.""" return self.target class Group(Node): """This class mimics a `h5py.Group`.""" def __init__(self, name, parent=None, attrs=None): Node.__init__(self, name, parent, attrs=attrs) self.__items = collections.OrderedDict() def _get_items(self): """Returns the child items as a name-node dictionary. :rtype: dict """ return self.__items def add_node(self, node): """Add a child to this group. :param Node node: Child to add to this group """ self._get_items()[node.basename] = node node._set_parent(self) @property def h5py_class(self): """Returns the h5py classes which is mimicked by this class. It returns `h5py.Group` :rtype: Class """ return h5py.Group def _get(self, name, getlink): """If getlink is True and name points to an existing SoftLink, this SoftLink is returned. In all other situations, we try to return a Group or Dataset, or we raise a KeyError if we fail.""" if "/" not in name: result = self._get_items()[name] elif name.startswith("/"): root = self.file if name == "/": return root result = root._get(name[1:], getlink) else: path = name.split("/") result = self for item_name in path: if isinstance(result, SoftLink): # traverse links l_name, l_target = result.name, result.path result = result.file.get(l_target) if result is None: raise KeyError( "Unable to open object (broken SoftLink %s -> %s)" % (l_name, l_target)) if not item_name: # trailing "/" in name (legal for accessing Groups only) if isinstance(result, Group): continue if not isinstance(result, Group): raise KeyError("Unable to open object (Component not found)") result = result._get_items()[item_name] if isinstance(result, SoftLink) and not getlink: link = result target = result.file.get(link.path) if result is None: msg = "Unable to open object (broken SoftLink %s -> %s)" raise KeyError(msg % (link.name, link.path)) # Convert SoftLink into typed group/dataset if isinstance(target, Group): result = _LinkToGroup(name=link.basename, target=target, parent=link.parent) elif isinstance(target, Dataset): result = _LinkToDataset(name=link.basename, target=target, parent=link.parent) else: raise TypeError("Unexpected target type %s" % type(target)) return result def get(self, name, default=None, getclass=False, getlink=False): """Retrieve an item or other information. If getlink only is true, the returned value is always `h5py.HardLink`, because this implementation do not use links. Like the original implementation. :param str name: name of the item :param object default: default value returned if the name is not found :param bool getclass: if true, the returned object is the class of the object found :param bool getlink: if true, links object are returned instead of the target :return: An object, else None :rtype: object """ if name not in self: return default node = self._get(name, getlink=True) if isinstance(node, SoftLink) and not getlink: # get target try: node = self._get(name, getlink=False) except KeyError: return default elif not isinstance(node, SoftLink) and getlink: # ExternalLink objects don't exist in silx, so it must be a HardLink node = h5py.HardLink() if getclass: if hasattr(node, "h5py_class"): obj = node.h5py_class else: obj = node.__class__ else: obj = node return obj def __setitem__(self, name, obj): """Add an object to the group. :param str name: Location on the group to store the object. This path name must not exists. :param object obj: Object to store on the file. According to the type, the behaviour will not be the same. - `commonh5.SoftLink`: Create the corresponding link. - `numpy.ndarray`: The array is converted to a dataset object. - `commonh5.Node`: A hard link should be created pointing to the given object. This implementation uses a soft link. If the node do not have parent it is connected to the tree without using a link (that's a hard link behaviour). - other object: Convert first the object with ndarray and then store it. ValueError if the resulting array dtype is not supported. """ if name in self: # From the h5py API raise RuntimeError("Unable to create link (name already exists)") elements = name.rsplit("/", 1) if len(elements) == 1: parent = self basename = elements[0] else: group_path, basename = elements if group_path in self: parent = self[group_path] else: parent = self.create_group(group_path) if isinstance(obj, SoftLink): obj._set_basename(basename) node = obj elif isinstance(obj, Node): if obj.parent is None: obj._set_basename(basename) node = obj else: node = SoftLink(basename, obj.name) elif isinstance(obj, numpy.dtype): node = Dataset(basename, data=obj) elif isinstance(obj, numpy.ndarray): node = Dataset(basename, data=obj) else: data = numpy.array(obj) try: node = Dataset(basename, data=data) except TypeError as e: raise ValueError(e.args[0]) parent.add_node(node) def __getitem__(self, name): """Return a child from his name. :param name str: name of a member or a path throug members using '/' separator. A '/' as a prefix access to the root item of the tree. :rtype: Node """ if name is None or name == "": raise ValueError("No name") return self._get(name, getlink=False) def __contains__(self, name): """Returns true if name is an existing child of this group. :rtype: bool """ if "/" not in name: return name in self._get_items() if name.startswith("/"): # h5py allows to access any valid full path from any group node = self.file else: node = self name = name.lstrip("/") basenames = name.split("/") for basename in basenames: if basename.strip() == "": # presence of a trailing "/" in name # (OK for groups, not for datasets) if isinstance(node, SoftLink): # traverse links node = node.file.get(node.path, getlink=False) if node is None: # broken link return False if node.h5py_class == h5py.Dataset: return False continue if basename not in node._get_items(): return False node = node[basename] return True def __len__(self): """Returns the number of children contained in this group. :rtype: int """ return len(self._get_items()) def __iter__(self): """Iterate over member names""" for x in self._get_items().__iter__(): yield x if six.PY2: def keys(self): """Returns a list of the children's names.""" return self._get_items().keys() def values(self): """Returns a list of the children nodes (groups and datasets). .. versionadded:: 0.6 """ return self._get_items().values() def items(self): """Returns a list of tuples containing (name, node) pairs. """ return self._get_items().items() else: def keys(self): """Returns an iterator over the children's names in a group.""" return self._get_items().keys() def values(self): """Returns an iterator over the children nodes (groups and datasets) in a group. .. versionadded:: 0.6 """ return self._get_items().values() def items(self): """Returns items iterator containing name-node mapping. :rtype: iterator """ return self._get_items().items() def visit(self, func, visit_links=False): """Recursively visit all names in this group and subgroups. See the documentation for `h5py.Group.visit` for more help. :param func: Callable (function, method or callable object) :type func: function """ origin_name = self.name return self._visit(func, origin_name, visit_links) def visititems(self, func, visit_links=False): """Recursively visit names and objects in this group. See the documentation for `h5py.Group.visititems` for more help. :param func: Callable (function, method or callable object) :type func: function :param bool visit_links: If *False*, ignore links. If *True*, call `func(name)` for links and recurse into target groups. """ origin_name = self.name return self._visit(func, origin_name, visit_links, visititems=True) def _visit(self, func, origin_name, visit_links=False, visititems=False): """ :param origin_name: name of first group that initiated the recursion This is used to compute the relative path from each item's absolute path. """ for member in self.values(): ret = None if not isinstance(member, SoftLink) or visit_links: relative_name = member.name[len(origin_name):] # remove leading slash and unnecessary trailing slash relative_name = relative_name.strip("/") if visititems: ret = func(relative_name, member) else: ret = func(relative_name) if ret is not None: return ret if isinstance(member, Group): member._visit(func, origin_name, visit_links, visititems) def create_group(self, name): """Create and return a new subgroup. Name may be absolute or relative. Fails if the target name already exists. :param str name: Name of the new group """ if not self._is_editable(): raise RuntimeError("File is not editable") if name in self: raise ValueError("Unable to create group (name already exists)") if name.startswith("/"): name = name[1:] return self.file.create_group(name) elements = name.split('/') group = self for basename in elements: if basename in group: group = group[basename] if not isinstance(group, Group): raise RuntimeError("Unable to create group (group parent is missing") else: node = Group(basename) group.add_node(node) group = node return group def create_dataset(self, name, shape=None, dtype=None, data=None, **kwds): """Create and return a sub dataset. :param str name: Name of the dataset. :param shape: Dataset shape. Use "()" for scalar datasets. Required if "data" isn't provided. :param dtype: Numpy dtype or string. If omitted, dtype('f') will be used. Required if "data" isn't provided; otherwise, overrides data array's dtype. :param numpy.ndarray data: Provide data to initialize the dataset. If used, you can omit shape and dtype arguments. :param kwds: Extra arguments. Nothing yet supported. """ if not self._is_editable(): raise RuntimeError("File is not editable") if len(kwds) > 0: raise TypeError("Extra args provided, but nothing supported") if "/" in name: raise TypeError("Path are not supported") if data is None: if dtype is None: dtype = numpy.float data = numpy.empty(shape=shape, dtype=dtype) elif dtype is not None: data = data.astype(dtype) dataset = Dataset(name, data) self.add_node(dataset) return dataset class _LinkToGroup(Group): """Virtual group providing link to another group""" def __init__(self, name, target, parent=None): Group.__init__(self, name, parent=parent) self.__target = target def _get_items(self): return self.__target._get_items() @property def attrs(self): return self.__target.attrs class LazyLoadableGroup(Group): """Abstract group which provides a lazy loading of the child. The class has to be inherited and the :meth:`_create_child` method has to be implemented to add (:meth:`_add_node`) all children. This factory is only called once, when children are needed. """ def __init__(self, name, parent=None, attrs=None): Group.__init__(self, name, parent, attrs) self.__is_initialized = False def _get_items(self): """Returns the internal structure which contains the children. It overwrite method :meth:`_get_items` to implement the lazy loading feature. :rtype: dict """ if not self.__is_initialized: self.__is_initialized = True self._create_child() return Group._get_items(self) def _create_child(self): """ Factory to create the child contained by the group when it is needed. It has to be implemented to work. """ raise NotImplementedError() class File(Group): """This class is the special :class:`Group` that is the root node of the tree structure. It mimics `h5py.File`.""" def __init__(self, name=None, mode=None, attrs=None): """ Constructor :param str name: File name if it exists :param str mode: Access mode - "r": Read-only. Methods :meth:`create_dataset` and :meth:`create_group` are locked. - "w": File is editable. Methods :meth:`create_dataset` and :meth:`create_group` are available. :param dict attrs: Default attributes """ Group.__init__(self, name="", parent=None, attrs=attrs) self._file_name = name if mode is None: mode = "r" assert(mode in ["r", "w"]) self._mode = mode @property def filename(self): return self._file_name @property def mode(self): return self._mode @property def h5py_class(self): """Returns the :class:`h5py.File` class""" return h5py.File def __enter__(self): return self def __exit__(self, exc_type, exc_val, exc_tb): self.close() def close(self): """Close the object, and free up associated resources. """ # should be implemented in subclass pass silx-0.6.1/silx/io/setup.py0000644023630100076410000000652613202530432016244 0ustar knobelusers00000000000000# coding: ascii # # JK: Numpy.distutils which imports this does not handle utf-8 in version<1.12 # # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["P. Knobel", "V.A. Sole"] __license__ = "MIT" __date__ = "03/10/2016" import os import sys import numpy from numpy.distutils.misc_util import Configuration # Locale and platform management SPECFILE_USE_GNU_SOURCE = os.getenv("SPECFILE_USE_GNU_SOURCE") if SPECFILE_USE_GNU_SOURCE is None: SPECFILE_USE_GNU_SOURCE = 0 if sys.platform.lower().startswith("linux"): warn = ("silx.io.specfile WARNING:", "A cleaner locale independent implementation", "may be achieved setting SPECFILE_USE_GNU_SOURCE to 1", "For instance running this script as:", "SPECFILE_USE_GNU_SOURCE=1 python setup.py build") print(os.linesep.join(warn)) else: SPECFILE_USE_GNU_SOURCE = int(SPECFILE_USE_GNU_SOURCE) if sys.platform == "win32": define_macros = [('WIN32', None)] elif os.name.lower().startswith('posix'): define_macros = [('SPECFILE_POSIX', None)] # the best choice is to have _GNU_SOURCE defined # as a compilation flag because that allows the # use of strtod_l if SPECFILE_USE_GNU_SOURCE: define_macros = [('_GNU_SOURCE', 1)] else: define_macros = [] def configuration(parent_package='', top_path=None): config = Configuration('io', parent_package, top_path) config.add_subpackage('test') srcfiles = ['sfheader', 'sfinit', 'sflists', 'sfdata', 'sfindex', 'sflabel', 'sfmca', 'sftools', 'locale_management'] sources = [os.path.join('specfile', 'src', ffile + '.c') for ffile in srcfiles] sources.append('specfile.pyx') config.add_extension('specfile', sources=sources, define_macros=define_macros, include_dirs=[os.path.join('specfile', 'include'), numpy.get_include()], language='c') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/io/specfile.c0000644023630100076410000407536313202537022016503 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "define_macros": [ [ "SPECFILE_POSIX", null ] ], "depends": [ "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h", "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ufuncobject.h", "silx/io/specfile/include/SpecFileCython.h" ], "include_dirs": [ "silx/io/specfile/include", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c" }, "module_name": "silx.io.specfile" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #elif !defined(CYTHON_USE_PYLONG_INTERNALS) #define CYTHON_USE_PYLONG_INTERNALS 1 #endif #ifndef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 1 #endif #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #if PY_VERSION_HEX < 0x030300F0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #elif !defined(CYTHON_USE_UNICODE_WRITER) #define CYTHON_USE_UNICODE_WRITER 1 #endif #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #ifndef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 1 #endif #ifndef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 1 #endif #endif #if !defined(CYTHON_FAST_PYCCALL) #define CYTHON_FAST_PYCCALL (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1) #endif #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #undef SHIFT #undef BASE #undef MASK #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 && !defined(Py_OptimizeFlag) #define Py_OptimizeFlag 0 #endif #define __PYX_BUILD_PY_SSIZE_T "n" #define CYTHON_FORMAT_SSIZE_T "z" #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyType_Type #endif #ifndef Py_TPFLAGS_CHECKTYPES #define Py_TPFLAGS_CHECKTYPES 0 #endif #ifndef Py_TPFLAGS_HAVE_INDEX #define Py_TPFLAGS_HAVE_INDEX 0 #endif #ifndef Py_TPFLAGS_HAVE_NEWBUFFER #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif #ifndef Py_TPFLAGS_HAVE_FINALIZE #define Py_TPFLAGS_HAVE_FINALIZE 0 #endif #ifndef METH_FASTCALL #define METH_FASTCALL 0x80 typedef PyObject *(*__Pyx_PyCFunctionFast) (PyObject *self, PyObject **args, Py_ssize_t nargs, PyObject *kwnames); #else #define __Pyx_PyCFunctionFast _PyCFunctionFast #endif #if CYTHON_FAST_PYCCALL #define __Pyx_PyFastCFunction_Check(func)\ ((PyCFunction_Check(func) && (METH_FASTCALL == 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PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) #define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) #else #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION < 3 && !defined(PyObject_ASCII) #define PyObject_ASCII(o) PyObject_Repr(o) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type #define PyStringObject PyUnicodeObject #define PyString_Type PyUnicode_Type #define PyString_Check PyUnicode_Check #define PyString_CheckExact PyUnicode_CheckExact #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) #else #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj)) #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) #endif #ifndef PySet_CheckExact #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) #endif #define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) #define __Pyx_PyException_Check(obj) __Pyx_TypeCheck(obj, PyExc_Exception) #if PY_MAJOR_VERSION >= 3 #define PyIntObject PyLongObject #define PyInt_Type PyLong_Type #define PyInt_Check(op) PyLong_Check(op) #define PyInt_CheckExact(op) PyLong_CheckExact(op) #define PyInt_FromString PyLong_FromString #define PyInt_FromUnicode PyLong_FromUnicode #define PyInt_FromLong PyLong_FromLong #define PyInt_FromSize_t PyLong_FromSize_t #define PyInt_FromSsize_t PyLong_FromSsize_t #define PyInt_AsLong PyLong_AsLong #define PyInt_AS_LONG PyLong_AS_LONG #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif #if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY #ifndef PyUnicode_InternFromString #define PyUnicode_InternFromString(s) PyUnicode_FromString(s) #endif #endif #if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong #else #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) #else #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) #endif #if CYTHON_USE_ASYNC_SLOTS #if PY_VERSION_HEX >= 0x030500B1 #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async) #else typedef struct { unaryfunc am_await; unaryfunc am_aiter; unaryfunc am_anext; } __Pyx_PyAsyncMethodsStruct; #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved)) #endif #else #define __Pyx_PyType_AsAsync(obj) NULL #endif #ifndef CYTHON_RESTRICT #if defined(__GNUC__) #define CYTHON_RESTRICT __restrict__ #elif defined(_MSC_VER) && _MSC_VER >= 1400 #define CYTHON_RESTRICT __restrict #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_RESTRICT restrict #else #define CYTHON_RESTRICT #endif #endif #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif # elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif #endif #ifndef CYTHON_MAYBE_UNUSED_VAR # if defined(__cplusplus) template void CYTHON_MAYBE_UNUSED_VAR( const T& ) { } # else # define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x) # endif #endif #ifndef CYTHON_NCP_UNUSED # if CYTHON_COMPILING_IN_CPYTHON # define CYTHON_NCP_UNUSED # else # define CYTHON_NCP_UNUSED CYTHON_UNUSED # endif #endif #define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None) #ifndef CYTHON_INLINE #if defined(__clang__) #define CYTHON_INLINE __inline__ __attribute__ ((__unused__)) #elif defined(__GNUC__) #define CYTHON_INLINE __inline__ #elif defined(_MSC_VER) #define CYTHON_INLINE __inline #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_INLINE inline #else #define CYTHON_INLINE #endif #endif #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__io__specfile #define __PYX_HAVE_API__silx__io__specfile #include #include #include #include "numpy/arrayobject.h" #include "numpy/ufuncobject.h" #include "SpecFileCython.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; static PyObject *__pyx_empty_unicode; static int __pyx_lineno; static int __pyx_clineno = 0; static const char * __pyx_cfilenm= __FILE__; static const char *__pyx_filename; /* Header.proto */ #if !defined(CYTHON_CCOMPLEX) #if defined(__cplusplus) #define CYTHON_CCOMPLEX 1 #elif defined(_Complex_I) #define CYTHON_CCOMPLEX 1 #else #define CYTHON_CCOMPLEX 0 #endif #endif #if CYTHON_CCOMPLEX #ifdef __cplusplus #include #else #include #endif #endif #if CYTHON_CCOMPLEX && !defined(__cplusplus) && defined(__sun__) && defined(__GNUC__) #undef _Complex_I #define _Complex_I 1.0fj #endif static const char *__pyx_f[] = { "silx/io/specfile.pyx", "__init__.pxd", "type.pxd", }; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t */ typedef npy_int8 __pyx_t_5numpy_int8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t */ typedef npy_int16 __pyx_t_5numpy_int16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":727 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< * ctypedef npy_int64 int64_t * #ctypedef npy_int96 int96_t */ typedef npy_int32 __pyx_t_5numpy_int32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":728 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< * #ctypedef npy_int96 int96_t * #ctypedef npy_int128 int128_t */ typedef npy_int64 __pyx_t_5numpy_int64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":734 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< * ctypedef npy_uint64 uint64_t * #ctypedef npy_uint96 uint96_t */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":735 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< * #ctypedef npy_uint96 uint96_t * #ctypedef npy_uint128 uint128_t */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":739 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< * ctypedef npy_float64 float64_t * #ctypedef npy_float80 float80_t */ typedef npy_float32 __pyx_t_5numpy_float32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":740 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< * #ctypedef npy_float80 float80_t * #ctypedef npy_float128 float128_t */ typedef npy_float64 __pyx_t_5numpy_float64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t */ typedef npy_long __pyx_t_5numpy_int_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":750 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< * ctypedef npy_longlong longlong_t * */ typedef npy_longlong __pyx_t_5numpy_long_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< * * ctypedef npy_ulong uint_t */ typedef npy_longlong __pyx_t_5numpy_longlong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t */ typedef npy_ulong __pyx_t_5numpy_uint_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":754 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulonglong_t * */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< * * ctypedef npy_intp intp_t */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":757 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< * ctypedef npy_uintp uintp_t * */ typedef npy_intp __pyx_t_5numpy_intp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< * * ctypedef npy_double float_t */ typedef npy_uintp __pyx_t_5numpy_uintp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t */ typedef npy_double __pyx_t_5numpy_float_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":761 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< * ctypedef npy_longdouble longdouble_t * */ typedef npy_double __pyx_t_5numpy_double_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cfloat cfloat_t */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; /* Declarations.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus typedef ::std::complex< float > __pyx_t_float_complex; #else typedef float _Complex __pyx_t_float_complex; #endif #else typedef struct { float real, imag; } __pyx_t_float_complex; #endif static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float, float); /* Declarations.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus typedef ::std::complex< double > __pyx_t_double_complex; #else typedef double _Complex __pyx_t_double_complex; #endif #else typedef struct { double real, imag; } __pyx_t_double_complex; #endif static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double, double); /*--- Type declarations ---*/ struct __pyx_obj_4silx_2io_8specfile_SpecFile; struct __pyx_obj_4silx_2io_8specfile___pyx_scope_struct____iter__; struct __pyx_obj_4silx_2io_8specfile___pyx_scope_struct_1___iter__; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":765 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< * ctypedef npy_clongdouble clongdouble_t * */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cdouble complex_t */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":768 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< * * cdef inline object PyArray_MultiIterNew1(a): */ typedef npy_cdouble __pyx_t_5numpy_complex_t; /* "specfile_wrapper.pxd":35 * pass * # Renaming struct because we have too many SpecFile items (files, classes) * ctypedef _SpecFile SpecFileHandle # <<<<<<<<<<<<<< * * cdef extern from "SpecFileCython.h": */ typedef struct _SpecFile __pyx_t_4silx_2io_16specfile_wrapper_SpecFileHandle; 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PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_SubtractObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_SubtractObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceSubtract(op1, op2) : PyNumber_Subtract(op1, op2)) #endif /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* RaiseException.proto */ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* StringJoin.proto */ #if PY_MAJOR_VERSION < 3 #define __Pyx_PyString_Join __Pyx_PyBytes_Join #define __Pyx_PyBaseString_Join(s, v) (PyUnicode_CheckExact(s) ? PyUnicode_Join(s, v) : __Pyx_PyBytes_Join(s, v)) #else #define __Pyx_PyString_Join PyUnicode_Join #define __Pyx_PyBaseString_Join PyUnicode_Join #endif #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION < 3 #define __Pyx_PyBytes_Join _PyString_Join #else #define __Pyx_PyBytes_Join _PyBytes_Join #endif #else static CYTHON_INLINE PyObject* __Pyx_PyBytes_Join(PyObject* sep, PyObject* values); #endif /* PyDictContains.proto */ static CYTHON_INLINE int __Pyx_PyDict_ContainsTF(PyObject* item, PyObject* dict, int eq) { int result = PyDict_Contains(dict, item); return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); } /* DictGetItem.proto */ #if PY_MAJOR_VERSION >= 3 && !CYTHON_COMPILING_IN_PYPY static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif /* decode_c_bytes.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_bytes( const char* cstring, Py_ssize_t length, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* decode_bytes.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_bytes( PyObject* string, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { return __Pyx_decode_c_bytes( PyBytes_AS_STRING(string), PyBytes_GET_SIZE(string), start, stop, encoding, errors, decode_func); } /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\ PyObject_RichCompare(op1, op2, Py_EQ) #endif /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SetItemInt.proto */ #define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) :\ __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, int wraparound, int boundscheck); /* IncludeStringH.proto */ #include /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /* CalculateMetaclass.proto */ static PyObject *__Pyx_CalculateMetaclass(PyTypeObject *metaclass, PyObject *bases); /* Py3ClassCreate.proto */ static PyObject *__Pyx_Py3MetaclassPrepare(PyObject *metaclass, PyObject *bases, PyObject *name, PyObject *qualname, PyObject *mkw, PyObject *modname, PyObject *doc); static PyObject *__Pyx_Py3ClassCreate(PyObject *metaclass, PyObject *name, PyObject *bases, PyObject *dict, PyObject *mkw, int calculate_metaclass, int allow_py2_metaclass); /* FetchCommonType.proto */ static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type); /* CythonFunction.proto */ #define __Pyx_CyFunction_USED 1 #include #define __Pyx_CYFUNCTION_STATICMETHOD 0x01 #define __Pyx_CYFUNCTION_CLASSMETHOD 0x02 #define __Pyx_CYFUNCTION_CCLASS 0x04 #define __Pyx_CyFunction_GetClosure(f)\ (((__pyx_CyFunctionObject *) (f))->func_closure) #define __Pyx_CyFunction_GetClassObj(f)\ (((__pyx_CyFunctionObject *) (f))->func_classobj) #define __Pyx_CyFunction_Defaults(type, f)\ ((type *)(((__pyx_CyFunctionObject *) (f))->defaults)) #define __Pyx_CyFunction_SetDefaultsGetter(f, g)\ ((__pyx_CyFunctionObject *) (f))->defaults_getter = (g) typedef struct { PyCFunctionObject func; #if PY_VERSION_HEX < 0x030500A0 PyObject *func_weakreflist; #endif PyObject *func_dict; PyObject *func_name; PyObject *func_qualname; PyObject *func_doc; PyObject *func_globals; PyObject *func_code; PyObject *func_closure; PyObject *func_classobj; void *defaults; int defaults_pyobjects; int flags; PyObject *defaults_tuple; PyObject *defaults_kwdict; PyObject *(*defaults_getter)(PyObject *); PyObject *func_annotations; } __pyx_CyFunctionObject; static PyTypeObject *__pyx_CyFunctionType = 0; #define __Pyx_CyFunction_NewEx(ml, flags, qualname, self, module, globals, code)\ __Pyx_CyFunction_New(__pyx_CyFunctionType, ml, flags, qualname, self, module, globals, code) static PyObject *__Pyx_CyFunction_New(PyTypeObject *, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject* code); static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *m, size_t size, int pyobjects); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *m, PyObject *tuple); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *m, PyObject *dict); static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *m, PyObject *dict); static int __pyx_CyFunction_init(void); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* RealImag.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus #define __Pyx_CREAL(z) ((z).real()) #define __Pyx_CIMAG(z) ((z).imag()) #else #define __Pyx_CREAL(z) (__real__(z)) #define __Pyx_CIMAG(z) (__imag__(z)) #endif #else #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif #if defined(__cplusplus) && CYTHON_CCOMPLEX\ && (defined(_WIN32) || defined(__clang__) || (defined(__GNUC__) && (__GNUC__ >= 5 || __GNUC__ == 4 && __GNUC_MINOR__ >= 4 )) || __cplusplus >= 201103) #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_float(a, b) ((a)==(b)) #define __Pyx_c_sum_float(a, b) ((a)+(b)) #define __Pyx_c_diff_float(a, b) ((a)-(b)) #define __Pyx_c_prod_float(a, b) ((a)*(b)) #define __Pyx_c_quot_float(a, b) ((a)/(b)) #define __Pyx_c_neg_float(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_float(z) ((z)==(float)0) #define __Pyx_c_conj_float(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_float(z) (::std::abs(z)) #define __Pyx_c_pow_float(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_float(z) ((z)==0) #define __Pyx_c_conj_float(z) (conjf(z)) #if 1 #define __Pyx_c_abs_float(z) (cabsf(z)) #define __Pyx_c_pow_float(a, b) (cpowf(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex); static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex); #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex, __pyx_t_float_complex); #endif #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_double(a, b) ((a)==(b)) #define __Pyx_c_sum_double(a, b) ((a)+(b)) #define __Pyx_c_diff_double(a, b) ((a)-(b)) #define __Pyx_c_prod_double(a, b) ((a)*(b)) #define __Pyx_c_quot_double(a, b) ((a)/(b)) #define __Pyx_c_neg_double(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_double(z) ((z)==(double)0) #define __Pyx_c_conj_double(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_double(z) (::std::abs(z)) #define __Pyx_c_pow_double(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_double(z) ((z)==0) #define __Pyx_c_conj_double(z) (conj(z)) #if 1 #define __Pyx_c_abs_double(z) (cabs(z)) #define __Pyx_c_pow_double(a, b) (cpow(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex); static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex); #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex, __pyx_t_double_complex); #endif #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* CoroutineBase.proto */ typedef PyObject *(*__pyx_coroutine_body_t)(PyObject *, PyObject *); typedef struct { PyObject_HEAD __pyx_coroutine_body_t body; PyObject *closure; PyObject *exc_type; PyObject *exc_value; PyObject *exc_traceback; PyObject *gi_weakreflist; PyObject *classobj; PyObject *yieldfrom; PyObject *gi_name; PyObject *gi_qualname; PyObject *gi_modulename; int resume_label; char is_running; } __pyx_CoroutineObject; static __pyx_CoroutineObject *__Pyx__Coroutine_New( PyTypeObject *type, __pyx_coroutine_body_t body, PyObject *closure, PyObject *name, PyObject *qualname, PyObject *module_name); static int __Pyx_Coroutine_clear(PyObject *self); #if 1 || PY_VERSION_HEX < 0x030300B0 static int __Pyx_PyGen_FetchStopIterationValue(PyObject **pvalue); #else #define __Pyx_PyGen_FetchStopIterationValue(pvalue) PyGen_FetchStopIterationValue(pvalue) #endif /* PatchModuleWithCoroutine.proto */ static PyObject* __Pyx_Coroutine_patch_module(PyObject* module, const char* py_code); /* PatchGeneratorABC.proto */ static int __Pyx_patch_abc(void); /* Generator.proto */ #define __Pyx_Generator_USED static PyTypeObject *__pyx_GeneratorType = 0; #define __Pyx_Generator_CheckExact(obj) (Py_TYPE(obj) == __pyx_GeneratorType) #define __Pyx_Generator_New(body, closure, name, qualname, module_name)\ __Pyx__Coroutine_New(__pyx_GeneratorType, body, closure, name, qualname, module_name) static PyObject *__Pyx_Generator_Next(PyObject *self); static int __pyx_Generator_init(void); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* PyIdentifierFromString.proto */ #if !defined(__Pyx_PyIdentifier_FromString) #if PY_MAJOR_VERSION < 3 #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) #else #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) #endif #endif /* ModuleImport.proto */ static PyObject *__Pyx_ImportModule(const char *name); /* TypeImport.proto */ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /* Module declarations from 'cpython.buffer' */ /* Module declarations from 'libc.string' */ /* Module declarations from 'libc.stdio' */ /* Module declarations from '__builtin__' */ /* Module declarations from 'cpython.type' */ static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; /* Module declarations from 'cpython' */ /* Module declarations from 'cpython.object' */ /* Module declarations from 'cpython.ref' */ /* Module declarations from 'libc.stdlib' */ /* Module declarations from 'numpy' */ /* Module declarations from 'numpy' */ static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ static CYTHON_INLINE int __pyx_f_5numpy_import_array(void); /*proto*/ /* Module declarations from 'cython' */ /* Module declarations from 'silx.io.specfile_wrapper' */ /* Module declarations from 'silx.io.specfile' */ static PyTypeObject *__pyx_ptype_4silx_2io_8specfile_SpecFile = 0; static PyTypeObject *__pyx_ptype_4silx_2io_8specfile___pyx_scope_struct____iter__ = 0; static PyTypeObject *__pyx_ptype_4silx_2io_8specfile___pyx_scope_struct_1___iter__ = 0; #define __Pyx_MODULE_NAME "silx.io.specfile" int __pyx_module_is_main_silx__io__specfile = 0; /* Implementation of 'silx.io.specfile' */ static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_IOError; static PyObject *__pyx_builtin_KeyError; static PyObject *__pyx_builtin_IndexError; static PyObject *__pyx_builtin_object; static PyObject *__pyx_builtin_property; static PyObject *__pyx_builtin_map; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_open; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_AttributeError; static PyObject *__pyx_builtin_RuntimeError; static PyObject *__pyx_builtin_ImportError; static const char __pyx_k_[] = "\n"; static const char __pyx_k_2[] = " {2,}"; static const char __pyx_k_3[] = "3"; static const char __pyx_k_F[] = "#F "; static const char __pyx_k_L[] = "L"; static const char __pyx_k_S[] = "#S "; static const char __pyx_k_f[] = "f"; static const char __pyx_k_i[] = "i"; static const char __pyx_k_w[] = "#(\\w+) *(.*)"; static const char __pyx_k__7[] = "#"; static const char __pyx_k_os[] = "os"; static const char __pyx_k_re[] = "re"; static const char __pyx_k_MCA[] = "MCA"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k__14[] = " "; static const char __pyx_k__25[] = "."; static const char __pyx_k__27[] = "', '"; static const char __pyx_k__28[] = "'"; static const char __pyx_k_d_d[] = "%d.%d"; static const char __pyx_k_doc[] = "__doc__"; static const char __pyx_k_key[] = "key"; static const char __pyx_k_len[] = "__len__"; static const char __pyx_k_map[] = "map"; static const char __pyx_k_mca[] = "_mca"; static const char __pyx_k_msg[] = "msg"; static const char __pyx_k_ret[] = "ret"; static const char __pyx_k_sub[] = "sub"; static const char __pyx_k_sys[] = "sys"; static const char __pyx_k_w_2[] = "#@(\\w+) *(.*)"; static const char __pyx_k_Scan[] = "Scan"; static const char __pyx_k_args[] = "args"; static const char __pyx_k_data[] = "_data"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_hkey[] = "hkey"; static const char __pyx_k_init[] = "__init__"; static const char __pyx_k_iter[] = "__iter__"; static const char __pyx_k_join[] = "join"; static const char __pyx_k_keys[] = "keys"; static const char __pyx_k_line[] = "line"; static const char __pyx_k_list[] = "_list"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_open[] = "open"; static const char __pyx_k_path[] = "path"; static const char __pyx_k_scan[] = "scan"; static const char __pyx_k_self[] = "self"; static const char __pyx_k_send[] = "send"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_CALIB[] = "CALIB"; static const char __pyx_k_CHANN[] = "CHANN"; static const char __pyx_k_ascii[] = "ascii"; static const char __pyx_k_close[] = "close"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_empty[] = "empty"; static const char __pyx_k_group[] = "group"; static const char __pyx_k_index[] = "index"; static const char __pyx_k_label[] = "label"; static const char __pyx_k_match[] = "match"; static const char __pyx_k_mca_2[] = "mca"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_order[] = "order"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_split[] = "split"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_strip[] = "strip"; static const char __pyx_k_throw[] = "throw"; static const char __pyx_k_value[] = "value"; static const char __pyx_k_ERRORS[] = "ERRORS"; static const char __pyx_k_append[] = "append"; static const char __pyx_k_data_2[] = "data"; static const char __pyx_k_decode[] = "decode"; static const char __pyx_k_double[] = "double"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_header[] = "_header"; static const char __pyx_k_hvalue[] = "hvalue"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_isfile[] = "isfile"; static const char __pyx_k_labels[] = "_labels"; static const char __pyx_k_length[] = "length"; static const char __pyx_k_logger[] = "_logger"; static const char __pyx_k_lstrip[] = "lstrip"; static const char __pyx_k_module[] = "__module__"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_number[] = "number"; static const char __pyx_k_object[] = "object"; static const char __pyx_k_record[] = "record"; static const char __pyx_k_scan_2[] = "_scan"; static const char __pyx_k_search[] = "search"; static const char __pyx_k_string[] = "string_"; static const char __pyx_k_IOError[] = "IOError"; static const char __pyx_k_SfError[] = "SfError"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_get_mca[] = "get_mca"; static const char __pyx_k_getitem[] = "__getitem__"; static const char __pyx_k_index_2[] = "_index"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_logging[] = "logging"; static const char __pyx_k_order_2[] = "_order"; static const char __pyx_k_os_path[] = "os.path"; static const char __pyx_k_prepare[] = "__prepare__"; static const char __pyx_k_version[] = "version"; static const char __pyx_k_warning[] = "warning"; static const char __pyx_k_KeyError[] = "KeyError"; static const char __pyx_k_L_header[] = "L_header"; static const char __pyx_k_P_Knobel[] = "P. Knobel"; static const char __pyx_k_Scan_mca[] = "Scan.mca"; static const char __pyx_k_channels[] = "channels"; static const char __pyx_k_filename[] = "filename"; static const char __pyx_k_header_2[] = "header"; static const char __pyx_k_labels_2[] = "labels"; static const char __pyx_k_number_2[] = "_number"; static const char __pyx_k_property[] = "property"; static const char __pyx_k_qualname[] = "__qualname__"; static const char __pyx_k_specfile[] = "_specfile"; static const char __pyx_k_MCA___len[] = "MCA.__len__"; static const char __pyx_k_Scan_data[] = "Scan.data"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_data_line[] = "data_line"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_getLogger[] = "getLogger"; static const char __pyx_k_increment[] = "increment"; static const char __pyx_k_match_mca[] = "match_mca"; static const char __pyx_k_mca_index[] = "mca_index"; static const char __pyx_k_metaclass[] = "__metaclass__"; static const char __pyx_k_transpose[] = "transpose"; static const char __pyx_k_11_08_2017[] = "11/08/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_MCA___init[] = "MCA.__init__"; static const char __pyx_k_MCA___iter[] = "MCA.__iter__"; static const char __pyx_k_Scan_index[] = "Scan.index"; static const char __pyx_k_Scan_order[] = "Scan.order"; static const char __pyx_k_Valid_keys[] = "\nValid keys: '"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_calib_line[] = "calib_line"; static const char __pyx_k_chann_line[] = "chann_line"; static const char __pyx_k_dictionary[] = "dictionary"; static const char __pyx_k_line_index[] = "line_index"; static const char __pyx_k_scan_index[] = "scan_index"; static const char __pyx_k_scan_order[] = "scan_order"; static const char __pyx_k_specfile_2[] = "specfile"; static const char __pyx_k_startswith[] = "startswith"; static const char __pyx_k_ImportError[] = "ImportError"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_Scan___init[] = "Scan.__init__"; static const char __pyx_k_Scan_header[] = "Scan.header"; static const char __pyx_k_Scan_labels[] = "Scan.labels"; static const char __pyx_k_Scan_number[] = "Scan.number"; static const char __pyx_k_calib_lines[] = "calib_lines"; static const char __pyx_k_calibration[] = "calibration"; static const char __pyx_k_chann_lines[] = "chann_lines"; static const char __pyx_k_file_header[] = "file_header"; static const char __pyx_k_is_specfile[] = "is_specfile"; static const char __pyx_k_motor_names[] = "motor_names"; static const char __pyx_k_scan_header[] = "scan_header"; static const char __pyx_k_scan_number[] = "scan_number"; static const char __pyx_k_RuntimeError[] = "RuntimeError"; static const char __pyx_k_SfNoMcaError[] = "SfNoMcaError"; static const char __pyx_k_handle_error[] = "_handle_error"; static const char __pyx_k_version_info[] = "version_info"; static const char __pyx_k_MCA___getitem[] = "MCA.__getitem__"; static const char __pyx_k_SfErrFileOpen[] = "SfErrFileOpen"; static const char __pyx_k_SfErrFileRead[] = "SfErrFileRead"; static const char __pyx_k_motor_names_2[] = "_motor_names"; static const char __pyx_k_number_of_mca[] = "number_of_mca"; static const char __pyx_k_AttributeError[] = "AttributeError"; static const char __pyx_k_Scan_data_line[] = "Scan.data_line"; static const char __pyx_k_SfErrFileClose[] = "SfErrFileClose"; static const char __pyx_k_SfErrFileWrite[] = "SfErrFileWrite"; static const char __pyx_k_SfErrLineEmpty[] = "SfErrLineEmpty"; static const char __pyx_k_parse_channels[] = "_parse_channels"; static const char __pyx_k_SpecFile___iter[] = "SpecFile.__iter__"; static const char __pyx_k_mca_header_dict[] = "mca_header_dict"; static const char __pyx_k_motor_positions[] = "motor_positions"; static const char __pyx_k_SF_ERR_FILE_OPEN[] = "SF_ERR_FILE_OPEN"; static const char __pyx_k_SF_ERR_NO_ERRORS[] = "SF_ERR_NO_ERRORS"; static const char __pyx_k_Scan_file_header[] = "Scan.file_header"; static const char __pyx_k_Scan_motor_names[] = "Scan.motor_names"; static const char __pyx_k_Scan_scan_header[] = "Scan.scan_header"; static const char __pyx_k_SfErrColNotFound[] = "SfErrColNotFound"; static const char __pyx_k_SfErrMcaNotFound[] = "SfErrMcaNotFound"; static const char __pyx_k_SfErrMemoryAlloc[] = "SfErrMemoryAlloc"; static const char __pyx_k_all_calib_values[] = "all_calib_values"; static const char __pyx_k_all_chann_values[] = "all_chann_values"; static const char __pyx_k_file_header_dict[] = "_file_header_dict"; static const char __pyx_k_get_error_string[] = "_get_error_string"; static const char __pyx_k_scan_header_dict[] = "_scan_header_dict"; static const char __pyx_k_silx_io_specfile[] = "silx.io.specfile"; static const char __pyx_k_SfErrLineNotFound[] = "SfErrLineNotFound"; static const char __pyx_k_SfErrScanNotFound[] = "SfErrScanNotFound"; static const char __pyx_k_SfErrUserNotFound[] = "SfErrUserNotFound"; static const char __pyx_k_file_header_lines[] = "_file_header_lines"; static const char __pyx_k_mca_header_dict_2[] = "_mca_header_dict"; static const char __pyx_k_motor_positions_2[] = "_motor_positions"; static const char __pyx_k_parse_calibration[] = "_parse_calibration"; static const char __pyx_k_scan_header_lines[] = "_scan_header_lines"; static const char __pyx_k_SfErrLabelNotFound[] = "SfErrLabelNotFound"; static const char __pyx_k_SfErrMotorNotFound[] = "SfErrMotorNotFound"; static const char __pyx_k_SfNoMca_returned_1[] = "(SfNoMca returned -1)"; static const char __pyx_k_add_or_concatenate[] = "_add_or_concatenate"; static const char __pyx_k_file_header_dict_2[] = "file_header_dict"; static const char __pyx_k_scan_header_dict_2[] = "scan_header_dict"; static const char __pyx_k_MCA__parse_channels[] = "MCA._parse_channels"; static const char __pyx_k_SfErrHeaderNotFound[] = "SfErrHeaderNotFound"; static const char __pyx_k_data_column_by_name[] = "data_column_by_name"; static const char __pyx_k_string_to_char_star[] = "_string_to_char_star"; static const char __pyx_k_Scan_mca_header_dict[] = "Scan.mca_header_dict"; static const char __pyx_k_Scan_motor_positions[] = "Scan.motor_positions"; static const char __pyx_k_record_exists_in_hdr[] = "record_exists_in_hdr"; static const char __pyx_k_SF_ERR_SCAN_NOT_FOUND[] = "SF_ERR_SCAN_NOT_FOUND"; static const char __pyx_k_Scan_file_header_dict[] = "Scan.file_header_dict"; static const char __pyx_k_Scan_scan_header_dict[] = "Scan.scan_header_dict"; static const char __pyx_k_SfErrPositionNotFound[] = "SfErrPositionNotFound"; static const char __pyx_k_one_line_calib_values[] = "one_line_calib_values"; static const char __pyx_k_one_line_chann_values[] = "one_line_chann_values"; static const char __pyx_k_MCA__parse_calibration[] = "MCA._parse_calibration"; static const char __pyx_k_motor_position_by_name[] = "motor_position_by_name"; static const char __pyx_k_Scan_data_column_by_name[] = "Scan.data_column_by_name"; static const char __pyx_k_Scan_record_exists_in_hdr[] = "Scan.record_exists_in_hdr"; static const char __pyx_k_Scan_motor_position_by_name[] = "Scan.motor_position_by_name"; static const char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static const char __pyx_k_Error_while_closing_SpecFile[] = "Error while closing SpecFile"; static const char __pyx_k_number_and_M_the_order_eg_2_3[] = " number and M the order (eg '2.3')."; static const char __pyx_k_MCA_index_must_be_in_range_0_d[] = "MCA index must be in range 0-%d"; static const char __pyx_k_param_specfile_Parent_SpecFile[] = "\n\n :param specfile: Parent SpecFile from which this scan is extracted.\n :type specfile: :class:`SpecFile`\n :param scan_index: Unique index defining the scan in the SpecFile\n :type scan_index: int\n\n Interface to access a SpecFile scan\n\n A scan is a block of descriptive header lines followed by a 2D data array.\n\n Following three ways of accessing a scan are equivalent::\n\n sf = SpecFile(\"/path/to/specfile.dat\")\n\n # Explicit class instantiation\n scan2 = Scan(sf, scan_index=2)\n\n # 0-based index on a SpecFile object\n scan2 = sf[2]\n\n # Using a \"n.m\" key (scan number starting with 1, scan order)\n scan2 = sf[\"3.1\"]\n "; static const char __pyx_k_Base_exception_inherited_by_all[] = "Base exception inherited by all exceptions raised when a\n C function from the legacy SpecFile library returns an error\n code.\n "; static const char __pyx_k_Scan_index_must_be_in_range_0_d[] = "Scan index must be in range 0-%d"; static const char __pyx_k_The_scan_identification_key_can[] = "The scan identification key can be an integer representing "; static const char __pyx_k_This_module_is_a_cython_binding[] = "\nThis module is a cython binding to wrap the C SpecFile library, to access\nSpecFile data within a python program.\n\nDocumentation for the original C library SpecFile can be found on the ESRF\nwebsite:\n`The manual for the SpecFile Library `_\n\nExamples\n========\n\nStart by importing :class:`SpecFile` and instantiate it:\n\n.. code-block:: python\n\n from silx.io.specfile import SpecFile\n\n sf = SpecFile(\"test.dat\")\n\nA :class:`SpecFile` instance can be accessed like a dictionary to obtain a\n:class:`Scan` instance.\n\nIf the key is a string representing two values\nseparated by a dot (e.g. ``\"1.2\"``), they will be treated as the scan number\n(``#S`` header line) and the scan order::\n\n # get second occurrence of scan \"#S 1\"\n myscan = sf[\"1.2\"]\n\n # access scan data as a numpy array\n nlines, ncolumns = myscan.data.shape\n\nIf the key is an integer, it will be treated as a 0-based index::\n\n first_scan = sf[0]\n second_scan = sf[1]\n\nIt is also possible to browse through all scans using :class:`SpecFile` as\nan iterator::\n\n for scan in sf:\n print(scan.scan_header_dict['S'])\n\nMCA spectra can be selectively loaded using an instance of :class:`MCA`\nprovided by :class:`Scan`::\n\n # Only one MCA spectrum is loaded in memory\n second_mca = first_scan.mca[1]\n\n # Iterating trough all MCA spectra in a scan:\n for mca_data in first_scan.mca:\n print(sum(mca_data))\n\nClasses\n=======\n\n- :class:`SpecFile`\n- :class:`Scan`\n- :class:`MCA`\n\nExceptions\n==========\n\n- :class:`SfError`\n- :class:`SfErrMemoryAlloc`\n- :class:`SfErrFileOpen`\n- :class:`SfErrFileClose`\n- :class:`SfErrFileRead`\n- :class:`SfErrFileWrite`\n- :class:`SfErrLineNotFound`\n- :class:`SfErrScanNotFound`\n- :class:`SfErrHeaderNotFound`\n- :class:`SfErrLabelNotFound`\n- :class:`SfErrMotorNotFound`""\n- :class:`SfErrPositionNotFound`\n- :class:`SfErrLineEmpty`\n- :class:`SfErrUserNotFound`\n- :class:`SfErrColNotFound`\n- :class:`SfErrMcaNotFound`\n\n"; static const char __pyx_k_numpy_core_multiarray_failed_to[] = "numpy.core.multiarray failed to import"; static const char __pyx_k_param_scan_Parent_Scan_instance[] = "\n\n :param scan: Parent Scan instance\n :type scan: :class:`Scan`\n\n :var calibration: MCA calibration :math:`(a, b, c)` (as in\n :math:`a + b x + c x\302\262`) from ``#@CALIB`` scan header.\n :type calibration: list of 3 floats, default ``[0., 1., 0.]``\n :var channels: MCA channels list from ``#@CHANN`` scan header.\n In the absence of a ``#@CHANN`` header, this attribute is a list\n ``[0, \342\200\246, N-1]`` where ``N`` is the length of the first spectrum.\n In the absence of MCA spectra, this attribute defaults to ``None``.\n :type channels: list of int\n\n This class provides access to Multi-Channel Analysis data. A :class:`MCA`\n instance can be indexed to access 1D numpy arrays representing single\n MCA\302\240spectra.\n\n To create a :class:`MCA` instance, you must provide a parent :class:`Scan`\n instance, which in turn will provide a reference to the original\n :class:`SpecFile` instance::\n\n sf = SpecFile(\"/path/to/specfile.dat\")\n scan2 = Scan(sf, scan_index=2)\n mcas_in_scan2 = MCA(scan2)\n for i in len(mcas_in_scan2):\n mca_data = mcas_in_scan2[i]\n ... # do some something with mca_data (1D numpy array)\n\n A more pythonic way to do the same work, without having to explicitly\n instantiate ``scan`` and ``mcas_in_scan``, would be::\n\n sf = SpecFile(\"specfilename.dat\")\n # scan2 from previous example can be referred to as sf[2]\n # mcas_in_scan2 from previous example can be referred to as scan2.mca\n for mca_data in sf[2].mca:\n ... # do some something with mca_data (1D numpy array)\n\n "; static const char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/io/specfile.pyx"; static const char __pyx_k_Cannot_get_data_column_s_in_scan[] = "Cannot get data column %s in scan %d.%d"; static const char __pyx_k_Custom_exception_raised_when_SfN[] = "Custom exception raised when ``SfNoMca()`` returns ``-1``\n "; static const char __pyx_k_Failed_to_retrieve_number_of_MCA[] = "Failed to retrieve number of MCA "; static const char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static const char __pyx_k_MCA_calibration_line_CALIB_not_f[] = "MCA calibration line (@CALIB) not found"; static const char __pyx_k_MCA_index_should_be_an_integer_s[] = "MCA index should be an integer (%s provided)"; static const char __pyx_k_No_MCA_spectrum_found_in_this_sc[] = "No MCA spectrum found in this scan"; static const char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; static const char __pyx_k_Parameter_value_must_be_a_string[] = "Parameter value must be a string."; static const char __pyx_k_Unable_to_parse_file_header_line[] = "Unable to parse file header line "; static const char __pyx_k_Unable_to_parse_scan_header_line[] = "Unable to parse scan header line "; static const char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; static const char __pyx_k_numpy_core_umath_failed_to_impor[] = "numpy.core.umath failed to import"; static const char __pyx_k_the_unique_scan_index_or_a_strin[] = "the unique scan index or a string 'N.M' with N being the scan"; static const char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; static PyObject *__pyx_kp_s_; static PyObject *__pyx_kp_s_11_08_2017; static PyObject *__pyx_kp_s_2; static PyObject *__pyx_kp_s_3; static PyObject *__pyx_n_s_AttributeError; static PyObject *__pyx_kp_s_Base_exception_inherited_by_all; static PyObject *__pyx_n_s_CALIB; static PyObject *__pyx_n_s_CHANN; static PyObject *__pyx_kp_s_Cannot_get_data_column_s_in_scan; static PyObject *__pyx_kp_s_Custom_exception_raised_when_SfN; static PyObject *__pyx_n_s_ERRORS; static PyObject *__pyx_kp_s_Error_while_closing_SpecFile; static PyObject *__pyx_kp_s_F; static PyObject *__pyx_kp_s_Failed_to_retrieve_number_of_MCA; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; static PyObject *__pyx_n_s_IOError; static PyObject *__pyx_n_s_ImportError; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_n_s_KeyError; static PyObject *__pyx_n_s_L; static PyObject *__pyx_n_s_L_header; static PyObject *__pyx_n_s_MCA; static PyObject *__pyx_n_s_MCA___getitem; static PyObject *__pyx_n_s_MCA___init; static PyObject *__pyx_n_s_MCA___iter; static PyObject *__pyx_n_s_MCA___len; static PyObject *__pyx_n_s_MCA__parse_calibration; static PyObject *__pyx_n_s_MCA__parse_channels; static PyObject *__pyx_kp_s_MCA_calibration_line_CALIB_not_f; static PyObject *__pyx_kp_s_MCA_index_must_be_in_range_0_d; static PyObject *__pyx_kp_s_MCA_index_should_be_an_integer_s; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_No_MCA_spectrum_found_in_this_sc; static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; static PyObject *__pyx_kp_s_P_Knobel; static PyObject *__pyx_kp_s_Parameter_value_must_be_a_string; static PyObject *__pyx_n_s_RuntimeError; static PyObject *__pyx_kp_s_S; static PyObject *__pyx_n_s_SF_ERR_FILE_OPEN; static PyObject *__pyx_n_s_SF_ERR_NO_ERRORS; static PyObject *__pyx_n_s_SF_ERR_SCAN_NOT_FOUND; static PyObject *__pyx_n_s_Scan; static PyObject *__pyx_n_s_Scan___init; static PyObject *__pyx_n_s_Scan_data; static PyObject *__pyx_n_s_Scan_data_column_by_name; static PyObject *__pyx_n_s_Scan_data_line; static PyObject *__pyx_n_s_Scan_file_header; static PyObject *__pyx_n_s_Scan_file_header_dict; static PyObject *__pyx_n_s_Scan_header; static PyObject *__pyx_n_s_Scan_index; static PyObject *__pyx_kp_s_Scan_index_must_be_in_range_0_d; static PyObject *__pyx_n_s_Scan_labels; static PyObject *__pyx_n_s_Scan_mca; static PyObject *__pyx_n_s_Scan_mca_header_dict; static PyObject *__pyx_n_s_Scan_motor_names; static PyObject *__pyx_n_s_Scan_motor_position_by_name; static PyObject *__pyx_n_s_Scan_motor_positions; static PyObject *__pyx_n_s_Scan_number; static PyObject *__pyx_n_s_Scan_order; static PyObject *__pyx_n_s_Scan_record_exists_in_hdr; static PyObject *__pyx_n_s_Scan_scan_header; static PyObject *__pyx_n_s_Scan_scan_header_dict; static PyObject *__pyx_n_s_SfErrColNotFound; static PyObject *__pyx_n_s_SfErrFileClose; static PyObject *__pyx_n_s_SfErrFileOpen; static PyObject *__pyx_n_s_SfErrFileRead; static PyObject *__pyx_n_s_SfErrFileWrite; static PyObject *__pyx_n_s_SfErrHeaderNotFound; static PyObject *__pyx_n_s_SfErrLabelNotFound; static PyObject *__pyx_n_s_SfErrLineEmpty; static PyObject *__pyx_n_s_SfErrLineNotFound; static PyObject *__pyx_n_s_SfErrMcaNotFound; static PyObject *__pyx_n_s_SfErrMemoryAlloc; static PyObject *__pyx_n_s_SfErrMotorNotFound; static PyObject *__pyx_n_s_SfErrPositionNotFound; static PyObject *__pyx_n_s_SfErrScanNotFound; static PyObject *__pyx_n_s_SfErrUserNotFound; static PyObject *__pyx_n_s_SfError; static PyObject *__pyx_n_s_SfNoMcaError; static PyObject *__pyx_kp_s_SfNoMca_returned_1; static PyObject *__pyx_n_s_SpecFile___iter; static PyObject *__pyx_kp_s_The_scan_identification_key_can; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_parse_file_header_line; static PyObject *__pyx_kp_s_Unable_to_parse_scan_header_line; static PyObject *__pyx_kp_s_Valid_keys; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_kp_s__14; static PyObject *__pyx_kp_s__25; static PyObject *__pyx_kp_s__27; static PyObject *__pyx_kp_s__28; static PyObject *__pyx_kp_s__7; static PyObject *__pyx_n_s_add_or_concatenate; static PyObject *__pyx_n_s_all_calib_values; static PyObject *__pyx_n_s_all_chann_values; static PyObject *__pyx_n_s_append; static PyObject *__pyx_n_s_args; static PyObject *__pyx_n_s_ascii; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_calib_line; static PyObject *__pyx_n_s_calib_lines; static PyObject *__pyx_n_s_calibration; static PyObject *__pyx_n_s_chann_line; static PyObject *__pyx_n_s_chann_lines; static PyObject *__pyx_n_s_channels; static PyObject *__pyx_n_s_close; static PyObject *__pyx_kp_u_d_d; static PyObject *__pyx_n_s_data; static PyObject *__pyx_n_s_data_2; static PyObject *__pyx_n_s_data_column_by_name; static PyObject *__pyx_n_s_data_line; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_decode; static PyObject *__pyx_n_s_dictionary; static PyObject *__pyx_n_s_doc; static PyObject *__pyx_n_s_double; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_empty; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_f; static PyObject *__pyx_n_s_file_header; static PyObject *__pyx_n_s_file_header_dict; static PyObject *__pyx_n_s_file_header_dict_2; static PyObject *__pyx_n_s_file_header_lines; static PyObject *__pyx_n_s_filename; static PyObject *__pyx_n_s_getLogger; static PyObject *__pyx_n_s_get_error_string; static PyObject *__pyx_n_s_get_mca; static PyObject *__pyx_n_s_getitem; static PyObject *__pyx_n_s_group; static PyObject *__pyx_n_s_handle_error; static PyObject *__pyx_n_s_header; static PyObject *__pyx_n_s_header_2; static PyObject *__pyx_n_s_hkey; static PyObject *__pyx_n_s_hvalue; static PyObject *__pyx_n_s_i; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_increment; static PyObject *__pyx_n_s_index; static PyObject *__pyx_n_s_index_2; static PyObject *__pyx_n_s_init; static PyObject *__pyx_n_s_is_specfile; static PyObject *__pyx_n_s_isfile; static PyObject *__pyx_n_s_iter; static PyObject *__pyx_n_s_join; static PyObject *__pyx_n_s_key; static PyObject *__pyx_n_s_keys; static PyObject *__pyx_n_s_label; static PyObject *__pyx_n_s_labels; static PyObject *__pyx_n_s_labels_2; static PyObject *__pyx_n_s_len; static PyObject *__pyx_n_s_length; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_line; static PyObject *__pyx_n_s_line_index; static PyObject *__pyx_n_s_list; static PyObject *__pyx_n_s_logger; static PyObject *__pyx_n_s_logging; static PyObject *__pyx_n_s_lstrip; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_map; static PyObject *__pyx_n_s_match; static PyObject *__pyx_n_s_match_mca; static PyObject *__pyx_n_s_mca; static PyObject *__pyx_n_s_mca_2; static PyObject *__pyx_n_s_mca_header_dict; static PyObject *__pyx_n_s_mca_header_dict_2; static PyObject *__pyx_n_s_mca_index; static PyObject *__pyx_n_s_metaclass; static PyObject *__pyx_n_s_module; static PyObject *__pyx_n_s_motor_names; static PyObject *__pyx_n_s_motor_names_2; static PyObject *__pyx_n_s_motor_position_by_name; static PyObject *__pyx_n_s_motor_positions; static PyObject *__pyx_n_s_motor_positions_2; static PyObject *__pyx_n_s_msg; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; static PyObject *__pyx_n_s_number; static PyObject *__pyx_n_s_number_2; static PyObject *__pyx_kp_s_number_and_M_the_order_eg_2_3; static PyObject *__pyx_n_s_number_of_mca; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_kp_s_numpy_core_multiarray_failed_to; static PyObject *__pyx_kp_s_numpy_core_umath_failed_to_impor; static PyObject *__pyx_n_s_object; static PyObject *__pyx_n_s_one_line_calib_values; static PyObject *__pyx_n_s_one_line_chann_values; static PyObject *__pyx_n_s_open; static PyObject *__pyx_n_s_order; static PyObject *__pyx_n_s_order_2; static PyObject *__pyx_n_s_os; static PyObject *__pyx_n_s_os_path; static PyObject *__pyx_kp_s_param_scan_Parent_Scan_instance; static PyObject *__pyx_kp_s_param_specfile_Parent_SpecFile; static PyObject *__pyx_n_s_parse_calibration; static PyObject *__pyx_n_s_parse_channels; static PyObject *__pyx_n_s_path; static PyObject *__pyx_n_s_prepare; static PyObject *__pyx_n_s_property; static PyObject *__pyx_n_s_qualname; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_re; static PyObject *__pyx_n_s_record; static PyObject *__pyx_n_s_record_exists_in_hdr; static PyObject *__pyx_n_s_ret; static PyObject *__pyx_n_s_scan; static PyObject *__pyx_n_s_scan_2; static PyObject *__pyx_n_s_scan_header; static PyObject *__pyx_n_s_scan_header_dict; static PyObject *__pyx_n_s_scan_header_dict_2; static PyObject *__pyx_n_s_scan_header_lines; static PyObject *__pyx_n_s_scan_index; static PyObject *__pyx_n_s_scan_number; static PyObject *__pyx_n_s_scan_order; static PyObject *__pyx_n_s_search; static PyObject *__pyx_n_s_self; static PyObject *__pyx_n_s_send; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_silx_io_specfile; static PyObject *__pyx_n_s_specfile; static PyObject *__pyx_n_s_specfile_2; static PyObject *__pyx_n_s_split; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_startswith; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_n_s_string; static PyObject *__pyx_n_s_string_to_char_star; static PyObject *__pyx_n_s_strip; static PyObject *__pyx_n_s_sub; static PyObject *__pyx_n_s_sys; static PyObject *__pyx_n_s_test; static PyObject *__pyx_kp_s_the_unique_scan_index_or_a_strin; static PyObject *__pyx_n_s_throw; static PyObject *__pyx_n_s_transpose; static PyObject *__pyx_kp_u_unknown_dtype_code_in_numpy_pxd; static PyObject *__pyx_kp_s_users_kieffer_workspace_400_rel; static PyObject *__pyx_n_s_value; static PyObject *__pyx_n_s_version; static PyObject *__pyx_n_s_version_info; static PyObject *__pyx_kp_s_w; static PyObject *__pyx_kp_s_w_2; static PyObject *__pyx_n_s_warning; static PyObject *__pyx_pf_4silx_2io_8specfile_3MCA___init__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_scan); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_3MCA_2_parse_channels(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_3MCA_4_parse_calibration(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_3MCA_6__len__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_3MCA_8__getitem__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_3MCA_10__iter__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile__add_or_concatenate(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_dictionary, PyObject *__pyx_v_key, PyObject *__pyx_v_value); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan___init__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_specfile, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_2index(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_4number(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_6order(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_8header(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_10scan_header(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_12file_header(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_14scan_header_dict(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_16mca_header_dict(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_18file_header_dict(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_20labels(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_22data(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_24mca(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_26motor_names(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_28motor_positions(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_30record_exists_in_hdr(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_record); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_32data_line(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_line_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_34data_column_by_name(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_label); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4Scan_36motor_position_by_name(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_2_string_to_char_star(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_string_); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_4is_specfile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_filename); /* proto */ static int __pyx_pf_4silx_2io_8specfile_8SpecFile___cinit__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_filename); /* proto */ static int __pyx_pf_4silx_2io_8specfile_8SpecFile_2__init__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_filename); /* proto */ static void __pyx_pf_4silx_2io_8specfile_8SpecFile_4__dealloc__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self); /* proto */ static Py_ssize_t __pyx_pf_4silx_2io_8specfile_8SpecFile_6__len__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_8__iter__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_11__getitem__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_13keys(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self); /* proto */ static int __pyx_pf_4silx_2io_8specfile_8SpecFile_15__contains__(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_17_get_error_string(CYTHON_UNUSED struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_error_code); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_19_handle_error(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_error_code); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_21index(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_number, PyObject *__pyx_v_scan_order); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_23number(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_25order(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_27_list(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_29list(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_31data(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_33data_column_by_name(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index, PyObject *__pyx_v_label); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_35scan_header(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_37file_header(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_39columns(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_41command(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_43date(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_45labels(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_47motor_names(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_49motor_positions(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_51motor_position_by_name(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_53number_of_mca(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_55mca_calibration(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ static PyObject *__pyx_pf_4silx_2io_8specfile_8SpecFile_57get_mca(struct __pyx_obj_4silx_2io_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index, PyObject *__pyx_v_mca_index); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static PyObject *__pyx_tp_new_4silx_2io_8specfile_SpecFile(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_4silx_2io_8specfile___pyx_scope_struct____iter__(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_4silx_2io_8specfile___pyx_scope_struct_1___iter__(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_float_0_; static PyObject *__pyx_float_1_; static PyObject *__pyx_int_0; static PyObject *__pyx_int_1; static PyObject *__pyx_int_2; static PyObject *__pyx_int_3; static PyObject *__pyx_int_4; static PyObject *__pyx_int_5; static PyObject *__pyx_int_6; static PyObject *__pyx_int_7; static PyObject *__pyx_int_8; static PyObject *__pyx_int_9; 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"" : "s", num_found); } /* RaiseDoubleKeywords */ static void __Pyx_RaiseDoubleKeywordsError( const char* func_name, PyObject* kw_name) { PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION >= 3 "%s() got multiple values for keyword argument '%U'", func_name, kw_name); #else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* PyObjectCallNoArg */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, NULL, 0); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* IterFinish */ static CYTHON_INLINE int __Pyx_IterFinish(void) { #if CYTHON_FAST_THREAD_STATE PyThreadState *tstate = PyThreadState_GET(); PyObject* exc_type = tstate->curexc_type; if (unlikely(exc_type)) { if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { PyObject *exc_value, *exc_tb; exc_value = tstate->curexc_value; exc_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; Py_DECREF(exc_type); Py_XDECREF(exc_value); Py_XDECREF(exc_tb); return 0; } else { return -1; } } return 0; #else if (unlikely(PyErr_Occurred())) { if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { PyErr_Clear(); return 0; } else { return -1; } } return 0; #endif } /* UnpackItemEndCheck */ static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { if (unlikely(retval)) { Py_DECREF(retval); __Pyx_RaiseTooManyValuesError(expected); return -1; } else { return __Pyx_IterFinish(); } return 0; } /* PyObjectCallMethod1 */ static PyObject* __Pyx_PyObject_CallMethod1(PyObject* obj, PyObject* method_name, PyObject* arg) { PyObject *method, *result = NULL; method = __Pyx_PyObject_GetAttrStr(obj, method_name); if (unlikely(!method)) goto done; #if CYTHON_UNPACK_METHODS if (likely(PyMethod_Check(method))) { PyObject *self = PyMethod_GET_SELF(method); if (likely(self)) { PyObject *args; PyObject *function = PyMethod_GET_FUNCTION(method); #if CYTHON_FAST_PYCALL if (PyFunction_Check(function)) { PyObject *args[2] = {self, arg}; result = __Pyx_PyFunction_FastCall(function, args, 2); goto done; } #endif #if CYTHON_FAST_PYCCALL if (__Pyx_PyFastCFunction_Check(function)) { PyObject *args[2] = {self, arg}; result = __Pyx_PyCFunction_FastCall(function, args, 2); goto done; } #endif args = PyTuple_New(2); if (unlikely(!args)) goto done; Py_INCREF(self); PyTuple_SET_ITEM(args, 0, self); Py_INCREF(arg); PyTuple_SET_ITEM(args, 1, arg); Py_INCREF(function); Py_DECREF(method); method = NULL; result = __Pyx_PyObject_Call(function, args, NULL); Py_DECREF(args); Py_DECREF(function); return result; } } #endif result = __Pyx_PyObject_CallOneArg(method, arg); done: Py_XDECREF(method); return result; } /* append */ static CYTHON_INLINE int __Pyx_PyObject_Append(PyObject* L, PyObject* x) { if (likely(PyList_CheckExact(L))) { if (unlikely(__Pyx_PyList_Append(L, x) < 0)) return -1; } else { PyObject* retval = __Pyx_PyObject_CallMethod1(L, __pyx_n_s_append, x); if (unlikely(!retval)) return -1; Py_DECREF(retval); } return 0; } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_SubtractObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a - b); if (likely((x^a) >= 0 || (x^~b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_subtract(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_subtract(op1, op2); } } x = a - b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla - llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("subtract", return NULL) result = ((double)a) - (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceSubtract : PyNumber_Subtract)(op1, op2); } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* StringJoin */ #if !CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyBytes_Join(PyObject* sep, PyObject* values) { return PyObject_CallMethodObjArgs(sep, __pyx_n_s_join, values, NULL); } #endif /* decode_c_bytes */ static CYTHON_INLINE PyObject* __Pyx_decode_c_bytes( const char* cstring, Py_ssize_t length, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { if (unlikely((start < 0) | (stop < 0))) { if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } if (stop > length) stop = length; length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { if (op1 == op2) { Py_RETURN_TRUE; } #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long a = PyInt_AS_LONG(op1); if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a; const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15 default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ); #else default: Py_RETURN_FALSE; #endif } } if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); if ((double)a == (double)b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } return PyObject_RichCompare(op1, op2, Py_EQ); } #endif /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SetItemInt */ static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { int r; if (!j) return -1; r = PyObject_SetItem(o, j, v); Py_DECREF(j); return r; } static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { PyObject* old = PyList_GET_ITEM(o, n); Py_INCREF(v); PyList_SET_ITEM(o, n, v); Py_DECREF(old); return 1; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_ass_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return -1; PyErr_Clear(); } } return m->sq_ass_item(o, i, v); } } #else #if CYTHON_COMPILING_IN_PYPY if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { #else if (is_list || PySequence_Check(o)) { #endif return PySequence_SetItem(o, i, v); } #endif return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* CalculateMetaclass */ static PyObject *__Pyx_CalculateMetaclass(PyTypeObject *metaclass, PyObject *bases) { Py_ssize_t i, nbases = PyTuple_GET_SIZE(bases); for (i=0; i < nbases; i++) { PyTypeObject *tmptype; PyObject *tmp = PyTuple_GET_ITEM(bases, i); tmptype = Py_TYPE(tmp); #if PY_MAJOR_VERSION < 3 if (tmptype == &PyClass_Type) continue; #endif if (!metaclass) { metaclass = tmptype; continue; } if (PyType_IsSubtype(metaclass, tmptype)) continue; if (PyType_IsSubtype(tmptype, metaclass)) { metaclass = tmptype; continue; } PyErr_SetString(PyExc_TypeError, "metaclass conflict: " "the metaclass of a derived class " "must be a (non-strict) subclass " "of the metaclasses of all its bases"); return NULL; } if (!metaclass) { #if PY_MAJOR_VERSION < 3 metaclass = &PyClass_Type; #else metaclass = &PyType_Type; #endif } Py_INCREF((PyObject*) metaclass); return (PyObject*) metaclass; } /* Py3ClassCreate */ static PyObject *__Pyx_Py3MetaclassPrepare(PyObject *metaclass, PyObject *bases, PyObject *name, PyObject *qualname, PyObject *mkw, PyObject *modname, PyObject *doc) { PyObject *ns; if (metaclass) { PyObject *prep = __Pyx_PyObject_GetAttrStr(metaclass, __pyx_n_s_prepare); if (prep) { PyObject *pargs = PyTuple_Pack(2, name, bases); if (unlikely(!pargs)) { Py_DECREF(prep); return NULL; } ns = PyObject_Call(prep, pargs, mkw); Py_DECREF(prep); Py_DECREF(pargs); } else { if (unlikely(!PyErr_ExceptionMatches(PyExc_AttributeError))) return NULL; PyErr_Clear(); ns = PyDict_New(); } } else { ns = PyDict_New(); } if (unlikely(!ns)) return NULL; if (unlikely(PyObject_SetItem(ns, __pyx_n_s_module, modname) < 0)) goto bad; if (unlikely(PyObject_SetItem(ns, __pyx_n_s_qualname, qualname) < 0)) goto bad; if (unlikely(doc && PyObject_SetItem(ns, __pyx_n_s_doc, doc) < 0)) goto bad; return ns; bad: Py_DECREF(ns); return NULL; } static PyObject *__Pyx_Py3ClassCreate(PyObject *metaclass, PyObject *name, PyObject *bases, PyObject *dict, PyObject *mkw, int calculate_metaclass, int allow_py2_metaclass) { PyObject *result, *margs; PyObject *owned_metaclass = NULL; if (allow_py2_metaclass) { owned_metaclass = PyObject_GetItem(dict, __pyx_n_s_metaclass); if (owned_metaclass) { metaclass = owned_metaclass; } else if (likely(PyErr_ExceptionMatches(PyExc_KeyError))) { PyErr_Clear(); } else { return NULL; } } if (calculate_metaclass && (!metaclass || PyType_Check(metaclass))) { metaclass = __Pyx_CalculateMetaclass((PyTypeObject*) metaclass, bases); Py_XDECREF(owned_metaclass); if (unlikely(!metaclass)) return NULL; owned_metaclass = metaclass; } margs = PyTuple_Pack(3, name, bases, dict); if (unlikely(!margs)) { result = NULL; } else { result = PyObject_Call(metaclass, margs, mkw); Py_DECREF(margs); } Py_XDECREF(owned_metaclass); return result; } /* FetchCommonType */ static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type) { PyObject* fake_module; PyTypeObject* cached_type = NULL; fake_module = PyImport_AddModule((char*) "_cython_" CYTHON_ABI); if (!fake_module) return NULL; Py_INCREF(fake_module); cached_type = (PyTypeObject*) PyObject_GetAttrString(fake_module, type->tp_name); if (cached_type) { if (!PyType_Check((PyObject*)cached_type)) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s is not a type object", type->tp_name); goto bad; } if (cached_type->tp_basicsize != type->tp_basicsize) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s has the wrong size, try recompiling", type->tp_name); goto bad; } } else { if (!PyErr_ExceptionMatches(PyExc_AttributeError)) goto bad; PyErr_Clear(); if (PyType_Ready(type) < 0) goto bad; if (PyObject_SetAttrString(fake_module, type->tp_name, (PyObject*) type) < 0) goto bad; Py_INCREF(type); cached_type = type; } done: Py_DECREF(fake_module); return cached_type; bad: Py_XDECREF(cached_type); cached_type = NULL; goto done; } /* CythonFunction */ static PyObject * __Pyx_CyFunction_get_doc(__pyx_CyFunctionObject *op, CYTHON_UNUSED void *closure) { if (unlikely(op->func_doc == NULL)) { if (op->func.m_ml->ml_doc) { #if PY_MAJOR_VERSION >= 3 op->func_doc = PyUnicode_FromString(op->func.m_ml->ml_doc); #else op->func_doc = PyString_FromString(op->func.m_ml->ml_doc); #endif if (unlikely(op->func_doc == NULL)) return NULL; } else { Py_INCREF(Py_None); return Py_None; } } Py_INCREF(op->func_doc); return op->func_doc; } static int __Pyx_CyFunction_set_doc(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp = op->func_doc; if (value == NULL) { value = Py_None; } Py_INCREF(value); op->func_doc = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_name(__pyx_CyFunctionObject *op) { if (unlikely(op->func_name == NULL)) { #if PY_MAJOR_VERSION >= 3 op->func_name = PyUnicode_InternFromString(op->func.m_ml->ml_name); #else op->func_name = PyString_InternFromString(op->func.m_ml->ml_name); #endif if (unlikely(op->func_name == NULL)) return NULL; } Py_INCREF(op->func_name); return op->func_name; } static int __Pyx_CyFunction_set_name(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__name__ must be set to a string object"); return -1; } tmp = op->func_name; Py_INCREF(value); op->func_name = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_qualname(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_qualname); return op->func_qualname; } static int __Pyx_CyFunction_set_qualname(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__qualname__ must be set to a string object"); return -1; } tmp = op->func_qualname; Py_INCREF(value); op->func_qualname = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_self(__pyx_CyFunctionObject *m, CYTHON_UNUSED void *closure) { PyObject *self; self = m->func_closure; if (self == NULL) self = Py_None; Py_INCREF(self); return self; } static PyObject * __Pyx_CyFunction_get_dict(__pyx_CyFunctionObject *op) { if (unlikely(op->func_dict == NULL)) { op->func_dict = PyDict_New(); if (unlikely(op->func_dict == NULL)) return NULL; } Py_INCREF(op->func_dict); return op->func_dict; } static int __Pyx_CyFunction_set_dict(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; if (unlikely(value == NULL)) { PyErr_SetString(PyExc_TypeError, "function's dictionary may not be deleted"); return -1; } if (unlikely(!PyDict_Check(value))) { PyErr_SetString(PyExc_TypeError, "setting function's dictionary to a non-dict"); return -1; } tmp = op->func_dict; Py_INCREF(value); op->func_dict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_globals(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_globals); return op->func_globals; } static PyObject * __Pyx_CyFunction_get_closure(CYTHON_UNUSED __pyx_CyFunctionObject *op) { Py_INCREF(Py_None); return Py_None; } static PyObject * __Pyx_CyFunction_get_code(__pyx_CyFunctionObject *op) { PyObject* result = (op->func_code) ? op->func_code : Py_None; Py_INCREF(result); return result; } static int __Pyx_CyFunction_init_defaults(__pyx_CyFunctionObject *op) { int result = 0; PyObject *res = op->defaults_getter((PyObject *) op); if (unlikely(!res)) return -1; #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS op->defaults_tuple = PyTuple_GET_ITEM(res, 0); Py_INCREF(op->defaults_tuple); op->defaults_kwdict = PyTuple_GET_ITEM(res, 1); Py_INCREF(op->defaults_kwdict); #else op->defaults_tuple = PySequence_ITEM(res, 0); if (unlikely(!op->defaults_tuple)) result = -1; else { op->defaults_kwdict = PySequence_ITEM(res, 1); if (unlikely(!op->defaults_kwdict)) result = -1; } #endif Py_DECREF(res); return result; } static int __Pyx_CyFunction_set_defaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyTuple_Check(value)) { PyErr_SetString(PyExc_TypeError, "__defaults__ must be set to a tuple object"); return -1; } Py_INCREF(value); tmp = op->defaults_tuple; op->defaults_tuple = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_defaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_tuple; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_tuple; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_kwdefaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__kwdefaults__ must be set to a dict object"); return -1; } Py_INCREF(value); tmp = op->defaults_kwdict; op->defaults_kwdict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_kwdefaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_kwdict; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_kwdict; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_annotations(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value || value == Py_None) { value = NULL; } else if (!PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__annotations__ must be set to a dict object"); return -1; } Py_XINCREF(value); tmp = op->func_annotations; op->func_annotations = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_annotations(__pyx_CyFunctionObject *op) { PyObject* result = op->func_annotations; if (unlikely(!result)) { result = PyDict_New(); if (unlikely(!result)) return NULL; op->func_annotations = result; } Py_INCREF(result); return result; } static PyGetSetDef __pyx_CyFunction_getsets[] = { {(char *) "func_doc", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "__doc__", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "func_name", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__name__", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__qualname__", (getter)__Pyx_CyFunction_get_qualname, (setter)__Pyx_CyFunction_set_qualname, 0, 0}, {(char *) "__self__", (getter)__Pyx_CyFunction_get_self, 0, 0, 0}, {(char *) "func_dict", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "__dict__", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "func_globals", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "__globals__", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "func_closure", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "__closure__", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "func_code", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "__code__", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "func_defaults", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__defaults__", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__kwdefaults__", (getter)__Pyx_CyFunction_get_kwdefaults, (setter)__Pyx_CyFunction_set_kwdefaults, 0, 0}, {(char *) "__annotations__", (getter)__Pyx_CyFunction_get_annotations, (setter)__Pyx_CyFunction_set_annotations, 0, 0}, {0, 0, 0, 0, 0} }; static PyMemberDef __pyx_CyFunction_members[] = { {(char *) "__module__", T_OBJECT, offsetof(__pyx_CyFunctionObject, func.m_module), PY_WRITE_RESTRICTED, 0}, {0, 0, 0, 0, 0} }; static PyObject * __Pyx_CyFunction_reduce(__pyx_CyFunctionObject *m, CYTHON_UNUSED PyObject *args) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromString(m->func.m_ml->ml_name); #else return PyString_FromString(m->func.m_ml->ml_name); #endif } static PyMethodDef __pyx_CyFunction_methods[] = { {"__reduce__", (PyCFunction)__Pyx_CyFunction_reduce, METH_VARARGS, 0}, {0, 0, 0, 0} }; #if PY_VERSION_HEX < 0x030500A0 #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func_weakreflist) #else #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func.m_weakreflist) #endif static PyObject *__Pyx_CyFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *closure, PyObject *module, PyObject* globals, PyObject* code) { __pyx_CyFunctionObject *op = PyObject_GC_New(__pyx_CyFunctionObject, type); if (op == NULL) return NULL; op->flags = flags; __Pyx_CyFunction_weakreflist(op) = NULL; op->func.m_ml = ml; op->func.m_self = (PyObject *) op; Py_XINCREF(closure); op->func_closure = closure; Py_XINCREF(module); op->func.m_module = module; op->func_dict = NULL; op->func_name = NULL; Py_INCREF(qualname); op->func_qualname = qualname; op->func_doc = NULL; op->func_classobj = NULL; op->func_globals = globals; Py_INCREF(op->func_globals); Py_XINCREF(code); op->func_code = code; op->defaults_pyobjects = 0; op->defaults = NULL; op->defaults_tuple = NULL; op->defaults_kwdict = NULL; op->defaults_getter = NULL; op->func_annotations = NULL; PyObject_GC_Track(op); return (PyObject *) op; } static int __Pyx_CyFunction_clear(__pyx_CyFunctionObject *m) { Py_CLEAR(m->func_closure); Py_CLEAR(m->func.m_module); Py_CLEAR(m->func_dict); Py_CLEAR(m->func_name); Py_CLEAR(m->func_qualname); Py_CLEAR(m->func_doc); Py_CLEAR(m->func_globals); Py_CLEAR(m->func_code); Py_CLEAR(m->func_classobj); Py_CLEAR(m->defaults_tuple); Py_CLEAR(m->defaults_kwdict); Py_CLEAR(m->func_annotations); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_XDECREF(pydefaults[i]); PyObject_Free(m->defaults); m->defaults = NULL; } return 0; } static void __Pyx_CyFunction_dealloc(__pyx_CyFunctionObject *m) { PyObject_GC_UnTrack(m); if (__Pyx_CyFunction_weakreflist(m) != NULL) PyObject_ClearWeakRefs((PyObject *) m); __Pyx_CyFunction_clear(m); PyObject_GC_Del(m); } static int __Pyx_CyFunction_traverse(__pyx_CyFunctionObject *m, visitproc visit, void *arg) { Py_VISIT(m->func_closure); Py_VISIT(m->func.m_module); Py_VISIT(m->func_dict); Py_VISIT(m->func_name); Py_VISIT(m->func_qualname); Py_VISIT(m->func_doc); Py_VISIT(m->func_globals); Py_VISIT(m->func_code); Py_VISIT(m->func_classobj); Py_VISIT(m->defaults_tuple); Py_VISIT(m->defaults_kwdict); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_VISIT(pydefaults[i]); } return 0; } static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; if (m->flags & __Pyx_CYFUNCTION_STATICMETHOD) { Py_INCREF(func); return func; } if (m->flags & __Pyx_CYFUNCTION_CLASSMETHOD) { if (type == NULL) type = (PyObject *)(Py_TYPE(obj)); return __Pyx_PyMethod_New(func, type, (PyObject *)(Py_TYPE(type))); } if (obj == Py_None) obj = NULL; return __Pyx_PyMethod_New(func, obj, type); } static PyObject* __Pyx_CyFunction_repr(__pyx_CyFunctionObject *op) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromFormat("", op->func_qualname, (void *)op); #else return PyString_FromFormat("", PyString_AsString(op->func_qualname), (void *)op); #endif } static PyObject * __Pyx_CyFunction_CallMethod(PyObject *func, PyObject *self, PyObject *arg, PyObject *kw) { PyCFunctionObject* f = (PyCFunctionObject*)func; PyCFunction meth = f->m_ml->ml_meth; Py_ssize_t size; switch (f->m_ml->ml_flags & (METH_VARARGS | METH_KEYWORDS | METH_NOARGS | METH_O)) { case METH_VARARGS: if (likely(kw == NULL || PyDict_Size(kw) == 0)) return (*meth)(self, arg); break; case METH_VARARGS | METH_KEYWORDS: return (*(PyCFunctionWithKeywords)meth)(self, arg, kw); case METH_NOARGS: if (likely(kw == NULL || PyDict_Size(kw) == 0)) { size = PyTuple_GET_SIZE(arg); if (likely(size == 0)) return (*meth)(self, NULL); PyErr_Format(PyExc_TypeError, "%.200s() takes no arguments (%" CYTHON_FORMAT_SSIZE_T "d given)", f->m_ml->ml_name, size); return NULL; } break; case METH_O: if (likely(kw == NULL || PyDict_Size(kw) == 0)) { size = PyTuple_GET_SIZE(arg); if (likely(size == 1)) { PyObject *result, *arg0 = PySequence_ITEM(arg, 0); if (unlikely(!arg0)) return NULL; result = (*meth)(self, arg0); Py_DECREF(arg0); return result; } PyErr_Format(PyExc_TypeError, "%.200s() takes exactly one argument (%" CYTHON_FORMAT_SSIZE_T "d given)", f->m_ml->ml_name, size); return NULL; } break; default: PyErr_SetString(PyExc_SystemError, "Bad call flags in " "__Pyx_CyFunction_Call. METH_OLDARGS is no " "longer supported!"); return NULL; } PyErr_Format(PyExc_TypeError, "%.200s() takes no keyword arguments", f->m_ml->ml_name); return NULL; } static CYTHON_INLINE PyObject *__Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { return __Pyx_CyFunction_CallMethod(func, ((PyCFunctionObject*)func)->m_self, arg, kw); } static PyObject *__Pyx_CyFunction_CallAsMethod(PyObject *func, PyObject *args, PyObject *kw) { PyObject *result; __pyx_CyFunctionObject *cyfunc = (__pyx_CyFunctionObject *) func; if ((cyfunc->flags & __Pyx_CYFUNCTION_CCLASS) && !(cyfunc->flags & __Pyx_CYFUNCTION_STATICMETHOD)) { Py_ssize_t argc; PyObject *new_args; PyObject *self; argc = PyTuple_GET_SIZE(args); new_args = PyTuple_GetSlice(args, 1, argc); if (unlikely(!new_args)) return NULL; self = PyTuple_GetItem(args, 0); if (unlikely(!self)) { Py_DECREF(new_args); return NULL; } result = __Pyx_CyFunction_CallMethod(func, self, new_args, kw); Py_DECREF(new_args); } else { result = __Pyx_CyFunction_Call(func, args, kw); } return result; } static PyTypeObject __pyx_CyFunctionType_type = { PyVarObject_HEAD_INIT(0, 0) "cython_function_or_method", sizeof(__pyx_CyFunctionObject), 0, (destructor) __Pyx_CyFunction_dealloc, 0, 0, 0, #if PY_MAJOR_VERSION < 3 0, #else 0, #endif (reprfunc) __Pyx_CyFunction_repr, 0, 0, 0, 0, __Pyx_CyFunction_CallAsMethod, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC, 0, (traverseproc) __Pyx_CyFunction_traverse, (inquiry) __Pyx_CyFunction_clear, 0, #if PY_VERSION_HEX < 0x030500A0 offsetof(__pyx_CyFunctionObject, func_weakreflist), #else offsetof(PyCFunctionObject, m_weakreflist), #endif 0, 0, __pyx_CyFunction_methods, __pyx_CyFunction_members, __pyx_CyFunction_getsets, 0, 0, __Pyx_CyFunction_descr_get, 0, offsetof(__pyx_CyFunctionObject, func_dict), 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #endif }; static int __pyx_CyFunction_init(void) { __pyx_CyFunctionType = __Pyx_FetchCommonType(&__pyx_CyFunctionType_type); if (__pyx_CyFunctionType == NULL) { return -1; } return 0; } static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *func, size_t size, int pyobjects) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults = PyObject_Malloc(size); if (!m->defaults) return PyErr_NoMemory(); memset(m->defaults, 0, size); m->defaults_pyobjects = pyobjects; return m->defaults; } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *func, PyObject *tuple) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_tuple = tuple; Py_INCREF(tuple); } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_kwdict = dict; Py_INCREF(dict); } static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->func_annotations = dict; Py_INCREF(dict); } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return ::std::complex< float >(x, y); } #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return x + y*(__pyx_t_float_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { __pyx_t_float_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabsf(b.real) >= fabsf(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { float r = b.imag / b.real; float s = 1.0 / (b.real + b.imag * r); return __pyx_t_float_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { float r = b.real / b.imag; float s = 1.0 / (b.imag + b.real * r); return __pyx_t_float_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else { float denom = b.real * b.real + b.imag * b.imag; return __pyx_t_float_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrtf(z.real*z.real + z.imag*z.imag); #else return hypotf(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; float r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { float denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(a, a); case 3: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, a); case 4: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = powf(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2f(0, -1); } } else { r = __Pyx_c_abs_float(a); theta = atan2f(a.imag, a.real); } lnr = logf(r); z_r = expf(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cosf(z_theta); z.imag = z_r * sinf(z_theta); return z; } #endif #endif /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return ::std::complex< double >(x, y); } #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return x + y*(__pyx_t_double_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { __pyx_t_double_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabs(b.real) >= fabs(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { double r = b.imag / b.real; double s = 1.0 / (b.real + b.imag * r); return __pyx_t_double_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { double r = b.real / b.imag; double s = 1.0 / (b.imag + b.real * r); return __pyx_t_double_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else { double denom = b.real * b.real + b.imag * b.imag; return __pyx_t_double_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrt(z.real*z.real + z.imag*z.imag); #else return hypot(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; double r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { double denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(a, a); case 3: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, a); case 4: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = pow(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2(0, -1); } } else { r = __Pyx_c_abs_double(a); theta = atan2(a.imag, a.real); } lnr = log(r); z_r = exp(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cos(z_theta); z.imag = z_r * sin(z_theta); return z; } #endif #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value) { const enum NPY_TYPES neg_one = (enum NPY_TYPES) -1, const_zero = (enum NPY_TYPES) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(enum NPY_TYPES) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(enum NPY_TYPES) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(enum NPY_TYPES), little, !is_unsigned); } } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* CoroutineBase */ #include #include static PyObject *__Pyx_Coroutine_Send(PyObject *self, PyObject *value); static PyObject *__Pyx_Coroutine_Close(PyObject *self); static PyObject *__Pyx_Coroutine_Throw(PyObject *gen, PyObject *args); #define __Pyx_Coroutine_Undelegate(gen) Py_CLEAR((gen)->yieldfrom) #if 1 || PY_VERSION_HEX < 0x030300B0 static int __Pyx_PyGen_FetchStopIterationValue(PyObject **pvalue) { PyObject *et, *ev, *tb; PyObject *value = NULL; __Pyx_PyThreadState_declare __Pyx_PyThreadState_assign __Pyx_ErrFetch(&et, &ev, &tb); if (!et) { Py_XDECREF(tb); Py_XDECREF(ev); Py_INCREF(Py_None); *pvalue = Py_None; return 0; } if (likely(et == PyExc_StopIteration)) { if (!ev) { Py_INCREF(Py_None); value = Py_None; } #if PY_VERSION_HEX >= 0x030300A0 else if (Py_TYPE(ev) == (PyTypeObject*)PyExc_StopIteration) { value = ((PyStopIterationObject *)ev)->value; Py_INCREF(value); Py_DECREF(ev); } #endif else if (unlikely(PyTuple_Check(ev))) { if (PyTuple_GET_SIZE(ev) >= 1) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS value = PyTuple_GET_ITEM(ev, 0); Py_INCREF(value); #else value = PySequence_ITEM(ev, 0); #endif } else { Py_INCREF(Py_None); value = Py_None; } Py_DECREF(ev); } else if (!PyObject_TypeCheck(ev, (PyTypeObject*)PyExc_StopIteration)) { value = ev; } if (likely(value)) { Py_XDECREF(tb); Py_DECREF(et); *pvalue = value; return 0; } } else if (!PyErr_GivenExceptionMatches(et, PyExc_StopIteration)) { __Pyx_ErrRestore(et, ev, tb); return -1; } PyErr_NormalizeException(&et, &ev, &tb); if (unlikely(!PyObject_TypeCheck(ev, (PyTypeObject*)PyExc_StopIteration))) { __Pyx_ErrRestore(et, ev, tb); return -1; } Py_XDECREF(tb); Py_DECREF(et); #if PY_VERSION_HEX >= 0x030300A0 value = ((PyStopIterationObject *)ev)->value; Py_INCREF(value); Py_DECREF(ev); #else { PyObject* args = __Pyx_PyObject_GetAttrStr(ev, __pyx_n_s_args); Py_DECREF(ev); if (likely(args)) { value = PySequence_GetItem(args, 0); Py_DECREF(args); } if (unlikely(!value)) { __Pyx_ErrRestore(NULL, NULL, NULL); Py_INCREF(Py_None); value = Py_None; } } #endif *pvalue = value; return 0; } #endif static CYTHON_INLINE void __Pyx_Coroutine_ExceptionClear(__pyx_CoroutineObject *self) { PyObject *exc_type = self->exc_type; PyObject *exc_value = self->exc_value; PyObject *exc_traceback = self->exc_traceback; self->exc_type = NULL; self->exc_value = NULL; self->exc_traceback = NULL; Py_XDECREF(exc_type); Py_XDECREF(exc_value); Py_XDECREF(exc_traceback); } static CYTHON_INLINE int __Pyx_Coroutine_CheckRunning(__pyx_CoroutineObject *gen) { if (unlikely(gen->is_running)) { PyErr_SetString(PyExc_ValueError, "generator already executing"); return 1; } return 0; } static CYTHON_INLINE PyObject *__Pyx_Coroutine_SendEx(__pyx_CoroutineObject *self, PyObject *value) { PyObject *retval; __Pyx_PyThreadState_declare assert(!self->is_running); if (unlikely(self->resume_label == 0)) { if (unlikely(value && value != Py_None)) { PyErr_SetString(PyExc_TypeError, "can't send non-None value to a " "just-started generator"); return NULL; } } if (unlikely(self->resume_label == -1)) { PyErr_SetNone(PyExc_StopIteration); return NULL; } __Pyx_PyThreadState_assign if (value) { #if CYTHON_COMPILING_IN_PYPY || CYTHON_COMPILING_IN_PYSTON #else if (self->exc_traceback) { PyTracebackObject *tb = (PyTracebackObject *) self->exc_traceback; PyFrameObject *f = tb->tb_frame; Py_XINCREF(__pyx_tstate->frame); assert(f->f_back == NULL); f->f_back = __pyx_tstate->frame; } #endif __Pyx_ExceptionSwap(&self->exc_type, &self->exc_value, &self->exc_traceback); } else { __Pyx_Coroutine_ExceptionClear(self); } self->is_running = 1; retval = self->body((PyObject *) self, value); self->is_running = 0; if (retval) { __Pyx_ExceptionSwap(&self->exc_type, &self->exc_value, &self->exc_traceback); #if CYTHON_COMPILING_IN_PYPY || CYTHON_COMPILING_IN_PYSTON #else if (self->exc_traceback) { PyTracebackObject *tb = (PyTracebackObject *) self->exc_traceback; PyFrameObject *f = tb->tb_frame; Py_CLEAR(f->f_back); } #endif } else { __Pyx_Coroutine_ExceptionClear(self); } return retval; } static CYTHON_INLINE PyObject *__Pyx_Coroutine_MethodReturn(PyObject *retval) { if (unlikely(!retval && !PyErr_Occurred())) { PyErr_SetNone(PyExc_StopIteration); } return retval; } static CYTHON_INLINE PyObject *__Pyx_Coroutine_FinishDelegation(__pyx_CoroutineObject *gen) { PyObject *ret; PyObject *val = NULL; __Pyx_Coroutine_Undelegate(gen); __Pyx_PyGen_FetchStopIterationValue(&val); ret = __Pyx_Coroutine_SendEx(gen, val); Py_XDECREF(val); return ret; } static PyObject *__Pyx_Coroutine_Send(PyObject *self, PyObject *value) { PyObject *retval; __pyx_CoroutineObject *gen = (__pyx_CoroutineObject*) self; PyObject *yf = gen->yieldfrom; if (unlikely(__Pyx_Coroutine_CheckRunning(gen))) return NULL; if (yf) { PyObject *ret; gen->is_running = 1; #ifdef __Pyx_Generator_USED if (__Pyx_Generator_CheckExact(yf)) { ret = __Pyx_Coroutine_Send(yf, value); } else #endif #ifdef __Pyx_Coroutine_USED if (__Pyx_Coroutine_CheckExact(yf)) { ret = __Pyx_Coroutine_Send(yf, value); } else #endif { if (value == Py_None) ret = Py_TYPE(yf)->tp_iternext(yf); else ret = __Pyx_PyObject_CallMethod1(yf, __pyx_n_s_send, value); } gen->is_running = 0; if (likely(ret)) { return ret; } retval = __Pyx_Coroutine_FinishDelegation(gen); } else { retval = __Pyx_Coroutine_SendEx(gen, value); } return __Pyx_Coroutine_MethodReturn(retval); } static int __Pyx_Coroutine_CloseIter(__pyx_CoroutineObject *gen, PyObject *yf) { PyObject *retval = NULL; int err = 0; #ifdef __Pyx_Generator_USED if (__Pyx_Generator_CheckExact(yf)) { retval = __Pyx_Coroutine_Close(yf); if (!retval) return -1; } else #endif #ifdef __Pyx_Coroutine_USED if (__Pyx_Coroutine_CheckExact(yf)) { retval = __Pyx_Coroutine_Close(yf); if (!retval) return -1; } else #endif { PyObject *meth; gen->is_running = 1; meth = __Pyx_PyObject_GetAttrStr(yf, __pyx_n_s_close); if (unlikely(!meth)) { if (!PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_WriteUnraisable(yf); } PyErr_Clear(); } else { retval = PyObject_CallFunction(meth, NULL); Py_DECREF(meth); if (!retval) err = -1; } gen->is_running = 0; } Py_XDECREF(retval); return err; } static PyObject *__Pyx_Generator_Next(PyObject *self) { __pyx_CoroutineObject *gen = (__pyx_CoroutineObject*) self; PyObject *yf = gen->yieldfrom; if (unlikely(__Pyx_Coroutine_CheckRunning(gen))) return NULL; if (yf) { PyObject *ret; gen->is_running = 1; #ifdef __Pyx_Generator_USED if (__Pyx_Generator_CheckExact(yf)) { ret = __Pyx_Generator_Next(yf); } else #endif ret = Py_TYPE(yf)->tp_iternext(yf); gen->is_running = 0; if (likely(ret)) { return ret; } return __Pyx_Coroutine_FinishDelegation(gen); } return __Pyx_Coroutine_SendEx(gen, Py_None); } static PyObject *__Pyx_Coroutine_Close(PyObject *self) { __pyx_CoroutineObject *gen = (__pyx_CoroutineObject *) self; PyObject *retval, *raised_exception; PyObject *yf = gen->yieldfrom; int err = 0; if (unlikely(__Pyx_Coroutine_CheckRunning(gen))) return NULL; if (yf) { Py_INCREF(yf); err = __Pyx_Coroutine_CloseIter(gen, yf); __Pyx_Coroutine_Undelegate(gen); Py_DECREF(yf); } if (err == 0) PyErr_SetNone(PyExc_GeneratorExit); retval = __Pyx_Coroutine_SendEx(gen, NULL); if (retval) { Py_DECREF(retval); PyErr_SetString(PyExc_RuntimeError, "generator ignored GeneratorExit"); return NULL; } raised_exception = PyErr_Occurred(); if (!raised_exception || raised_exception == PyExc_StopIteration || raised_exception == PyExc_GeneratorExit || PyErr_GivenExceptionMatches(raised_exception, PyExc_GeneratorExit) || PyErr_GivenExceptionMatches(raised_exception, PyExc_StopIteration)) { if (raised_exception) PyErr_Clear(); Py_INCREF(Py_None); return Py_None; } return NULL; } static PyObject *__Pyx_Coroutine_Throw(PyObject *self, PyObject *args) { __pyx_CoroutineObject *gen = (__pyx_CoroutineObject *) self; PyObject *typ; PyObject *tb = NULL; PyObject *val = NULL; PyObject *yf = gen->yieldfrom; if (!PyArg_UnpackTuple(args, (char *)"throw", 1, 3, &typ, &val, &tb)) return NULL; if (unlikely(__Pyx_Coroutine_CheckRunning(gen))) return NULL; if (yf) { PyObject *ret; Py_INCREF(yf); if (PyErr_GivenExceptionMatches(typ, PyExc_GeneratorExit)) { int err = __Pyx_Coroutine_CloseIter(gen, yf); Py_DECREF(yf); __Pyx_Coroutine_Undelegate(gen); if (err < 0) return __Pyx_Coroutine_MethodReturn(__Pyx_Coroutine_SendEx(gen, NULL)); goto throw_here; } gen->is_running = 1; #ifdef __Pyx_Generator_USED if (__Pyx_Generator_CheckExact(yf)) { ret = __Pyx_Coroutine_Throw(yf, args); } else #endif #ifdef __Pyx_Coroutine_USED if (__Pyx_Coroutine_CheckExact(yf)) { ret = __Pyx_Coroutine_Throw(yf, args); } else #endif { PyObject *meth = __Pyx_PyObject_GetAttrStr(yf, __pyx_n_s_throw); if (unlikely(!meth)) { Py_DECREF(yf); if (!PyErr_ExceptionMatches(PyExc_AttributeError)) { gen->is_running = 0; return NULL; } PyErr_Clear(); __Pyx_Coroutine_Undelegate(gen); gen->is_running = 0; goto throw_here; } ret = PyObject_CallObject(meth, args); Py_DECREF(meth); } gen->is_running = 0; Py_DECREF(yf); if (!ret) { ret = __Pyx_Coroutine_FinishDelegation(gen); } return __Pyx_Coroutine_MethodReturn(ret); } throw_here: __Pyx_Raise(typ, val, tb, NULL); return __Pyx_Coroutine_MethodReturn(__Pyx_Coroutine_SendEx(gen, NULL)); } static int __Pyx_Coroutine_traverse(PyObject *self, visitproc visit, void *arg) { __pyx_CoroutineObject *gen = (__pyx_CoroutineObject *) self; Py_VISIT(gen->closure); Py_VISIT(gen->classobj); Py_VISIT(gen->yieldfrom); Py_VISIT(gen->exc_type); Py_VISIT(gen->exc_value); Py_VISIT(gen->exc_traceback); return 0; } static int __Pyx_Coroutine_clear(PyObject *self) { __pyx_CoroutineObject *gen = (__pyx_CoroutineObject *) self; Py_CLEAR(gen->closure); Py_CLEAR(gen->classobj); Py_CLEAR(gen->yieldfrom); Py_CLEAR(gen->exc_type); Py_CLEAR(gen->exc_value); Py_CLEAR(gen->exc_traceback); Py_CLEAR(gen->gi_name); Py_CLEAR(gen->gi_qualname); return 0; } static void __Pyx_Coroutine_dealloc(PyObject *self) { __pyx_CoroutineObject *gen = (__pyx_CoroutineObject *) self; PyObject_GC_UnTrack(gen); if (gen->gi_weakreflist != NULL) PyObject_ClearWeakRefs(self); if (gen->resume_label > 0) { PyObject_GC_Track(self); #if PY_VERSION_HEX >= 0x030400a1 if (PyObject_CallFinalizerFromDealloc(self)) #else Py_TYPE(gen)->tp_del(self); if (self->ob_refcnt > 0) #endif { return; } PyObject_GC_UnTrack(self); } __Pyx_Coroutine_clear(self); PyObject_GC_Del(gen); } static void __Pyx_Coroutine_del(PyObject *self) { PyObject *res; PyObject *error_type, *error_value, *error_traceback; __pyx_CoroutineObject *gen = (__pyx_CoroutineObject *) self; __Pyx_PyThreadState_declare if (gen->resume_label <= 0) return ; #if PY_VERSION_HEX < 0x030400a1 assert(self->ob_refcnt == 0); self->ob_refcnt = 1; #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&error_type, &error_value, &error_traceback); res = __Pyx_Coroutine_Close(self); if (res == NULL) PyErr_WriteUnraisable(self); else Py_DECREF(res); __Pyx_ErrRestore(error_type, error_value, error_traceback); #if PY_VERSION_HEX < 0x030400a1 assert(self->ob_refcnt > 0); if (--self->ob_refcnt == 0) { return; } { Py_ssize_t refcnt = self->ob_refcnt; _Py_NewReference(self); self->ob_refcnt = refcnt; } #if CYTHON_COMPILING_IN_CPYTHON assert(PyType_IS_GC(self->ob_type) && _Py_AS_GC(self)->gc.gc_refs != _PyGC_REFS_UNTRACKED); _Py_DEC_REFTOTAL; #endif #ifdef COUNT_ALLOCS --Py_TYPE(self)->tp_frees; --Py_TYPE(self)->tp_allocs; #endif #endif } static PyObject * __Pyx_Coroutine_get_name(__pyx_CoroutineObject *self) { PyObject *name = self->gi_name; if (unlikely(!name)) name = Py_None; Py_INCREF(name); return name; } static int __Pyx_Coroutine_set_name(__pyx_CoroutineObject *self, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__name__ must be set to a string object"); return -1; } tmp = self->gi_name; Py_INCREF(value); self->gi_name = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_Coroutine_get_qualname(__pyx_CoroutineObject *self) { PyObject *name = self->gi_qualname; if (unlikely(!name)) name = Py_None; Py_INCREF(name); return name; } static int __Pyx_Coroutine_set_qualname(__pyx_CoroutineObject *self, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__qualname__ must be set to a string object"); return -1; } tmp = self->gi_qualname; Py_INCREF(value); self->gi_qualname = value; Py_XDECREF(tmp); return 0; } static __pyx_CoroutineObject *__Pyx__Coroutine_New( PyTypeObject* type, __pyx_coroutine_body_t body, PyObject *closure, PyObject *name, PyObject *qualname, PyObject *module_name) { __pyx_CoroutineObject *gen = PyObject_GC_New(__pyx_CoroutineObject, type); if (gen == NULL) return NULL; gen->body = body; gen->closure = closure; Py_XINCREF(closure); gen->is_running = 0; gen->resume_label = 0; gen->classobj = NULL; gen->yieldfrom = NULL; gen->exc_type = NULL; gen->exc_value = NULL; gen->exc_traceback = NULL; gen->gi_weakreflist = NULL; Py_XINCREF(qualname); gen->gi_qualname = qualname; Py_XINCREF(name); gen->gi_name = name; Py_XINCREF(module_name); gen->gi_modulename = module_name; PyObject_GC_Track(gen); return gen; } /* PatchModuleWithCoroutine */ static PyObject* __Pyx_Coroutine_patch_module(PyObject* module, const char* py_code) { #if defined(__Pyx_Generator_USED) || defined(__Pyx_Coroutine_USED) int result; PyObject *globals, *result_obj; globals = PyDict_New(); if (unlikely(!globals)) goto ignore; result = PyDict_SetItemString(globals, "_cython_coroutine_type", #ifdef __Pyx_Coroutine_USED (PyObject*)__pyx_CoroutineType); #else Py_None); #endif if (unlikely(result < 0)) goto ignore; result = PyDict_SetItemString(globals, "_cython_generator_type", #ifdef __Pyx_Generator_USED (PyObject*)__pyx_GeneratorType); #else Py_None); #endif if (unlikely(result < 0)) goto ignore; if (unlikely(PyDict_SetItemString(globals, "_module", module) < 0)) goto ignore; if (unlikely(PyDict_SetItemString(globals, "__builtins__", __pyx_b) < 0)) goto ignore; result_obj = PyRun_String(py_code, Py_file_input, globals, globals); if (unlikely(!result_obj)) goto ignore; Py_DECREF(result_obj); Py_DECREF(globals); return module; ignore: Py_XDECREF(globals); PyErr_WriteUnraisable(module); if (unlikely(PyErr_WarnEx(PyExc_RuntimeWarning, "Cython module failed to patch module with custom type", 1) < 0)) { Py_DECREF(module); module = NULL; } #else py_code++; #endif return module; } /* PatchGeneratorABC */ #if defined(__Pyx_Generator_USED) || defined(__Pyx_Coroutine_USED) static PyObject* __Pyx_patch_abc_module(PyObject *module); static PyObject* __Pyx_patch_abc_module(PyObject *module) { module = __Pyx_Coroutine_patch_module( module, "" "if _cython_generator_type is not None:\n" " try: Generator = _module.Generator\n" " except AttributeError: pass\n" " else: Generator.register(_cython_generator_type)\n" "if _cython_coroutine_type is not None:\n" " try: Coroutine = _module.Coroutine\n" " except AttributeError: pass\n" " else: Coroutine.register(_cython_coroutine_type)\n" ); return module; } #endif static int __Pyx_patch_abc(void) { #if defined(__Pyx_Generator_USED) || defined(__Pyx_Coroutine_USED) static int abc_patched = 0; if (!abc_patched) { PyObject *module; module = PyImport_ImportModule((PY_VERSION_HEX >= 0x03030000) ? "collections.abc" : "collections"); if (!module) { PyErr_WriteUnraisable(NULL); if (unlikely(PyErr_WarnEx(PyExc_RuntimeWarning, ((PY_VERSION_HEX >= 0x03030000) ? "Cython module failed to register with collections.abc module" : "Cython module failed to register with collections module"), 1) < 0)) { return -1; } } else { module = __Pyx_patch_abc_module(module); abc_patched = 1; if (unlikely(!module)) return -1; Py_DECREF(module); } module = PyImport_ImportModule("backports_abc"); if (module) { module = __Pyx_patch_abc_module(module); Py_XDECREF(module); } if (!module) { PyErr_Clear(); } } #else if (0) __Pyx_Coroutine_patch_module(NULL, NULL); #endif return 0; } /* Generator */ static PyMethodDef __pyx_Generator_methods[] = { {"send", (PyCFunction) __Pyx_Coroutine_Send, METH_O, (char*) PyDoc_STR("send(arg) -> send 'arg' into generator,\nreturn next yielded value or raise StopIteration.")}, {"throw", (PyCFunction) __Pyx_Coroutine_Throw, METH_VARARGS, (char*) PyDoc_STR("throw(typ[,val[,tb]]) -> raise exception in generator,\nreturn next yielded value or raise StopIteration.")}, {"close", (PyCFunction) __Pyx_Coroutine_Close, METH_NOARGS, (char*) PyDoc_STR("close() -> raise GeneratorExit inside generator.")}, {0, 0, 0, 0} }; static PyMemberDef __pyx_Generator_memberlist[] = { {(char *) "gi_running", T_BOOL, offsetof(__pyx_CoroutineObject, is_running), READONLY, NULL}, {(char*) "gi_yieldfrom", T_OBJECT, offsetof(__pyx_CoroutineObject, yieldfrom), READONLY, (char*) PyDoc_STR("object being iterated by 'yield from', or None")}, {0, 0, 0, 0, 0} }; static PyGetSetDef __pyx_Generator_getsets[] = { {(char *) "__name__", (getter)__Pyx_Coroutine_get_name, (setter)__Pyx_Coroutine_set_name, (char*) PyDoc_STR("name of the generator"), 0}, {(char *) "__qualname__", (getter)__Pyx_Coroutine_get_qualname, (setter)__Pyx_Coroutine_set_qualname, (char*) PyDoc_STR("qualified name of the generator"), 0}, {0, 0, 0, 0, 0} }; static PyTypeObject __pyx_GeneratorType_type = { PyVarObject_HEAD_INIT(0, 0) "generator", sizeof(__pyx_CoroutineObject), 0, (destructor) __Pyx_Coroutine_dealloc, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC | Py_TPFLAGS_HAVE_FINALIZE, 0, (traverseproc) __Pyx_Coroutine_traverse, 0, 0, offsetof(__pyx_CoroutineObject, gi_weakreflist), 0, (iternextfunc) __Pyx_Generator_Next, __pyx_Generator_methods, __pyx_Generator_memberlist, __pyx_Generator_getsets, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #else __Pyx_Coroutine_del, #endif 0, #if PY_VERSION_HEX >= 0x030400a1 __Pyx_Coroutine_del, #endif }; static int __pyx_Generator_init(void) { __pyx_GeneratorType_type.tp_getattro = PyObject_GenericGetAttr; __pyx_GeneratorType_type.tp_iter = PyObject_SelfIter; __pyx_GeneratorType = __Pyx_FetchCommonType(&__pyx_GeneratorType_type); if (unlikely(!__pyx_GeneratorType)) { return -1; } return 0; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* ModuleImport */ #ifndef __PYX_HAVE_RT_ImportModule #define __PYX_HAVE_RT_ImportModule static PyObject *__Pyx_ImportModule(const char *name) { PyObject *py_name = 0; PyObject *py_module = 0; py_name = __Pyx_PyIdentifier_FromString(name); if (!py_name) goto bad; py_module = PyImport_Import(py_name); Py_DECREF(py_name); return py_module; bad: Py_XDECREF(py_name); return 0; } #endif /* TypeImport */ #ifndef __PYX_HAVE_RT_ImportType #define __PYX_HAVE_RT_ImportType static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict) { PyObject *py_module = 0; PyObject *result = 0; PyObject *py_name = 0; char warning[200]; Py_ssize_t basicsize; #ifdef Py_LIMITED_API PyObject *py_basicsize; #endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; py_name = __Pyx_PyIdentifier_FromString(class_name); if (!py_name) goto bad; result = PyObject_GetAttr(py_module, py_name); Py_DECREF(py_name); py_name = 0; Py_DECREF(py_module); py_module = 0; if (!result) goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } #ifndef Py_LIMITED_API basicsize = ((PyTypeObject *)result)->tp_basicsize; #else py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); if (!py_basicsize) goto bad; basicsize = PyLong_AsSsize_t(py_basicsize); Py_DECREF(py_basicsize); py_basicsize = 0; if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) goto bad; #endif if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd", module_name, class_name, basicsize, size); if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; } else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd", module_name, class_name, basicsize, size); goto bad; } return (PyTypeObject *)result; bad: Py_XDECREF(py_module); Py_XDECREF(result); return NULL; } #endif /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/io/octaveh5.py0000644023630100076410000001525013202530306016614 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Python h5 module and octave h5 module have different ways to deal with h5 files. This module is used to make the link between octave and python using such files. (python is using a dictionary and octave a struct ) This module provides tool to set HDF5 file for fasttomo input. Here is an example of a simple read and write : .. code-block:: python :emphasize-lines: 3,5 # writing a structure myStruct = {'MKEEP_MASK': 0.0, 'UNSHARP_SIGMA': 0.80000000000000004 } writer = Octaveh5().open("my_h5file", 'a') writer.write('mt_struct_name', myStruct) # reading a h5 file reader = Octaveh5().open("my_h5file") strucDict = reader.get('mt_struct_name') .. note:: These functions depend on the `h5py `_ library, which is not a mandatory dependency for `silx`. """ import logging logger = logging.getLogger(__name__) import numpy as np try: import h5py except ImportError as e: logger.error("Module " + __name__ + " requires h5py") raise e __authors__ = ["C. Nemoz", "H. Payno"] __license__ = "MIT" __date__ = "05/10/2016" class Octaveh5(object): """This class allows communication between octave and python using hdf5 format. """ def __init__(self, octave_targetted_version=3.8): """Constructor :param octave_targetted_version: the version of Octave for which we want to write this hdf5 file. This is needed because for old Octave version we need to had a hack(adding one extra character) """ self.file = None self.octave_targetted_version = octave_targetted_version def open(self, h5file, mode='r'): """Open the h5 file which has been write by octave :param h5file: The path of the file to read :param mode: the opening mode of the file :'r', 'w'... """ try: self.file = h5py.File(h5file, mode) return self except IOError as e: if mode == 'a': reason = "\n %s: Can t find or create " % h5file else: reason = "\n %s: File not found" % h5file self.file = None logger.info(reason) raise e def get(self, struct_name): """Read octave equivalent structures in hdf5 file :param struct_name: the identification of the top level identity we want to get from an hdf5 structure :return: the dictionnary of the requested struct. None if can t find it """ if self.file is None: info = "No file currently open" logger.info(info) return None data_dict = {} grr = (list(self.file[struct_name].items())[1])[1] try: gr_level2 = grr.items() except AttributeError: reason = "no gr_level2" logger.info(reason) return None for key, val in iter(dict(gr_level2).items()): data_dict[str(key)] = list(val.items())[1][1].value if list(val.items())[0][1].value != np.string_('sq_string'): data_dict[str(key)] = float(data_dict[str(key)]) else: if list(val.items())[0][1].value == np.string_('sq_string'): # in the case the string has been stored as an nd-array of char if type(data_dict[str(key)]) is np.ndarray: data_dict[str(key)] = "".join(chr(item) for item in data_dict[str(key)]) else: data_dict[str(key)] = data_dict[str(key)].decode('UTF-8') # In the case Octave have added an extra character at the end if self.octave_targetted_version < 3.8: data_dict[str(key)] = data_dict[str(key)][:-1] return data_dict def write(self, struct_name, data_dict): """write data_dict under the group struct_name in the open hdf5 file :param struct_name: the identificatioon of the structure to write in the hdf5 :param data_dict: The python dictionnary containing the informations to write """ if self.file is None: info = "No file currently open" logger.info(info) return group_l1 = self.file.create_group(struct_name) group_l1.attrs['OCTAVE_GLOBAL'] = np.uint8(1) group_l1.attrs['OCTAVE_NEW_FORMAT'] = np.uint8(1) group_l1.create_dataset("type", data=np.string_('scalar struct'), dtype="|S14") group_l2 = group_l1.create_group('value') for ftparams in data_dict: group_l3 = group_l2.create_group(ftparams) group_l3.attrs['OCTAVE_NEW_FORMAT'] = np.uint8(1) if type(data_dict[ftparams]) == str: group_l3.create_dataset("type", (), data=np.string_('sq_string'), dtype="|S10") if self.octave_targetted_version < 3.8: group_l3.create_dataset("value", data=np.string_(data_dict[ftparams] + '0')) else: group_l3.create_dataset("value", data=np.string_(data_dict[ftparams])) else: group_l3.create_dataset("type", (), data=np.string_('scalar'), dtype="|S7") group_l3.create_dataset("value", data=data_dict[ftparams]) def close(self): """Close the file after calling read function """ if self.file: self.file.close() def __del__(self): """Destructor """ self.close() silx-0.6.1/silx/sx/0000755023630100076410000000000013202537043014551 5ustar knobelusers00000000000000silx-0.6.1/silx/sx/_plot.py0000644023630100076410000002263113202530432016237 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module adds convenient functions to use plot widgets from the console. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "27/06/2017" import logging import numpy from ..gui.plot import Plot1D, Plot2D from ..gui.plot.Colors import COLORDICT from ..gui.plot.Colormap import Colormap from silx.third_party import six _logger = logging.getLogger(__name__) def plot(*args, **kwargs): """ Plot curves in a dedicated widget. This function supports a subset of matplotlib.pyplot.plot arguments. See: http://matplotlib.org/api/pyplot_api.html#matplotlib.pyplot.plot It opens a silx PlotWindow with its associated tools. Examples: First import :mod:`sx` function: >>> from silx import sx >>> import numpy Plot a single curve given some values: >>> values = numpy.random.random(100) >>> plot_1curve = sx.plot(values, title='Random data') Plot a single curve given the x and y values: >>> angles = numpy.linspace(0, numpy.pi, 100) >>> sin_a = numpy.sin(angles) >>> plot_sinus = sx.plot(angles, sin_a, ... xlabel='angle (radian)', ylabel='sin(a)') Plot many curves by giving a 2D array, provided xn, yn arrays: >>> plot_curves = sx.plot(x0, y0, x1, y1, x2, y2, ...) Plot curve with style giving a style string: >>> plot_styled = sx.plot(x0, y0, 'ro-', x1, y1, 'b.') Supported symbols: - 'o' circle - '.' point - ',' pixel - '+' cross - 'x' x-cross - 'd' diamond - 's' square Supported types of line: - ' ' no line - '-' solid line - '--' dashed line - '-.' dash-dot line - ':' dotted line Remark: The first curve will always be displayed in black no matter the given color. This is because it is selected by default and this is shown by using the black color. If provided, the names arguments color, linestyle, linewidth and marker override any style provided to a curve. :param str color: Color to use for all curves (default: None) :param str linestyle: Type of line to use for all curves (default: None) :param float linewidth: With of all the curves (default: 1) :param str marker: Symbol to use for all the curves (default: None) :param str title: The title of the Plot widget (default: None) :param str xlabel: The label of the X axis (default: None) :param str ylabel: The label of the Y axis (default: None) """ plt = Plot1D() if 'title' in kwargs: plt.setGraphTitle(kwargs['title']) if 'xlabel' in kwargs: plt.getXAxis().setLabel(kwargs['xlabel']) if 'ylabel' in kwargs: plt.getYAxis().setLabel(kwargs['ylabel']) color = kwargs.get('color') linestyle = kwargs.get('linestyle') linewidth = kwargs.get('linewidth') marker = kwargs.get('marker') # Parse args and store curves as (x, y, style string) args = list(args) curves = [] while args: first_arg = args.pop(0) # Process an arg if len(args) == 0: # Last curve defined as (y,) curves.append((numpy.arange(len(first_arg)), first_arg, None)) else: second_arg = args.pop(0) if isinstance(second_arg, six.string_types): # curve defined as (y, style) y = first_arg style = second_arg curves.append((numpy.arange(len(y)), y, style)) else: # second_arg must be an array-like x = first_arg y = second_arg if len(args) >= 1 and isinstance(args[0], six.string_types): # Curve defined as (x, y, style) style = args.pop(0) curves.append((x, y, style)) else: # Curve defined as (x, y) curves.append((x, y, None)) for index, curve in enumerate(curves): x, y, style = curve # Default style curve_symbol, curve_linestyle, curve_color = None, None, None # Parse style if style: # Handle color first possible_colors = [c for c in COLORDICT if style.startswith(c)] if possible_colors: # Take the longest string matching a color name curve_color = possible_colors[0] for c in possible_colors[1:]: if len(c) > len(curve_color): curve_color = c style = style[len(curve_color):] if style: # Run twice to handle inversion symbol/linestyle for _i in range(2): # Handle linestyle for line in (' ', '--', '-', '-.', ':'): if style.endswith(line): curve_linestyle = line style = style[:-len(line)] break # Handle symbol for curve_marker in ('o', '.', ',', '+', 'x', 'd', 's'): if style.endswith(curve_marker): curve_symbol = style[-1] style = style[:-1] break # As in matplotlib, marker, linestyle and color override other style plt.addCurve(x, y, legend=('curve_%d' % index), symbol=marker or curve_symbol, linestyle=linestyle or curve_linestyle, linewidth=linewidth, color=color or curve_color) plt.show() return plt def imshow(data=None, cmap=None, norm=Colormap.LINEAR, vmin=None, vmax=None, aspect=False, origin=(0., 0.), scale=(1., 1.), title='', xlabel='X', ylabel='Y'): """Plot an image in a dedicated widget. This function supports a subset of matplotlib.pyplot.imshow arguments. See: http://matplotlib.org/api/pyplot_api.html#matplotlib.pyplot.imshow It opens a silx PlotWindow with its associated tools. Example to plot an image: >>> from silx import sx >>> import numpy >>> data = numpy.random.random(1024 * 1024).reshape(1024, 1024) >>> plt = sx.imshow(data, title='Random data') :param data: data to plot as an image :type data: numpy.ndarray-like with 2 dimensions :param str cmap: The name of the colormap to use for the plot. :param str norm: The normalization of the colormap: 'linear' (default) or 'log' :param float vmin: The value to use for the min of the colormap :param float vmax: The value to use for the max of the colormap :param bool aspect: True to keep aspect ratio (Default: False) :param origin: (ox, oy) The coordinates of the image origin in the plot :type origin: 2-tuple of floats :param scale: (sx, sy) The scale of the image in the plot (i.e., the size of the image's pixel in plot coordinates) :type scale: 2-tuple of floats :param str title: The title of the Plot widget :param str xlabel: The label of the X axis :param str ylabel: The label of the Y axis """ plt = Plot2D() plt.setGraphTitle(title) plt.getXAxis().setLabel(xlabel) plt.getYAxis().setLabel(ylabel) # Update default colormap with input parameters colormap = plt.getDefaultColormap() if cmap is not None: colormap.setName(cmap) assert norm in Colormap.NORMALIZATIONS colormap.setNormalization(norm) colormap.setVMin(vmin) colormap.setVMax(vmax) plt.setDefaultColormap(colormap) # Handle aspect if aspect in (None, False, 'auto', 'normal'): plt.setKeepDataAspectRatio(False) elif aspect in (True, 'equal') or aspect == 1: plt.setKeepDataAspectRatio(True) else: _logger.warning( 'imshow: Unhandled aspect argument: %s', str(aspect)) if data is not None: data = numpy.array(data, copy=True) assert data.ndim in (2, 3) # data or RGB(A) if data.ndim == 3: assert data.shape[-1] in (3, 4) # RGB(A) image plt.addImage(data, origin=origin, scale=scale) plt.show() return plt silx-0.6.1/silx/sx/__init__.py0000644023630100076410000000627613202530432016670 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Convenient module to use main features of silx from the console. Usage from (I)Python console or notebook: >>> from silx import sx With IPython/jupyter, this also runs %pylab. From the console, it sets-up Qt in order to allow using GUI widgets. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "16/01/2017" import logging import sys as _sys _logger = logging.getLogger(__name__) # Init logging when used from the console if hasattr(_sys, 'ps1'): logging.basicConfig() # Probe ipython try: from IPython import get_ipython as _get_ipython except (NameError, ImportError): _get_ipython = None # Probe ipython/jupyter notebook if _get_ipython is not None and _get_ipython() is not None: # Notebook detection probably fragile _IS_NOTEBOOK = ('parent_appname' in _get_ipython().config['IPKernelApp'] or hasattr(_get_ipython(), 'kernel')) else: _IS_NOTEBOOK = False # Load Qt and widgets only if running from console if _IS_NOTEBOOK: _logger.warning( 'Not loading silx.gui features: Running from the notebook') else: from silx.gui import qt if hasattr(_sys, 'ps1'): # If from console, make sure QApplication runs qapp = qt.QApplication.instance() or qt.QApplication([]) # Change windows default icon from silx.gui import icons as _icons qapp.setWindowIcon(_icons.getQIcon('silx')) del _icons # clean-up namespace from silx.gui.plot import * # noqa from ._plot import plot, imshow # noqa # %pylab if _get_ipython is not None and _get_ipython() is not None: _get_ipython().enable_pylab(gui='inline' if _IS_NOTEBOOK else 'qt') # Clean-up del _sys del _get_ipython del _IS_NOTEBOOK # Load some silx stuff in namespace from silx import * # noqa from silx.io import open # noqa from silx.io import * # noqa from silx.math import Histogramnd, HistogramndLut # noqa from silx.math.fit import leastsq # noqa silx-0.6.1/silx/opencl/0000755023630100076410000000000013202537043015377 5ustar knobelusers00000000000000silx-0.6.1/silx/opencl/test/0000755023630100076410000000000013202537043016356 5ustar knobelusers00000000000000silx-0.6.1/silx/opencl/test/test_array_utils.py0000644023630100076410000001414113202530432022321 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test of the OpenCL array_utils""" from __future__ import division, print_function __authors__ = ["Pierre paleo"] __license__ = "MIT" __copyright__ = "2013-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "14/06/2017" import time import logging import numpy as np import unittest try: import mako except ImportError: mako = None from ..common import ocl if ocl: import pyopencl as cl import pyopencl.array as parray from .. import linalg from ..utils import get_opencl_code from silx.test.utils import utilstest logger = logging.getLogger(__name__) try: from scipy.ndimage.filters import laplace _has_scipy = True except ImportError: _has_scipy = False @unittest.skipUnless(ocl and mako, "PyOpenCl is missing") class TestCpy2d(unittest.TestCase): def setUp(self): if ocl is None: return self.ctx = ocl.create_context() if logger.getEffectiveLevel() <= logging.INFO: self.PROFILE = True self.queue = cl.CommandQueue( self.ctx, properties=cl.command_queue_properties.PROFILING_ENABLE) else: self.PROFILE = False self.queue = cl.CommandQueue(self.ctx) self.allocate_arrays() self.program = cl.Program(self.ctx, get_opencl_code("array_utils")).build() def allocate_arrays(self): """ Allocate various types of arrays for the tests """ self.prng_state = np.random.get_state() # Generate arrays of random shape self.shape1 = np.random.randint(20, high=512, size=(2,)) self.shape2 = np.random.randint(20, high=512, size=(2,)) self.array1 = np.random.rand(*self.shape1).astype(np.float32) self.array2 = np.random.rand(*self.shape2).astype(np.float32) self.d_array1 = parray.to_device(self.queue, self.array1) self.d_array2 = parray.to_device(self.queue, self.array2) # Generate random offsets offset1_y = np.random.randint(2, high=min(self.shape1[0], self.shape2[0]) - 10) offset1_x = np.random.randint(2, high=min(self.shape1[1], self.shape2[1]) - 10) offset2_y = np.random.randint(2, high=min(self.shape1[0], self.shape2[0]) - 10) offset2_x = np.random.randint(2, high=min(self.shape1[1], self.shape2[1]) - 10) self.offset1 = (offset1_y, offset1_x) self.offset2 = (offset2_y, offset2_x) # Compute the size of the rectangle to transfer size_y = np.random.randint(2, high=min(self.shape1[0], self.shape2[0]) - max(offset1_y, offset2_y) + 1) size_x = np.random.randint(2, high=min(self.shape1[1], self.shape2[1]) - max(offset1_x, offset2_x) + 1) self.transfer_shape = (size_y, size_x) def tearDown(self): self.array1 = None self.array2 = None self.d_array1.data.release() self.d_array2.data.release() self.d_array1 = None self.d_array2 = None self.ctx = None self.queue = None def compare(self, result, reference): errmax = np.max(np.abs(result - reference)) logger.info("Max error = %e" % (errmax)) self.assertTrue(errmax == 0, str("Max error is too high"))#. PRNG state was %s" % str(self.prng_state))) @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_cpy2d(self): """ Test rectangular transfer of self.d_array1 to self.d_array2 """ # Reference o1 = self.offset1 o2 = self.offset2 T = self.transfer_shape logger.info("""Testing D->D rectangular copy with (N1_y, N1_x) = %s, (N2_y, N2_x) = %s: array2[%d:%d, %d:%d] = array1[%d:%d, %d:%d]""" % ( str(self.shape1), str(self.shape2), o2[0], o2[0] + T[0], o2[1], o2[1] + T[1], o1[0], o1[0] + T[0], o1[1], o1[1] + T[1] ) ) self.array2[o2[0]:o2[0] + T[0], o2[1]:o2[1] + T[1]] = self.array1[o1[0]:o1[0] + T[0], o1[1]:o1[1] + T[1]] kernel_args = ( self.d_array2.data, self.d_array1.data, np.int32(self.shape2[1]), np.int32(self.shape1[1]), np.int32(self.offset2[::-1]), np.int32(self.offset1[::-1]), np.int32(self.transfer_shape[::-1]) ) wg = None ndrange = self.transfer_shape[::-1] self.program.cpy2d(self.queue, ndrange, wg, *kernel_args) res = self.d_array2.get() self.compare(res, self.array2) def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestCpy2d("test_cpy2d")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/opencl/test/test_projection.py0000644023630100076410000001073513202530432022144 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test of the forward projection module""" from __future__ import division, print_function __authors__ = ["Pierre paleo"] __license__ = "MIT" __copyright__ = "2013-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "14/06/2017" import time import logging import numpy as np import unittest try: import mako except ImportError: mako = None from ..common import ocl if ocl: from .. import projection from silx.test.utils import utilstest logger = logging.getLogger(__name__) @unittest.skipUnless(ocl and mako, "PyOpenCl is missing") class TestProj(unittest.TestCase): def setUp(self): if ocl is None: return #~ if sys.platform.startswith('darwin'): #~ self.skipTest("Projection is not implemented on CPU for OS X yet") self.getfiles() n_angles = self.sino.shape[0] self.proj = projection.Projection(self.phantom.shape, n_angles) if self.proj.compiletime_workgroup_size < 16: self.skipTest("Current implementation of OpenCL projection is not supported on this platform yet") def tearDown(self): self.phantom = None self.sino = None self.proj = None def getfiles(self): # load 512x512 MRI phantom self.phantom = np.load(utilstest.getfile("Brain512.npz"))["data"] # load sinogram computed with PyHST self.sino = np.load(utilstest.getfile("sino500_pyhst.npz"))["data"] def measure(self): "Common measurement of timings" t1 = time.time() try: result = self.proj.projection(self.phantom) except RuntimeError as msg: logger.error(msg) return t2 = time.time() return t2 - t1, result def compare(self, res): """ Compare a result with the reference reconstruction. Only the valid reconstruction zone (inscribed circle) is taken into account """ # Compare with the original phantom. # TODO: compare a standard projection ref = self.sino return np.max(np.abs(res - ref)) @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_proj(self): """ tests Projection """ # Test single reconstruction # -------------------------- t, res = self.measure() if t is None: logger.info("test_proj: skipped") else: logger.info("test_proj: time = %.3fs" % t) err = self.compare(res) msg = str("Max error = %e" % err) logger.info(msg) # Interpolation differs at some lines, giving relative error of 10/50000 self.assertTrue(err < 20., "Max error is too high") # Test multiple reconstructions # ----------------------------- res0 = np.copy(res) for i in range(10): res = self.proj.projection(self.phantom) errmax = np.max(np.abs(res - res0)) self.assertTrue(errmax < 1.e-6, "Max error is too high") def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestProj("test_proj")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/opencl/test/test_backprojection.py0000644023630100076410000001314213202530432022760 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test of the filtered backprojection module""" from __future__ import division, print_function __authors__ = ["Pierre paleo"] __license__ = "MIT" __copyright__ = "2013-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "05/10/2017" import time import logging import numpy import unittest try: import mako except ImportError: mako = None from ..common import ocl if ocl: from .. import backprojection from silx.test.utils import utilstest logger = logging.getLogger(__name__) def generate_coords(img_shp, center=None): """ Return two 2D arrays containing the indexes of an image. The zero is at the center of the image. """ l_r, l_c = float(img_shp[0]), float(img_shp[1]) R, C = numpy.mgrid[:l_r, :l_c] if center is None: center0, center1 = l_r / 2., l_c / 2. else: center0, center1 = center R = R + 0.5 - center0 C = C + 0.5 - center1 return R, C def clip_circle(img, center=None, radius=None): """ Puts zeros outside the inscribed circle of the image support. """ R, C = generate_coords(img.shape, center) M = R * R + C * C res = numpy.zeros_like(img) if radius is None: radius = img.shape[0] / 2. - 1 mask = M < radius * radius res[mask] = img[mask] return res @unittest.skipUnless(ocl and mako, "PyOpenCl is missing") class TestFBP(unittest.TestCase): def setUp(self): if ocl is None: return # ~ if sys.platform.startswith('darwin'): # ~ self.skipTest("Backprojection is not implemented on CPU for OS X yet") self.getfiles() self.fbp = backprojection.Backprojection(self.sino.shape, profile=True) if self.fbp.compiletime_workgroup_size < 16: self.skipTest("Current implementation of OpenCL backprojection is not supported on this platform yet") def tearDown(self): self.sino = None # self.fbp.log_profile() self.fbp = None def getfiles(self): # load sinogram of 512x512 MRI phantom self.sino = numpy.load(utilstest.getfile("sino500.npz"))["data"] # load reconstruction made with ASTRA FBP (with filter designed in spatial domain) self.reference_rec = numpy.load(utilstest.getfile("rec_astra_500.npz"))["data"] def measure(self): "Common measurement of timings" t1 = time.time() try: result = self.fbp.filtered_backprojection(self.sino) except RuntimeError as msg: logger.error(msg) return t2 = time.time() return t2 - t1, result def compare(self, res): """ Compare a result with the reference reconstruction. Only the valid reconstruction zone (inscribed circle) is taken into account """ res_clipped = clip_circle(res) ref_clipped = clip_circle(self.reference_rec) delta = abs(res_clipped - ref_clipped) bad = delta > 1 # numpy.save("/tmp/bad.npy", bad.astype(int)) logger.debug("Absolute difference: %s with %s outlier pixels out of %s", delta.max(), bad.sum(), numpy.prod(bad.shape)) return delta.max() @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_fbp(self): """ tests FBP """ # Test single reconstruction # -------------------------- t, res = self.measure() if t is None: logger.info("test_fp: skipped") else: logger.info("test_backproj: time = %.3fs" % t) err = self.compare(res) msg = str("Max error = %e" % err) logger.info(msg) # TODO: cannot do better than 1e0 ? # The plain backprojection was much better, so it must be an issue in the filtering process self.assertTrue(err < 1., "Max error is too high") # Test multiple reconstructions # ----------------------------- res0 = numpy.copy(res) for i in range(10): res = self.fbp.filtered_backprojection(self.sino) errmax = numpy.max(numpy.abs(res - res0)) self.assertTrue(errmax < 1.e-6, "Max error is too high") def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestFBP("test_fbp")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/opencl/test/test_medfilt.py0000644023630100076410000001240213202530432021405 0ustar knobelusers00000000000000#!/usr/bin/env python # -*- coding: utf-8 -*- # # Project: Median filter of images + OpenCL # https://github.com/silx-kit/silx # # Permission is hereby granted, free of charge, to any person # obtaining a copy of this software and associated documentation # files (the "Software"), to deal in the Software without # restriction, including without limitation the rights to use, # copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the # Software is furnished to do so, subject to the following # conditions: # # The above copyright notice and this permission notice shall be # included in all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, # EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES # OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND # NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT # HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING # FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR # OTHER DEALINGS IN THE SOFTWARE. """ Simple test of the median filter """ from __future__ import division, print_function __authors__ = ["Jérôme Kieffer"] __contact__ = "jerome.kieffer@esrf.eu" __license__ = "MIT" __copyright__ = "2013-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "15/03/2017" import sys import time import logging import numpy import unittest from collections import namedtuple try: import mako except ImportError: mako = None from ..common import ocl if ocl: import pyopencl import pyopencl.array from .. import medfilt logger = logging.getLogger(__name__) Result = namedtuple("Result", ["size", "error", "sp_time", "oc_time"]) try: from scipy.misc import ascent except: def ascent(): """Dummy image from random data""" return numpy.random.random((512, 512)) try: from scipy.ndimage import filters median_filter = filters.median_filter HAS_SCIPY = True except: HAS_SCIPY = False from silx.math import medfilt2d as median_filter @unittest.skipUnless(ocl and mako, "PyOpenCl is missing") class TestMedianFilter(unittest.TestCase): def setUp(self): if ocl is None: return self.data = ascent().astype(numpy.float32) self.medianfilter = medfilt.MedianFilter2D(self.data.shape, devicetype="gpu") def tearDown(self): self.data = None self.medianfilter = None def measure(self, size): "Common measurement of accuracy and timings" t0 = time.time() if HAS_SCIPY: ref = median_filter(self.data, size, mode="nearest") else: ref = median_filter(self.data, size) t1 = time.time() try: got = self.medianfilter.medfilt2d(self.data, size) except RuntimeError as msg: logger.error(msg) return t2 = time.time() delta = abs(got - ref).max() return Result(size, delta, t1 - t0, t2 - t1) @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_medfilt(self): """ tests the median filter kernel """ r = self.measure(size=11) if r is None: logger.info("test_medfilt: size: %s: skipped") else: logger.info("test_medfilt: size: %s error %s, t_ref: %.3fs, t_ocl: %.3fs" % r) self.assert_(r.error == 0, 'Results are correct') def benchmark(self, limit=36): "Run some benchmarking" try: import PyQt5 from ...gui.matplotlib import pylab from ...gui.utils import update_fig except: pylab = None def update_fig(*ag, **kwarg): pass fig = pylab.figure() fig.suptitle("Median filter of an image 512x512") sp = fig.add_subplot(1, 1, 1) sp.set_title(self.medianfilter.ctx.devices[0].name) sp.set_xlabel("Window width & height") sp.set_ylabel("Execution time (s)") sp.set_xlim(2, limit + 1) sp.set_ylim(0, 4) data_size = [] data_scipy = [] data_opencl = [] plot_sp = sp.plot(data_size, data_scipy, "-or", label="scipy")[0] plot_opencl = sp.plot(data_size, data_opencl, "-ob", label="opencl")[0] sp.legend(loc=2) fig.show() update_fig(fig) for s in range(3, limit, 2): r = self.measure(s) print(r) if r.error == 0: data_size.append(s) data_scipy.append(r.sp_time) data_opencl.append(r.oc_time) plot_sp.set_data(data_size, data_scipy) plot_opencl.set_data(data_size, data_opencl) update_fig(fig) fig.show() if sys.version_info[0] < 3: raw_input() else: input() def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestMedianFilter("test_medfilt")) return testSuite def benchmark(): testSuite = unittest.TestSuite() testSuite.addTest(TestMedianFilter("benchmark")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/opencl/test/__init__.py0000644023630100076410000000415013202530432020462 0ustar knobelusers00000000000000# -*- coding: utf-8 -*- # # Project: silx # https://github.com/silx-kit/silx # # Copyright (C) 2012-2016 European Synchrotron Radiation Facility, Grenoble, France # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. __authors__ = ["J. Kieffer"] __license__ = "MIT" __date__ = "01/09/2017" import os import unittest from . import test_addition from . import test_medfilt from . import test_backprojection from . import test_projection from . import test_linalg from . import test_array_utils def suite(): test_suite = unittest.TestSuite() test_suite.addTests(test_addition.suite()) test_suite.addTests(test_medfilt.suite()) test_suite.addTests(test_backprojection.suite()) test_suite.addTests(test_projection.suite()) test_suite.addTests(test_linalg.suite()) test_suite.addTests(test_array_utils.suite()) # Allow to remove sift from the project test_base_dir = os.path.dirname(__file__) sift_dir = os.path.join(test_base_dir, "..", "sift") if os.path.exists(sift_dir): from ..sift import test as test_sift test_suite.addTests(test_sift.suite()) return test_suite silx-0.6.1/silx/opencl/test/test_linalg.py0000644023630100076410000002041313202530432021230 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test of the linalg module""" from __future__ import division, print_function __authors__ = ["Pierre paleo"] __license__ = "MIT" __copyright__ = "2013-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "14/06/2017" import time import logging import numpy as np import unittest try: import mako except ImportError: mako = None from ..common import ocl if ocl: import pyopencl as cl import pyopencl.array as parray from .. import linalg from silx.test.utils import utilstest logger = logging.getLogger(__name__) try: from scipy.ndimage.filters import laplace _has_scipy = True except ImportError: _has_scipy = False # TODO move this function in math or image ? def gradient(img): ''' Compute the gradient of an image as a numpy array Code from https://github.com/emmanuelle/tomo-tv/ ''' shape = [img.ndim, ] + list(img.shape) gradient = np.zeros(shape, dtype=img.dtype) slice_all = [0, slice(None, -1),] for d in range(img.ndim): gradient[slice_all] = np.diff(img, axis=d) slice_all[0] = d + 1 slice_all.insert(1, slice(None)) return gradient # TODO move this function in math or image ? def divergence(grad): ''' Compute the divergence of a gradient Code from https://github.com/emmanuelle/tomo-tv/ ''' res = np.zeros(grad.shape[1:]) for d in range(grad.shape[0]): this_grad = np.rollaxis(grad[d], d) this_res = np.rollaxis(res, d) this_res[:-1] += this_grad[:-1] this_res[1:-1] -= this_grad[:-2] this_res[-1] -= this_grad[-2] return res @unittest.skipUnless(ocl and mako, "PyOpenCl is missing") class TestLinAlg(unittest.TestCase): def setUp(self): if ocl is None: return self.getfiles() self.la = linalg.LinAlg(self.image.shape) self.allocate_arrays() def allocate_arrays(self): """ Allocate various types of arrays for the tests """ # numpy images self.grad = np.zeros(self.image.shape, dtype=np.complex64) self.grad2 = np.zeros((2,) + self.image.shape, dtype=np.float32) self.grad_ref = gradient(self.image) self.div_ref = divergence(self.grad_ref) self.image2 = np.zeros_like(self.image) # Device images self.gradient_parray = parray.zeros(self.la.queue, self.image.shape, np.complex64) # we should be using cl.Buffer(self.la.ctx, cl.mem_flags.READ_WRITE, size=self.image.nbytes*2), # but platforms not suporting openCL 1.2 have a problem with enqueue_fill_buffer, # so we use the parray "fill" utility self.gradient_buffer = self.gradient_parray.data # Do the same for image self.image_parray = parray.to_device(self.la.queue, self.image) self.image_buffer = self.image_parray.data # Refs tmp = np.zeros(self.image.shape, dtype=np.complex64) tmp.real = np.copy(self.grad_ref[0]) tmp.imag = np.copy(self.grad_ref[1]) self.grad_ref_parray = parray.to_device(self.la.queue, tmp) self.grad_ref_buffer = self.grad_ref_parray.data def tearDown(self): self.image = None self.image2 = None self.grad = None self.grad2 = None self.grad_ref = None self.div_ref = None self.gradient_parray.data.release() self.gradient_parray = None self.gradient_buffer = None self.image_parray.data.release() self.image_parray = None self.image_buffer = None self.grad_ref_parray.data.release() self.grad_ref_parray = None self.grad_ref_buffer = None def getfiles(self): # load 512x512 MRI phantom - TODO include Lena or ascent once a .npz is available self.image = np.load(utilstest.getfile("Brain512.npz"))["data"] def compare(self, result, reference, abstol, name): errmax = np.max(np.abs(result - reference)) logger.info("%s: Max error = %e" % (name, errmax)) self.assertTrue(errmax < abstol, str("%s: Max error is too high" % name)) @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_gradient(self): arrays = { "numpy.ndarray": self.image, "buffer": self.image_buffer, "parray": self.image_parray } for desc, image in arrays.items(): # Test with dst on host (numpy.ndarray) res = self.la.gradient(image, return_to_host=True) self.compare(res, self.grad_ref, 1e-6, str("gradient[src=%s, dst=numpy.ndarray]" % desc)) # Test with dst on device (pyopencl.Buffer) self.la.gradient(image, dst=self.gradient_buffer) cl.enqueue_copy(self.la.queue, self.grad, self.gradient_buffer) self.grad2[0] = self.grad.real self.grad2[1] = self.grad.imag self.compare(self.grad2, self.grad_ref, 1e-6, str("gradient[src=%s, dst=buffer]" % desc)) # Test with dst on device (pyopencl.Array) self.la.gradient(image, dst=self.gradient_parray) self.grad = self.gradient_parray.get() self.grad2[0] = self.grad.real self.grad2[1] = self.grad.imag self.compare(self.grad2, self.grad_ref, 1e-6, str("gradient[src=%s, dst=parray]" % desc)) @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_divergence(self): arrays = { "numpy.ndarray": self.grad_ref, "buffer": self.grad_ref_buffer, "parray": self.grad_ref_parray } for desc, grad in arrays.items(): # Test with dst on host (numpy.ndarray) res = self.la.divergence(grad, return_to_host=True) self.compare(res, self.div_ref, 1e-6, str("divergence[src=%s, dst=numpy.ndarray]" % desc)) # Test with dst on device (pyopencl.Buffer) self.la.divergence(grad, dst=self.image_buffer) cl.enqueue_copy(self.la.queue, self.image2, self.image_buffer) self.compare(self.image2, self.div_ref, 1e-6, str("divergence[src=%s, dst=buffer]" % desc)) # Test with dst on device (pyopencl.Array) self.la.divergence(grad, dst=self.image_parray) self.image2 = self.image_parray.get() self.compare(self.image2, self.div_ref, 1e-6, str("divergence[src=%s, dst=parray]" % desc)) @unittest.skipUnless(ocl and mako and _has_scipy, "pyopencl and/or scipy is missing") def test_laplacian(self): laplacian_ref = laplace(self.image) # Laplacian = div(grad) self.la.gradient(self.image) laplacian_ocl = self.la.divergence(self.la.d_gradient, return_to_host=True) self.compare(laplacian_ocl, laplacian_ref, 1e-6, "laplacian") def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestLinAlg("test_gradient")) testSuite.addTest(TestLinAlg("test_divergence")) testSuite.addTest(TestLinAlg("test_laplacian")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/opencl/test/test_addition.py0000644023630100076410000001200413202530432021552 0ustar knobelusers00000000000000#!/usr/bin/env python # -*- coding: utf-8 -*- # # Project: Sift implementation in Python + OpenCL # https://github.com/silx-kit/silx # # Permission is hereby granted, free of charge, to any person # obtaining a copy of this software and associated documentation # files (the "Software"), to deal in the Software without # restriction, including without limitation the rights to use, # copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the # Software is furnished to do so, subject to the following # conditions: # # The above copyright notice and this permission notice shall be # included in all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, # EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES # OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND # NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT # HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING # FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR # OTHER DEALINGS IN THE SOFTWARE. """ Simple test of an addition """ from __future__ import division, print_function __authors__ = ["Henri Payno, Jérôme Kieffer"] __contact__ = "jerome.kieffer@esrf.eu" __license__ = "MIT" __copyright__ = "2013 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "15/03/2017" import logging import numpy import unittest from ..common import ocl, _measure_workgroup_size if ocl: import pyopencl import pyopencl.array from ..utils import get_opencl_code logger = logging.getLogger(__name__) @unittest.skipUnless(ocl, "PyOpenCl is missing") class TestAddition(unittest.TestCase): @classmethod def setUpClass(cls): super(TestAddition, cls).setUpClass() if ocl: cls.ctx = ocl.create_context() if logger.getEffectiveLevel() <= logging.INFO: cls.PROFILE = True cls.queue = pyopencl.CommandQueue( cls.ctx, properties=pyopencl.command_queue_properties.PROFILING_ENABLE) else: cls.PROFILE = False cls.queue = pyopencl.CommandQueue(cls.ctx) cls.max_valid_wg = 0 @classmethod def tearDownClass(cls): super(TestAddition, cls).tearDownClass() print("Maximum valid workgroup size %s on device %s" % (cls.max_valid_wg, cls.ctx.devices[0])) cls.ctx = None cls.queue = None def setUp(self): if ocl is None: return self.shape = 4096 self.data = numpy.random.random(self.shape).astype(numpy.float32) self.d_array_img = pyopencl.array.to_device(self.queue, self.data) self.d_array_5 = pyopencl.array.zeros_like(self.d_array_img) - 5 self.program = pyopencl.Program(self.ctx, get_opencl_code("addition")).build() def tearDown(self): self.img = self.data = None self.d_array_img = self.d_array_5 = self.program = None @unittest.skipUnless(ocl, "pyopencl is missing") def test_add(self): """ tests the addition kernel """ maxi = int(round(numpy.log2(self.shape))) for i in range(maxi): d_array_result = pyopencl.array.empty_like(self.d_array_img) wg = 1 << i try: evt = self.program.addition(self.queue, (self.shape,), (wg,), self.d_array_img.data, self.d_array_5.data, d_array_result.data, numpy.int32(self.shape)) evt.wait() except Exception as error: max_valid_wg = self.program.addition.get_work_group_info(pyopencl.kernel_work_group_info.WORK_GROUP_SIZE, self.ctx.devices[0]) msg = "Error %s on WG=%s: %s" % (error, wg, max_valid_wg) self.assertLess(max_valid_wg, wg, msg) break else: res = d_array_result.get() good = numpy.allclose(res, self.data - 5) if good and wg>self.max_valid_wg: self.__class__.max_valid_wg = wg self.assert_(good, "calculation is correct for WG=%s" % wg) @unittest.skipUnless(ocl, "pyopencl is missing") def test_measurement(self): """ tests that all devices are working properly ... """ for platform in ocl.platforms: for did, device in enumerate(platform.devices): meas = _measure_workgroup_size((platform.id, device.id)) self.assertEqual(meas, device.max_work_group_size, "Workgroup size for %s/%s: %s == %s" % (platform, device, meas, device.max_work_group_size)) def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestAddition("test_add")) testSuite.addTest(TestAddition("test_measurement")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/opencl/linalg.py0000644023630100076410000002155213202530432017217 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module for basic linear algebra in OpenCL""" from __future__ import absolute_import, print_function, with_statement, division __authors__ = ["P. Paleo"] __license__ = "MIT" __date__ = "10/08/2017" import numpy as np from .common import pyopencl from .processing import EventDescription, OpenclProcessing import pyopencl.array as parray cl = pyopencl class LinAlg(OpenclProcessing): kernel_files = ["linalg.cl"] def __init__(self, shape, do_checks=False, ctx=None, devicetype="all", platformid=None, deviceid=None, profile=False): """ Create a "Linear Algebra" plan for a given image shape. :param shape: shape of the image (num_rows, num_columns) :param do_checks (optional): if True, memory and data type checks are performed when possible. :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) """ OpenclProcessing.__init__(self, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, profile=profile) self.d_gradient = parray.zeros(self.queue, shape, np.complex64) self.d_image = parray.zeros(self.queue, shape, np.float32) self.add_to_cl_mem({ "d_gradient": self.d_gradient, "d_image": self.d_image }) self.wg2D = None self.shape = shape self.ndrange2D = ( int(self.shape[1]), int(self.shape[0]) ) self.do_checks = bool(do_checks) OpenclProcessing.compile_kernels(self, self.kernel_files) @staticmethod def check_array(array, dtype, shape, arg_name): if array.shape != shape or array.dtype != dtype: raise ValueError("%s should be a %s array of type %s" %(arg_name, str(shape), str(dtype))) def get_data_references(self, src, dst, default_src_ref, default_dst_ref): """ From various types of src and dst arrays, returns the references to the underlying data (Buffer) that will be used by the OpenCL kernels. # TODO documentation This function will make a copy host->device if the input is on host (eg. numpy array) """ if dst is not None: if isinstance(dst, cl.array.Array): dst_ref = dst.data elif isinstance(dst, cl.Buffer): dst_ref = dst else: raise ValueError("dst should be either pyopencl.array.Array or pyopencl.Buffer") else: dst_ref = default_dst_ref if isinstance(src, cl.array.Array): src_ref = src.data elif isinstance(src, cl.Buffer): src_ref = src else: # assuming numpy.ndarray evt = cl.enqueue_copy(self.queue, default_src_ref, src) self.events.append(EventDescription("copy H->D", evt)) src_ref = default_src_ref return src_ref, dst_ref def gradient(self, image, dst=None, return_to_host=False): """ Compute the spatial gradient of an image. The gradient is computed with first-order difference (not central difference). :param image: image to compute the gradient from. It can be either a numpy.ndarray, a pyopencl Array or Buffer. :param dst: optional, reference to a destination pyopencl Array or Buffer. It must be of complex64 data type. :param return_to_host: optional, set to True if you want the result to be transferred back to host. if dst is provided, it should be of type numpy.complex64 ! """ n_y, n_x = np.int32(self.shape) if self.do_checks: self.check_array(image, np.float32, self.shape, "image") if dst is not None: self.check_array(dst, np.complex64, self.shape, "dst") img_ref, grad_ref = self.get_data_references(image, dst, self.d_image.data, self.d_gradient.data) # Prepare the kernel call kernel_args = [ img_ref, grad_ref, n_x, n_y ] # Call the gradient kernel evt = self.kernels.kern_gradient2D( self.queue, self.ndrange2D, self.wg2D, *kernel_args ) self.events.append(EventDescription("gradient2D", evt)) # TODO: should the wait be done in any case ? # In the case where dst=None, the wait() is mandatory since a user will be doing arithmetic on dst afterwards if dst is None: evt.wait() if return_to_host: if dst is not None: res_tmp = self.d_gradient.get() else: res_tmp = np.zeros(self.shape, dtype=np.complex64) cl.enqueue_copy(self.queue, res_tmp, grad_ref) res = np.zeros((2,) + self.shape, dtype=np.float32) res[0] = np.copy(res_tmp.real) res[1] = np.copy(res_tmp.imag) return res else: return dst def divergence(self, gradient, dst=None, return_to_host=False): """ Compute the spatial divergence of an image. The divergence is designed to be the (negative) adjoint of the gradient. :param gradient: gradient-like array to compute the divergence from. It can be either a numpy.ndarray, a pyopencl Array or Buffer. :param dst: optional, reference to a destination pyopencl Array or Buffer. It must be of complex64 data type. :param return_to_host: optional, set to True if you want the result to be transferred back to host. if dst is provided, it should be of type numpy.complex64 ! """ n_y, n_x = np.int32(self.shape) # numpy.ndarray gradients are expected to be (2, n_y, n_x) if isinstance(gradient, np.ndarray): gradient2 = np.zeros(self.shape, dtype=np.complex64) gradient2.real = np.copy(gradient[0]) gradient2.imag = np.copy(gradient[1]) gradient = gradient2 elif self.do_checks: self.check_array(gradient, np.complex64, self.shape, "gradient") if dst is not None: self.check_array(dst, np.float32, self.shape, "dst") grad_ref, img_ref = self.get_data_references(gradient, dst, self.d_gradient.data, self.d_image.data) # Prepare the kernel call kernel_args = [ grad_ref, img_ref, n_x, n_y ] # Call the gradient kernel evt = self.kernels.kern_divergence2D( self.queue, self.ndrange2D, self.wg2D, *kernel_args ) self.events.append(EventDescription("divergence2D", evt)) # TODO: should the wait be done in any case ? # In the case where dst=None, the wait() is mandatory since a user will be doing arithmetic on dst afterwards if dst is None: evt.wait() if return_to_host: if dst is not None: res = self.d_image.get() else: res = np.zeros(self.shape, dtype=np.float32) cl.enqueue_copy(self.queue, res, img_ref) return res else: return dst silx-0.6.1/silx/opencl/utils.py0000644023630100076410000001010613202530432017102 0ustar knobelusers00000000000000# -*- coding: utf-8 -*- # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Project: Sift implementation in Python + OpenCL https://github.com/silx-kit/silx """ from __future__ import division __authors__ = ["Jérôme Kieffer", "Pierre Paleo"] __contact__ = "jerome.kieffer@esrf.eu" __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" __date__ = "06/09/2017" __status__ = "Production" import os import numpy from .. import resources from math import log, ceil def calc_size(shape, blocksize): """ Calculate the optimal size for a kernel according to the workgroup size """ if "__len__" in dir(blocksize): return tuple((int(i) + int(j) - 1) & ~(int(j) - 1) for i, j in zip(shape, blocksize)) else: return tuple((int(i) + int(blocksize) - 1) & ~(int(blocksize) - 1) for i in shape) def nextpower(n): """Calculate the power of two :param n: an integer, for example 100 :return: another integer, 100-> 128 """ return 1 << int(ceil(log(n, 2))) def sizeof(shape, dtype="uint8"): """ Calculate the number of bytes needed to allocate for a given structure :param shape: size or tuple of sizes :param dtype: data type """ itemsize = numpy.dtype(dtype).itemsize cnt = 1 if "__len__" in dir(shape): for dim in shape: cnt *= dim else: cnt = int(shape) return cnt * itemsize def get_cl_file(resource): """get the full path of a openCL resource file The resource name can be prefixed by the name of a resource directory. For example "silx:foo.png" identify the resource "foo.png" from the resource directory "silx". See also :func:`silx.resources.register_resource_directory`. :param str resource: Resource name. File name contained if the `opencl` directory of the resources. :return: the full path of the openCL source file """ if not resource.endswith(".cl"): resource += ".cl" return resources._resource_filename(resource, default_directory="opencl") def read_cl_file(filename): """ :param filename: read an OpenCL file and apply a preprocessor :return: preprocessed source code """ with open(get_cl_file(filename), "r") as f: # Dummy preprocessor which removes the #include lines = [i for i in f.readlines() if not i.startswith("#include ")] return "".join(lines) get_opencl_code = read_cl_file def concatenate_cl_kernel(filenames): """Concatenates all the kernel from the list of files :param filenames: filenames containing the kernels :type filenames: list of str which can be filename of kernel as a string. :return: a string with all kernels concatenated this method concatenates all the kernel from the list """ return os.linesep.join(read_cl_file(fn) for fn in filenames) silx-0.6.1/silx/opencl/reconstruction.py0000644023630100076410000003726513202530432021042 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module for tomographic reconstruction algorithms""" from __future__ import absolute_import, print_function, with_statement, division __authors__ = ["P. Paleo"] __license__ = "MIT" __date__ = "19/09/2017" import logging import numpy as np from .common import pyopencl from .processing import OpenclProcessing from .backprojection import Backprojection from .projection import Projection from .linalg import LinAlg import pyopencl.array as parray from pyopencl.elementwise import ElementwiseKernel logger = logging.getLogger(__name__) cl = pyopencl class ReconstructionAlgorithm(OpenclProcessing): """ A parent class for all iterative tomographic reconstruction algorithms :param sino_shape: shape of the sinogram. The sinogram is in the format (n_b, n_a) where n_b is the number of detector bins and n_a is the number of angles. :param slice_shape: Optional, shape of the reconstructed slice. By default, it is a square slice where the dimension is the "x dimension" of the sinogram (number of bins). :param axis_position: Optional, axis position. Default is `(shape[1]-1)/2.0`. :param angles: Optional, a list of custom angles in radian. :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) """ def __init__(self, sino_shape, slice_shape=None, axis_position=None, angles=None, ctx=None, devicetype="all", platformid=None, deviceid=None, profile=False ): OpenclProcessing.__init__(self, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, profile=profile) # Create a backprojector self.backprojector = Backprojection( sino_shape, slice_shape=slice_shape, axis_position=axis_position, angles=angles, ctx=self.ctx, profile=profile ) # Create a projector self.projector = Projection( self.backprojector.slice_shape, self.backprojector.angles, axis_position=axis_position, detector_width=self.backprojector.num_bins, normalize=False, ctx=self.ctx, profile=profile ) self.sino_shape = sino_shape self.is_cpu = self.backprojector.is_cpu # Arrays self.d_data = parray.zeros(self.queue, sino_shape, dtype=np.float32) self.d_sino = parray.zeros_like(self.d_data) self.d_x = parray.zeros(self.queue, self.backprojector.slice_shape, dtype=np.float32) self.d_x_old = parray.zeros_like(self.d_x) self.add_to_cl_mem({ "d_data": self.d_data, "d_sino": self.d_sino, "d_x": self.d_x, "d_x_old": self.d_x_old, }) def proj(self, d_slice, d_sino): """ Project d_slice to d_sino """ self.projector.transfer_device_to_texture(d_slice.data) #.wait() self.projector.projection(dst=d_sino) def backproj(self, d_sino, d_slice): """ Backproject d_sino to d_slice """ self.backprojector.transfer_device_to_texture(d_sino.data) #.wait() self.backprojector.backprojection(dst=d_slice) class SIRT(ReconstructionAlgorithm): """ A class for the SIRT algorithm :param sino_shape: shape of the sinogram. The sinogram is in the format (n_b, n_a) where n_b is the number of detector bins and n_a is the number of angles. :param slice_shape: Optional, shape of the reconstructed slice. By default, it is a square slice where the dimension is the "x dimension" of the sinogram (number of bins). :param axis_position: Optional, axis position. Default is `(shape[1]-1)/2.0`. :param angles: Optional, a list of custom angles in radian. :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) .. warning:: This is a beta version of the SIRT algorithm. Reconstruction fails for at least on CPU (Xeon E3-1245 v5) using the AMD opencl implementation. """ def __init__(self, sino_shape, slice_shape=None, axis_position=None, angles=None, ctx=None, devicetype="all", platformid=None, deviceid=None, profile=False ): ReconstructionAlgorithm.__init__(self, sino_shape, slice_shape=slice_shape, axis_position=axis_position, angles=angles, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, profile=profile) self.compute_preconditioners() def compute_preconditioners(self): """ Create a diagonal preconditioner for the projection and backprojection operator. Each term of the diagonal is the sum of the projector/backprojector along rows [1], i.e the projection/backprojection of an array of ones. [1] Jens Gregor and Thomas Benson, Computational Analysis and Improvement of SIRT, IEEE transactions on medical imaging, vol. 27, no. 7, 2008 """ # r_{i,i} = 1/(sum_j a_{i,j}) slice_ones = np.ones(self.backprojector.slice_shape, dtype=np.float32) R = 1./self.projector.projection(slice_ones) # could be all done on GPU, but I want extra checks R[np.logical_not(np.isfinite(R))] = 1. # In the case where the rotation axis is excentred self.d_R = parray.to_device(self.queue, R) # c_{j,j} = 1/(sum_i a_{i,j}) sino_ones = np.ones(self.sino_shape, dtype=np.float32) C = 1./self.backprojector.backprojection(sino_ones) C[np.logical_not(np.isfinite(C))] = 1. # In the case where the rotation axis is excentred self.d_C = parray.to_device(self.queue, C) self.add_to_cl_mem({ "d_R": self.d_R, "d_C": self.d_C }) # TODO: compute and possibly return the residual def run(self, data, n_it): """ Run n_it iterations of the SIRT algorithm. """ cl.enqueue_copy(self.queue, self.d_data.data, np.ascontiguousarray(data.astype(np.float32))) d_x_old = self.d_x_old d_x = self.d_x d_R = self.d_R d_C = self.d_C d_sino = self.d_sino d_x *= 0 for k in range(n_it): d_x_old[:] = d_x[:] # x{k+1} = x{k} - C A^T R (A x{k} - b) self.proj(d_x, d_sino) d_sino -= self.d_data d_sino *= d_R if self.is_cpu: # This sync is necessary when using CPU, while it is not for GPU d_sino.finish() self.backproj(d_sino, d_x) d_x *= -d_C d_x += d_x_old if self.is_cpu: # This sync is necessary when using CPU, while it is not for GPU d_x.finish() return d_x __call__ = run class TV(ReconstructionAlgorithm): """ A class for reconstruction with Total Variation regularization using the Chambolle-Pock TV reconstruction algorithm. :param sino_shape: shape of the sinogram. The sinogram is in the format (n_b, n_a) where n_b is the number of detector bins and n_a is the number of angles. :param slice_shape: Optional, shape of the reconstructed slice. By default, it is a square slice where the dimension is the "x dimension" of the sinogram (number of bins). :param axis_position: Optional, axis position. Default is `(shape[1]-1)/2.0`. :param angles: Optional, a list of custom angles in radian. :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) .. warning:: This is a beta version of the Chambolle-Pock TV algorithm. Reconstruction fails for at least on CPU (Xeon E3-1245 v5) using the AMD opencl implementation. """ def __init__(self, sino_shape, slice_shape=None, axis_position=None, angles=None, ctx=None, devicetype="all", platformid=None, deviceid=None, profile=False ): ReconstructionAlgorithm.__init__(self, sino_shape, slice_shape=slice_shape, axis_position=axis_position, angles=angles, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, profile=profile) self.compute_preconditioners() # Create a LinAlg instance self.linalg = LinAlg(self.backprojector.slice_shape, ctx=self.ctx) # Positivity constraint self.elwise_clamp = ElementwiseKernel(self.ctx, "float *a", "a[i] = max(a[i], 0.0f);") # Projection onto the L-infinity ball of radius Lambda self.elwise_proj_linf = ElementwiseKernel( self.ctx, "float2* a, float Lambda", "a[i].x = copysign(min(fabs(a[i].x), Lambda), a[i].x); a[i].y = copysign(min(fabs(a[i].y), Lambda), a[i].y);", "elwise_proj_linf" ) # Additional arrays self.linalg.gradient(self.d_x) self.d_p = parray.zeros_like(self.linalg.cl_mem["d_gradient"]) self.d_q = parray.zeros_like(self.d_data) self.d_g = self.linalg.d_image self.d_tmp = parray.zeros_like(self.d_x) self.add_to_cl_mem({ "d_p": self.d_p, "d_q": self.d_q, "d_tmp": self.d_tmp, }) self.theta = 1.0 def compute_preconditioners(self): """ Create a diagonal preconditioner for the projection and backprojection operator. Each term of the diagonal is the sum of the projector/backprojector along rows [2], i.e the projection/backprojection of an array of ones. [2] T. Pock, A. Chambolle, Diagonal preconditioning for first order primal-dual algorithms in convex optimization, International Conference on Computer Vision, 2011 """ # Compute the diagonal preconditioner "Sigma" slice_ones = np.ones(self.backprojector.slice_shape, dtype=np.float32) Sigma_k = 1./self.projector.projection(slice_ones) Sigma_k[np.logical_not(np.isfinite(Sigma_k))] = 1. self.d_Sigma_k = parray.to_device(self.queue, Sigma_k) self.d_Sigma_kp1 = self.d_Sigma_k + 1 # TODO: memory vs computation self.Sigma_grad = 1/2.0 # For discrete gradient, sum|D_i,j| = 2 along lines or cols # Compute the diagonal preconditioner "Tau" sino_ones = np.ones(self.sino_shape, dtype=np.float32) C = self.backprojector.backprojection(sino_ones) Tau = 1./(C + 2.) self.d_Tau = parray.to_device(self.queue, Tau) self.add_to_cl_mem({ "d_Sigma_k": self.d_Sigma_k, "d_Sigma_kp1": self.d_Sigma_kp1, "d_Tau": self.d_Tau }) def run(self, data, n_it, Lambda, pos_constraint=False): """ Run n_it iterations of the TV-regularized reconstruction, with the regularization parameter Lambda. """ cl.enqueue_copy(self.queue, self.d_data.data, np.ascontiguousarray(data.astype(np.float32))) d_x = self.d_x d_x_old = self.d_x_old d_tmp = self.d_tmp d_sino = self.d_sino d_p = self.d_p d_q = self.d_q d_g = self.d_g d_x *= 0 d_p *= 0 d_q *= 0 for k in range(0, n_it): # Update primal variables d_x_old[:] = d_x[:] #~ x = x + Tau*div(p) - Tau*Kadj(q) self.backproj(d_q, d_tmp) self.linalg.divergence(d_p) # TODO: this in less than three ops (one kernel ?) d_g -= d_tmp # d_g -> L.d_image d_g *= self.d_Tau d_x += d_g if pos_constraint: self.elwise_clamp(d_x) # Update dual variables #~ p = proj_linf(p + Sigma_grad*gradient(x + theta*(x - x_old)), Lambda) d_tmp[:] = d_x[:] # FIXME: mul_add is out of place, put an equivalent thing in linalg... #~ d_tmp.mul_add(1 + theta, d_x_old, -theta) d_tmp *= 1+self.theta d_tmp -= self.theta*d_x_old self.linalg.gradient(d_tmp) # TODO: out of place mul_add #~ d_p.mul_add(1, L.cl_mem["d_gradient"], Sigma_grad) self.linalg.cl_mem["d_gradient"] *= self.Sigma_grad d_p += self.linalg.cl_mem["d_gradient"] self.elwise_proj_linf(d_p, Lambda) #~ q = (q + Sigma_k*K(x + theta*(x - x_old)) - Sigma_k*data)/(1.0 + Sigma_k) self.proj(d_tmp, d_sino) # TODO: this in less instructions d_sino -= self.d_data d_sino *= self.d_Sigma_k d_q += d_sino d_q /= self.d_Sigma_kp1 return d_x __call__ = run silx-0.6.1/silx/opencl/common.py0000644023630100076410000005374313202530432017250 0ustar knobelusers00000000000000#!/usr/bin/env python # -*- coding: utf-8 -*- # # Project: S I L X project # https://github.com/silx-kit/silx # # Copyright (C) 2012-2017 European Synchrotron Radiation Facility, Grenoble, France # # Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu) # # Permission is hereby granted, free of charge, to any person # obtaining a copy of this software and associated documentation # files (the "Software"), to deal in the Software without # restriction, including without limitation the rights to use, # copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the # Software is furnished to do so, subject to the following # conditions: # # The above copyright notice and this permission notice shall be # included in all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, # EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES # OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND # NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT # HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING # FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR # OTHER DEALINGS IN THE SOFTWARE. # __author__ = "Jerome Kieffer" __contact__ = "Jerome.Kieffer@ESRF.eu" __license__ = "MIT" __copyright__ = "2012-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "05/10/2017" __status__ = "stable" __all__ = ["ocl", "pyopencl", "mf", "release_cl_buffers", "allocate_cl_buffers", "measure_workgroup_size", "kernel_workgroup_size"] import os import logging import numpy from .utils import get_opencl_code logger = logging.getLogger(__name__) if os.environ.get("SILX_OPENCL") in ["0", "False"]: logger.warning("Use of OpenCL has been disables from environment variable: SILX_OPENCL=0") pyopencl = None else: try: import pyopencl except ImportError: logger.warning("Unable to import pyOpenCl. Please install it from: http://pypi.python.org/pypi/pyopencl") pyopencl = None else: import pyopencl.array as array mf = pyopencl.mem_flags if pyopencl is None: # Define default mem flags class mf(object): WRITE_ONLY = 1 READ_ONLY = 1 READ_WRITE = 1 FLOP_PER_CORE = {"GPU": 64, # GPU, Fermi at least perform 64 flops per cycle/multicore, G80 were at 24 or 48 ... "CPU": 4, # CPU, at least intel's have 4 operation per cycle "ACC": 8} # ACC: the Xeon-phi (MIC) appears to be able to process 8 Flops per hyperthreaded-core # Sources : https://en.wikipedia.org/wiki/CUDA NVIDIA_FLOP_PER_CORE = {(1, 0): 24, # Guessed ! (1, 1): 24, # Measured on G98 [Quadro NVS 295] (1, 2): 24, # Guessed ! (1, 3): 24, # measured on a GT285 (GT200) (2, 0): 64, # Measured on a 580 (GF110) (2, 1): 96, # Measured on Quadro2000 GF106GL (3, 0): 384, # Guessed! (3, 5): 384, # Measured on K20 (3, 7): 384, # K80: Guessed! (5, 0): 256, # Maxwell 4 warps/SM 2 flops/ CU (5, 2): 256, # Titan-X (5, 3): 256, # TX1 (6, 0): 128, # GP100 (6, 1): 128, # GP104 (6, 2): 128, # ? (7, 0): 256, # Volta ? (7, 1): 256, # Volta ? } AMD_FLOP_PER_CORE = 160 # Measured on a M7820 10 core, 700MHz 1120GFlops class Device(object): """ Simple class that contains the structure of an OpenCL device """ def __init__(self, name="None", dtype=None, version=None, driver_version=None, extensions="", memory=None, available=None, cores=None, frequency=None, flop_core=None, idx=0, workgroup=1): """ Simple container with some important data for the OpenCL device description. :param name: name of the device :param dtype: device type: CPU/GPU/ACC... :param version: driver version :param driver_version: :param extensions: List of opencl extensions :param memory: maximum memory available on the device :param available: is the device deactivated or not :param cores: number of SM/cores :param frequency: frequency of the device :param flop_core: Flopating Point operation per core per cycle :param idx: index of the device within the platform :param workgroup: max workgroup size """ self.name = name.strip() self.type = dtype self.version = version self.driver_version = driver_version self.extensions = extensions.split() self.memory = memory self.available = available self.cores = cores self.frequency = frequency self.id = idx self.max_work_group_size = workgroup if not flop_core: flop_core = FLOP_PER_CORE.get(dtype, 1) if cores and frequency: self.flops = cores * frequency * flop_core else: self.flops = flop_core def __repr__(self): return "%s" % self.name def pretty_print(self): """ Complete device description :return: string """ lst = ["Name\t\t:\t%s" % self.name, "Type\t\t:\t%s" % self.type, "Memory\t\t:\t%.3f MB" % (self.memory / 2.0 ** 20), "Cores\t\t:\t%s CU" % self.cores, "Frequency\t:\t%s MHz" % self.frequency, "Speed\t\t:\t%.3f GFLOPS" % (self.flops / 1000.), "Version\t\t:\t%s" % self.version, "Available\t:\t%s" % self.available] return os.linesep.join(lst) class Platform(object): """ Simple class that contains the structure of an OpenCL platform """ def __init__(self, name="None", vendor="None", version=None, extensions=None, idx=0): """ Class containing all descriptions of a platform and all devices description within that platform. :param name: platform name :param vendor: name of the brand/vendor :param version: :param extensions: list of the extension provided by the platform to all of its devices :param idx: index of the platform """ self.name = name.strip() self.vendor = vendor.strip() self.version = version self.extensions = extensions.split() self.devices = [] self.id = idx def __repr__(self): return "%s" % self.name def add_device(self, device): """ Add new device to the platform :param device: Device instance """ self.devices.append(device) def get_device(self, key): """ Return a device according to key :param key: identifier for a device, either it's id (int) or it's name :type key: int or str """ out = None try: devid = int(key) except ValueError: for a_dev in self.devices: if a_dev.name == key: out = a_dev else: if len(self.devices) > devid > 0: out = self.devices[devid] return out def _measure_workgroup_size(device_or_context, fast=False): """Mesure the maximal work group size of the given device :param device_or_context: instance of pyopencl.Device or pyopencl.Context or 2-tuple (platformid,deviceid) :param fast: ask the kernel the valid value, don't probe it :return: maximum size for the workgroup """ if isinstance(device_or_context, pyopencl.Device): ctx = pyopencl.Context(devices=[device_or_context]) device = device_or_context elif isinstance(device_or_context, pyopencl.Context): ctx = device_or_context device = device_or_context.devices[0] elif isinstance(device_or_context, (tuple, list)) and len(device_or_context) == 2: ctx = ocl.create_context(platformid=device_or_context[0], deviceid=device_or_context[1]) device = ctx.devices[0] else: raise RuntimeError("""given parameter device_or_context is not an instanciation of a device or a context""") shape = device.max_work_group_size # get the context assert ctx is not None queue = pyopencl.CommandQueue(ctx) max_valid_wg = 1 data = numpy.random.random(shape).astype(numpy.float32) d_data = pyopencl.array.to_device(queue, data) d_data_1 = pyopencl.array.zeros_like(d_data) + 1 program = pyopencl.Program(ctx, get_opencl_code("addition")).build() if fast: max_valid_wg = program.addition.get_work_group_info(pyopencl.kernel_work_group_info.WORK_GROUP_SIZE, device) else: maxi = int(round(numpy.log2(shape))) for i in range(maxi + 1): d_res = pyopencl.array.empty_like(d_data) wg = 1 << i try: evt = program.addition( queue, (shape,), (wg,), d_data.data, d_data_1.data, d_res.data, numpy.int32(shape)) evt.wait() except Exception as error: logger.info("%s on device %s for WG=%s/%s", error, device.name, wg, shape) program = queue = d_res = d_data_1 = d_data = None break else: res = d_res.get() good = numpy.allclose(res, data + 1) if good: if wg > max_valid_wg: max_valid_wg = wg else: logger.warning("ArithmeticError on %s for WG=%s/%s", wg, device.name, shape) return max_valid_wg def _is_nvidia_gpu(vendor, devtype): return (vendor == "NVIDIA Corporation") and (devtype == "GPU") class OpenCL(object): """ Simple class that wraps the structure ocl_tools_extended.h This is a static class. ocl should be the only instance and shared among all python modules. """ platforms = [] nb_devices = 0 context_cache = {} # key: 2-tuple of int, value: context if pyopencl: platform = device = pypl = devtype = extensions = pydev = None for idx, platform in enumerate(pyopencl.get_platforms()): pypl = Platform(platform.name, platform.vendor, platform.version, platform.extensions, idx) for idd, device in enumerate(platform.get_devices()): #################################################### # Nvidia does not report int64 atomics (we are using) ... # this is a hack around as any nvidia GPU with double-precision supports int64 atomics #################################################### extensions = device.extensions if (pypl.vendor == "NVIDIA Corporation") and ('cl_khr_fp64' in extensions): extensions += ' cl_khr_int64_base_atomics cl_khr_int64_extended_atomics' try: devtype = pyopencl.device_type.to_string(device.type).upper() except ValueError: # pocl does not describe itself as a CPU ! devtype = "CPU" if len(devtype) > 3: devtype = devtype[:3] if _is_nvidia_gpu(pypl.vendor, devtype) and "compute_capability_major_nv" in dir(device): comput_cap = device.compute_capability_major_nv, device.compute_capability_minor_nv flop_core = NVIDIA_FLOP_PER_CORE.get(comput_cap, min(NVIDIA_FLOP_PER_CORE.values())) elif (pypl.vendor == "Advanced Micro Devices, Inc.") and (devtype == "GPU"): flop_core = AMD_FLOP_PER_CORE elif devtype == "CPU": flop_core = FLOP_PER_CORE.get(devtype, 1) else: flop_core = 1 workgroup = device.max_work_group_size if (devtype == "CPU") and (pypl.vendor == "Apple"): logger.warning("For Apple's OpenCL on CPU: Measuring actual valid max_work_goup_size.") workgroup = _measure_workgroup_size(device, fast=True) if (devtype == "GPU") and os.environ.get("GPU") == "False": # Environment variable to disable GPU devices continue pydev = Device(device.name, devtype, device.version, device.driver_version, extensions, device.global_mem_size, bool(device.available), device.max_compute_units, device.max_clock_frequency, flop_core, idd, workgroup) pypl.add_device(pydev) nb_devices += 1 platforms.append(pypl) del platform, device, pypl, devtype, extensions, pydev def __repr__(self): out = ["OpenCL devices:"] for platformid, platform in enumerate(self.platforms): deviceids = ["(%s,%s) %s" % (platformid, deviceid, dev.name) for deviceid, dev in enumerate(platform.devices)] out.append("[%s] %s: " % (platformid, platform.name) + ", ".join(deviceids)) return os.linesep.join(out) def get_platform(self, key): """ Return a platform according :param key: identifier for a platform, either an Id (int) or it's name :type key: int or str """ out = None try: platid = int(key) except ValueError: for a_plat in self.platforms: if a_plat.name == key: out = a_plat else: if len(self.platforms) > platid > 0: out = self.platforms[platid] return out def select_device(self, dtype="ALL", memory=None, extensions=None, best=True, **kwargs): """ Select a device based on few parameters (at the end, keep the one with most memory) :param dtype: "gpu" or "cpu" or "all" .... :param memory: minimum amount of memory (int) :param extensions: list of extensions to be present :param best: shall we look for the :returns: A tuple of plateform ID and device ID, else None if nothing found """ if extensions is None: extensions = [] if "type" in kwargs: dtype = kwargs["type"].upper() else: dtype = dtype.upper() if len(dtype) > 3: dtype = dtype[:3] best_found = None for platformid, platform in enumerate(self.platforms): for deviceid, device in enumerate(platform.devices): if (dtype in ["ALL", "DEF"]) or (device.type == dtype): if (memory is None) or (memory <= device.memory): found = True for ext in extensions: if ext not in device.extensions: found = False if found: if not best: return platformid, deviceid else: if not best_found: best_found = platformid, deviceid, device.flops elif best_found[2] < device.flops: best_found = platformid, deviceid, device.flops if best_found: return best_found[0], best_found[1] # Nothing found return None def create_context(self, devicetype="ALL", useFp64=False, platformid=None, deviceid=None, cached=True): """ Choose a device and initiate a context. Devicetypes can be GPU,gpu,CPU,cpu,DEF,ACC,ALL. Suggested are GPU,CPU. For each setting to work there must be such an OpenCL device and properly installed. E.g.: If Nvidia driver is installed, GPU will succeed but CPU will fail. The AMD SDK kit is required for CPU via OpenCL. :param devicetype: string in ["cpu","gpu", "all", "acc"] :param useFp64: boolean specifying if double precision will be used :param platformid: integer :param deviceid: integer :param cached: True if we want to cache the context :return: OpenCL context on the selected device """ if (platformid is not None) and (deviceid is not None): platformid = int(platformid) deviceid = int(deviceid) elif "PYOPENCL_CTX" in os.environ: pyopencl_ctx = [int(i) if i.isdigit() else 0 for i in os.environ["PYOPENCL_CTX"].split(":")] pyopencl_ctx += [0] * (2 - len(pyopencl_ctx)) # pad with 0 platformid, deviceid = pyopencl_ctx else: if useFp64: ids = ocl.select_device(type=devicetype, extensions=["cl_khr_int64_base_atomics"]) else: ids = ocl.select_device(dtype=devicetype) if ids: platformid, deviceid = ids if (platformid is not None) and (deviceid is not None): if (platformid, deviceid) in self.context_cache: ctx = self.context_cache[(platformid, deviceid)] else: ctx = pyopencl.Context(devices=[pyopencl.get_platforms()[platformid].get_devices()[deviceid]]) if cached: self.context_cache[(platformid, deviceid)] = ctx else: logger.warning("Last chance to get an OpenCL device ... probably not the one requested") ctx = pyopencl.create_some_context(interactive=False) return ctx def device_from_context(self, context): """ Retrieves the Device from the context :param context: OpenCL context :return: instance of Device """ odevice = context.devices[0] oplat = odevice.platform device_id = oplat.get_devices().index(odevice) platform_id = pyopencl.get_platforms().index(oplat) return self.platforms[platform_id].devices[device_id] if pyopencl: ocl = OpenCL() if ocl.nb_devices == 0: ocl = None else: ocl = None def release_cl_buffers(cl_buffers): """ :param cl_buffers: the buffer you want to release :type cl_buffers: dict(str, pyopencl.Buffer) This method release the memory of the buffers store in the dict """ for key, buffer_ in cl_buffers.items(): if buffer_ is not None: if isinstance(buffer_, pyopencl.array.Array): try: buffer_.data.release() except pyopencl.LogicError: logger.error("Error while freeing buffer %s", key) else: try: buffer_.release() except pyopencl.LogicError: logger.error("Error while freeing buffer %s", key) cl_buffers[key] = None return cl_buffers def allocate_cl_buffers(buffers, device=None, context=None): """ :param buffers: the buffers info use to create the pyopencl.Buffer :type buffers: list(std, flag, numpy.dtype, int) :param device: one of the context device :param context: opencl contextdevice :return: a dict containing the instanciated pyopencl.Buffer :rtype: dict(str, pyopencl.Buffer) This method instanciate the pyopencl.Buffer from the buffers description. """ mem = {} if device is None: device = ocl.device_from_context(context) # check if enough memory is available on the device ualloc = 0 for _, _, dtype, size in buffers: ualloc += numpy.dtype(dtype).itemsize * size memory = device.memory logger.info("%.3fMB are needed on device which has %.3fMB", ualloc / 1.0e6, memory / 1.0e6) if ualloc >= memory: memError = "Fatal error in allocate_buffers." memError += "Not enough device memory for buffers" memError += "(%lu requested, %lu available)" % (ualloc, memory) raise MemoryError(memError) # noqa # do the allocation try: for name, flag, dtype, size in buffers: mem[name] = pyopencl.Buffer(context, flag, numpy.dtype(dtype).itemsize * size) except pyopencl.MemoryError as error: release_cl_buffers(mem) raise MemoryError(error) return mem def measure_workgroup_size(device): """Measure the actual size of the workgroup :param device: device or context or 2-tuple with indexes :return: the actual measured workgroup size if device is "all", returns a dict with all devices with their ids as keys. """ if (ocl is None) or (device is None): return None if isinstance(device, tuple) and (len(device) == 2): # this is probably a tuple (platformid, deviceid) device = ocl.create_context(platformid=device[0], deviceid=device[1]) if device == "all": res = {} for pid, platform in enumerate(ocl.platforms): for did, _devices in enumerate(platform.devices): tup = (pid, did) res[tup] = measure_workgroup_size(tup) else: res = _measure_workgroup_size(device) return res def kernel_workgroup_size(program, kernel): """Extract the compile time maximum workgroup size :param program: OpenCL program :param kernel: kernel or name of the kernel :return: the maximum acceptable workgroup size for the given kernel """ assert isinstance(program, pyopencl.Program) if not isinstance(kernel, pyopencl.Kernel): kernel_name = kernel assert kernel in (k.function_name for k in program.all_kernels()), "the kernel exists" kernel = program.__getattr__(kernel_name) device = program.devices[0] query_wg = pyopencl.kernel_work_group_info.WORK_GROUP_SIZE return kernel.get_work_group_info(query_wg, device) silx-0.6.1/silx/opencl/__init__.py0000644023630100076410000000315313202530432017505 0ustar knobelusers00000000000000#!/usr/bin/env python # -*- coding: utf-8 -*- # # Project: S I L X project # https://github.com/silx-kit/silx # # Copyright (C) 2012-2017 European Synchrotron Radiation Facility, Grenoble, France # # Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu) # # Permission is hereby granted, free of charge, to any person # obtaining a copy of this software and associated documentation # files (the "Software"), to deal in the Software without # restriction, including without limitation the rights to use, # copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the # Software is furnished to do so, subject to the following # conditions: # # The above copyright notice and this permission notice shall be # included in all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, # EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES # OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND # NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT # HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING # FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR # OTHER DEALINGS IN THE SOFTWARE. # __author__ = "Jerome Kieffer" __contact__ = "Jerome.Kieffer@ESRF.eu" __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" __date__ = "15/03/2017" __status__ = "stable" import logging logger = logging.getLogger(__name__) from .common import * silx-0.6.1/silx/opencl/projection.py0000644023630100076410000004062713202530432020131 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module for tomographic projector on the GPU""" from __future__ import absolute_import, print_function, with_statement, division __authors__ = ["A. Mirone, P. Paleo"] __license__ = "MIT" __date__ = "26/06/2017" import logging import numpy as np from .common import pyopencl from .processing import EventDescription, OpenclProcessing, BufferDescription from .backprojection import _sizeof, _idivup if pyopencl: mf = pyopencl.mem_flags import pyopencl.array as parray else: raise ImportError("pyopencl is not installed") logger = logging.getLogger(__name__) class Projection(OpenclProcessing): """ A class for performing a tomographic projection (Radon Transform) using OpenCL """ kernel_files = ["proj.cl", "array_utils.cl"] def __init__(self, slice_shape, angles, axis_position=None, detector_width=None, normalize=False, ctx=None, devicetype="all", platformid=None, deviceid=None, profile=False ): """Constructor of the OpenCL projector. :param slice_shape: shape of the slice: (num_rows, num_columns). :param angles: Either an integer number of angles, or a list of custom angles values in radian. :param axis_position: Optional, axis position. Default is `(shape[1]-1)/2.0`. :param detector_width: Optional, detector width in pixels. If detector_width > slice_shape[1], the projection data will be surrounded with zeros. Using detector_width < slice_shape[1] might result in a local tomography setup. :param normalize: Optional, normalization. If set, the sinograms are multiplied by the factor pi/(2*nprojs). :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) """ # OS X enforces a workgroup size of 1 when the kernel has synchronization barriers # if sys.platform.startswith('darwin'): # assuming no discrete GPU # raise NotImplementedError("Backprojection is not implemented on CPU for OS X yet") OpenclProcessing.__init__(self, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, profile=profile) self.shape = slice_shape self.axis_pos = axis_position self.angles = angles self.dwidth = detector_width self.normalize = normalize # Default values if self.axis_pos is None: self.axis_pos = (self.shape[1] - 1) / 2. if self.dwidth is None: self.dwidth = self.shape[1] if not(np.iterable(self.angles)): if self.angles is None: self.nprojs = self.shape[0] else: self.nprojs = self.angles self.angles = np.linspace(start=0, stop=np.pi, num=self.nprojs, endpoint=False).astype(dtype=np.float32) else: self.nprojs = len(self.angles) self.offset_x = -np.float32((self.shape[1]-1)/2. - self.axis_pos) # TODO: custom self.offset_y = -np.float32((self.shape[0]-1)/2. - self.axis_pos) # TODO: custom # Reset axis_pos once offset are computed self.axis_pos0 = np.float((self.shape[1]-1)/2.) # Workgroup, ndrange and shared size self.dimgrid_x = _idivup(self.dwidth, 16) self.dimgrid_y = _idivup(self.nprojs, 16) self._dimrecx = np.int32(self.dimgrid_x * 16) self._dimrecy = np.int32(self.dimgrid_y * 16) self.local_mem = 16 * 7 * _sizeof(np.float32) self.wg = (16, 16) self.ndrange = ( int(self.dimgrid_x) * self.wg[0], # int(): pyopencl <= 2015.1 int(self.dimgrid_y) * self.wg[1] # int(): pyopencl <= 2015.1 ) self.is_cpu = False if self.device.type == "CPU": self.is_cpu = True # Allocate memory self.buffers = [ BufferDescription("_d_sino", self._dimrecx * self._dimrecy, np.float32, mf.READ_WRITE), BufferDescription("d_angles", self._dimrecy, np.float32, mf.READ_ONLY), BufferDescription("d_beginPos", self._dimrecy * 2, np.int32, mf.READ_ONLY), BufferDescription("d_strideJoseph", self._dimrecy * 2, np.int32, mf.READ_ONLY), BufferDescription("d_strideLine", self._dimrecy * 2, np.int32, mf.READ_ONLY), ] self.add_to_cl_mem( { "d_axis_corrections": parray.zeros(self.queue, self.nprojs, np.float32) } ) self._tmp_extended_img = np.zeros((self.shape[0]+2, self.shape[1]+2), dtype=np.float32) if self.is_cpu: self.allocate_slice() else: self.allocate_textures() self.allocate_buffers() self._ex_sino = np.zeros((self._dimrecy, self._dimrecx), dtype=np.float32) if self.is_cpu: self.cl_mem["d_slice"].fill(0.) # enqueue_fill_buffer has issues if opencl 1.2 is not present #~ pyopencl.enqueue_fill_buffer( #~ self.queue, #~ self.cl_mem["d_slice"], #~ np.float32(0), #~ 0, #~ self._tmp_extended_img.size * _sizeof(np.float32) #~ ) # Precomputations self.compute_angles() self.proj_precomputations() self.cl_mem["d_axis_corrections"].fill(0.) # enqueue_fill_buffer has issues if opencl 1.2 is not present #~ pyopencl.enqueue_fill_buffer( #~ self.queue, #~ self.cl_mem["d_axis_corrections"], #~ np.float32(0), #~ 0, #~ self.nprojs*_sizeof(np.float32) #~ ) # Shorthands self._d_sino = self.cl_mem["_d_sino"] OpenclProcessing.compile_kernels(self, self.kernel_files) # check that workgroup can actually be (16, 16) self.check_workgroup_size("forward_kernel_cpu") def compute_angles(self): angles2 = np.zeros(self._dimrecy, dtype=np.float32) # dimrecy != num_projs angles2[:self.nprojs] = np.copy(self.angles) angles2[self.nprojs:] = angles2[self.nprojs-1] self.angles2 = angles2 pyopencl.enqueue_copy(self.queue, self.cl_mem["d_angles"], angles2) def allocate_slice(self): self.add_to_cl_mem({"d_slice": parray.zeros(self.queue, (self.shape[1]+2, self.shape[1]+2), np.float32)}) def allocate_textures(self): self.d_image_tex = pyopencl.Image( self.ctx, mf.READ_ONLY | mf.USE_HOST_PTR, pyopencl.ImageFormat( pyopencl.channel_order.INTENSITY, pyopencl.channel_type.FLOAT ), hostbuf=np.ascontiguousarray(self._tmp_extended_img.T), ) def transfer_to_texture(self, image): image2 = image if not(image.flags["C_CONTIGUOUS"] and image.dtype == np.float32): image2 = np.ascontiguousarray(image) if self.is_cpu: # TODO: create NoneEvent return self.transfer_to_slice(image2) #~ return pyopencl.enqueue_copy( #~ self.queue, #~ self.cl_mem["d_slice"].data, #~ image2, #~ origin=(1, 1), #~ region=image.shape[::-1] #~ ) else: return pyopencl.enqueue_copy( self.queue, self.d_image_tex, image2, origin=(1, 1), region=image.shape[::-1] ) def transfer_device_to_texture(self, d_image): if self.is_cpu: # TODO this copy should not be necessary return self.cpy2d_to_slice(d_image) else: return pyopencl.enqueue_copy( self.queue, self.d_image_tex, d_image, offset=0, origin=(1, 1), region=(int(self.shape[1]), int(self.shape[0]))#self.shape[::-1] # pyopencl <= 2015.2 ) def transfer_to_slice(self, image): image2 = np.zeros((image.shape[0]+2, image.shape[1]+2), dtype=np.float32) image2[1:-1, 1:-1] = image.astype(np.float32) self.cl_mem["d_slice"].set(image2) def proj_precomputations(self): beginPos = np.zeros((2, self._dimrecy), dtype=np.int32) strideJoseph = np.zeros((2, self._dimrecy), dtype=np.int32) strideLine = np.zeros((2, self._dimrecy), dtype=np.int32) cos_angles = np.cos(self.angles2) sin_angles = np.sin(self.angles2) dimslice = self.shape[1] M1 = np.abs(cos_angles) > 0.70710678 M1b = np.logical_not(M1) M2 = cos_angles > 0 M2b = np.logical_not(M2) M3 = sin_angles > 0 M3b = np.logical_not(M3) case1 = M1 * M2 case2 = M1 * M2b case3 = M1b * M3 case4 = M1b * M3b beginPos[0][case1] = 0 beginPos[1][case1] = 0 strideJoseph[0][case1] = 1 strideJoseph[1][case1] = 0 strideLine[0][case1] = 0 strideLine[1][case1] = 1 beginPos[0][case2] = dimslice-1 beginPos[1][case2] = dimslice-1 strideJoseph[0][case2] = -1 strideJoseph[1][case2] = 0 strideLine[0][case2] = 0 strideLine[1][case2] = -1 beginPos[0][case3] = dimslice-1 beginPos[1][case3] = 0 strideJoseph[0][case3] = 0 strideJoseph[1][case3] = 1 strideLine[0][case3] = -1 strideLine[1][case3] = 0 beginPos[0][case4] = 0 beginPos[1][case4] = dimslice-1 strideJoseph[0][case4] = 0 strideJoseph[1][case4] = -1 strideLine[0][case4] = 1 strideLine[1][case4] = 0 # For debug purpose #~ self.beginPos = beginPos #~ self.strideJoseph = strideJoseph #~ self.strideLine = strideLine # pyopencl.enqueue_copy(self.queue, self.cl_mem["d_beginPos"], beginPos) pyopencl.enqueue_copy(self.queue, self.cl_mem["d_strideJoseph"], strideJoseph) pyopencl.enqueue_copy(self.queue, self.cl_mem["d_strideLine"], strideLine) def _get_local_mem(self): return pyopencl.LocalMemory(self.local_mem) # constant for all image sizes def cpy2d_to_sino(self, dst): ndrange = (int(self.dwidth), int(self.nprojs)) # pyopencl < 2015.2 sino_shape_ocl = np.int32(ndrange) wg = None kernel_args = ( dst.data, self._d_sino, np.int32(self.dwidth), np.int32(self._dimrecx), np.int32((0, 0)), np.int32((0, 0)), sino_shape_ocl ) return self.kernels.cpy2d(self.queue, ndrange, wg, *kernel_args) def cpy2d_to_slice(self, src): """ copy a Nx * Ny slice to self.d_slice which is (Nx+2)*(Ny+2) """ ndrange = (int(self.shape[1]), int(self.shape[0])) #self.shape[::-1] # pyopencl < 2015.2 wg = None slice_shape_ocl = np.int32(ndrange) kernel_args = ( self.cl_mem["d_slice"].data, src, np.int32(self.shape[1]+2), np.int32(self.shape[1]), np.int32((1, 1)), np.int32((0, 0)), slice_shape_ocl ) return self.kernels.cpy2d(self.queue, ndrange, wg, *kernel_args) def projection(self, image=None, dst=None): """Perform the projection on an input image :param image: Image to project :return: A sinogram """ events = [] with self.sem: if image is not None: assert image.ndim == 2, "Treat only 2D images" assert image.shape[0] == self.shape[0], "image shape is OK" assert image.shape[1] == self.shape[1], "image shape is OK" if not(self.is_cpu): self.transfer_to_texture(image) slice_ref = self.d_image_tex else: self.transfer_to_slice(image) slice_ref = self.cl_mem["d_slice"].data else: if self.is_cpu: slice_ref = self.cl_mem["d_slice"].data else: slice_ref = self.d_image_tex kernel_args = ( self._d_sino, slice_ref, np.int32(self.shape[1]), np.int32(self.dwidth), self.cl_mem["d_angles"], np.float32(self.axis_pos0), self.cl_mem["d_axis_corrections"].data, # TODO custom self.cl_mem["d_beginPos"], self.cl_mem["d_strideJoseph"], self.cl_mem["d_strideLine"], np.int32(self.nprojs), self._dimrecx, self._dimrecy, self.offset_x, self.offset_y, np.int32(1), # josephnoclip, 1 by default np.int32(self.normalize) ) # Call the kernel if self.is_cpu: event_pj = self.kernels.forward_kernel_cpu( self.queue, self.ndrange, self.wg, *kernel_args ) else: event_pj = self.kernels.forward_kernel( self.queue, self.ndrange, self.wg, *kernel_args ) events.append(EventDescription("projection", event_pj)) if dst is None: self._ex_sino[:] = 0 ev = pyopencl.enqueue_copy(self.queue, self._ex_sino, self._d_sino) events.append(EventDescription("copy D->H result", ev)) ev.wait() res = np.copy(self._ex_sino[:self.nprojs, :self.dwidth]) else: ev = self.cpy2d_to_sino(dst) events.append(EventDescription("copy D->D result", ev)) ev.wait() res = dst # /with self.sem if self.profile: self.events += events #~ res = self._ex_sino return res __call__ = projection silx-0.6.1/silx/opencl/processing.py0000644023630100076410000003056113202530432020125 0ustar knobelusers00000000000000#!/usr/bin/env python # -*- coding: utf-8 -*- # # Project: S I L X project # https://github.com/silx-kit/silx # # Copyright (C) 2012-2017 European Synchrotron Radiation Facility, Grenoble, France # # Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu) # # Permission is hereby granted, free of charge, to any person # obtaining a copy of this software and associated documentation # files (the "Software"), to deal in the Software without # restriction, including without limitation the rights to use, # copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the # Software is furnished to do so, subject to the following # conditions: # # The above copyright notice and this permission notice shall be # included in all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, # EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES # OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND # NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT # HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING # FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR # OTHER DEALINGS IN THE SOFTWARE. # """ Common OpenCL abstract base classes for different processing """ from __future__ import absolute_import, print_function, division __author__ = "Jerome Kieffer" __contact__ = "Jerome.Kieffer@ESRF.eu" __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" __date__ = "03/10/2017" __status__ = "stable" import os import logging import gc from collections import namedtuple import numpy import threading from .common import ocl, pyopencl, release_cl_buffers, kernel_workgroup_size from .utils import concatenate_cl_kernel BufferDescription = namedtuple("BufferDescription", ["name", "size", "dtype", "flags"]) EventDescription = namedtuple("EventDescription", ["name", "event"]) logger = logging.getLogger(__name__) class KernelContainer(object): """Those object holds a copy of all kernels accessible as attributes""" def __init__(self, program): """Constructor of the class :param program: the OpenCL program as generated by PyOpenCL """ for kernel in program.all_kernels(): self.__setattr__(kernel.function_name, kernel) def get_kernels(self): "return the dictionary with all kernels" return self.__dict__.copy() def get_kernel(self, name): "get a kernel from its name" return self.__dict__.get(name) class OpenclProcessing(object): """Abstract class for different types of OpenCL processing. This class provides: * Generation of the context, queues, profiling mode * Additional function to allocate/free all buffers declared as static attributes of the class * Functions to compile kernels, cache them and clean them * helper functions to clone the object """ # Example of how to create an output buffer of 10 floats buffers = [BufferDescription("output", 10, numpy.float32, None), ] # list of kernel source files to be concatenated before compilation of the program kernel_files = [] def __init__(self, ctx=None, devicetype="all", platformid=None, deviceid=None, block_size=None, profile=False): """Constructor of the abstract OpenCL processing class :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param block_size: preferred workgroup size, may vary depending on the out come of the compilation :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) """ self.sem = threading.Semaphore() self.profile = None self.events = [] # List with of EventDescription, kept for profiling self.cl_mem = {} # dict with all buffer allocated self.cl_program = None # The actual OpenCL program self.cl_kernel_args = {} # dict with all kernel arguments if ctx: self.ctx = ctx else: self.ctx = ocl.create_context(devicetype=devicetype, platformid=platformid, deviceid=deviceid) device_name = self.ctx.devices[0].name.strip() platform_name = self.ctx.devices[0].platform.name.strip() platform = ocl.get_platform(platform_name) self.device = platform.get_device(device_name) self.cl_kernel_args = {} # dict with all kernel arguments self.set_profiling(profile) self.block_size = block_size self.program = None self.kernels = None def __del__(self): """Destructor: release all buffers and programs """ self.free_kernels() self.free_buffers() self.queue = None self.ctx = None gc.collect() def allocate_buffers(self, buffers=None): """ Allocate OpenCL buffers required for a specific configuration :param buffers: a list of BufferDescriptions, leave to None for paramatrized buffers. Note that an OpenCL context also requires some memory, as well as Event and other OpenCL functionalities which cannot and are not taken into account here. The memory required by a context varies depending on the device. Typical for GTX580 is 65Mb but for a 9300m is ~15Mb In addition, a GPU will always have at least 3-5Mb of memory in use. Unfortunately, OpenCL does NOT have a built-in way to check the actual free memory on a device, only the total memory. """ if buffers is None: buffers = self.buffers with self.sem: mem = {} # check if enough memory is available on the device ualloc = 0 for buf in buffers: ualloc += numpy.dtype(buf.dtype).itemsize * buf.size logger.info("%.3fMB are needed on device: %s, which has %.3fMB", ualloc / 1.0e6, self.device, self.device.memory / 1.0e6) if ualloc >= self.device.memory: raise MemoryError("Fatal error in allocate_buffers. Not enough " " device memory for buffers (%lu requested, %lu available)" % (ualloc, self.device.memory)) # do the allocation try: for buf in buffers: size = numpy.dtype(buf.dtype).itemsize * buf.size mem[buf.name] = pyopencl.Buffer(self.ctx, buf.flags, int(size)) except pyopencl.MemoryError as error: release_cl_buffers(mem) raise MemoryError(error) self.cl_mem.update(mem) def add_to_cl_mem(self, parrays): """ Add pyopencl.array, which are allocated by pyopencl, to self.cl_mem. This should be used before calling allocate_buffers(). :param parrays: a dictionary of `pyopencl.array.Array` or `pyopencl.Buffer` """ mem = self.cl_mem for name, parr in parrays.items(): mem[name] = parr self.cl_mem.update(mem) def check_workgroup_size(self, kernel_name): kernel = self.kernels.get_kernel(kernel_name) self.compiletime_workgroup_size = kernel_workgroup_size(self.program, kernel) def free_buffers(self): """free all device.memory allocated on the device """ with self.sem: for key, buf in list(self.cl_mem.items()): if buf is not None: if isinstance(buf, pyopencl.array.Array): try: buf.data.release() except pyopencl.LogicError: logger.error("Error while freeing buffer %s", key) else: try: buf.release() except pyopencl.LogicError: logger.error("Error while freeing buffer %s", key) self.cl_mem[key] = None def compile_kernels(self, kernel_files=None, compile_options=None): """Call the OpenCL compiler :param kernel_files: list of path to the kernel (by default use the one declared in the class) :param compile_options: string of compile options """ # concatenate all needed source files into a single openCL module kernel_files = kernel_files or self.kernel_files kernel_src = concatenate_cl_kernel(kernel_files) compile_options = compile_options or "" logger.info("Compiling file %s with options %s", kernel_files, compile_options) try: self.program = pyopencl.Program(self.ctx, kernel_src).build(options=compile_options) except (pyopencl.MemoryError, pyopencl.LogicError) as error: raise MemoryError(error) else: self.kernels = KernelContainer(self.program) def free_kernels(self): """Free all kernels """ for kernel in self.cl_kernel_args: self.cl_kernel_args[kernel] = [] self.kernels = None self.program = None def set_profiling(self, value=True): """Switch On/Off the profiling flag of the command queue to allow debugging :param value: set to True to enable profiling, or to False to disable it. Without profiling, the processing is marginally faster Profiling information can then be retrieved with the 'log_profile' method """ if bool(value) != self.profile: with self.sem: self.profile = bool(value) if self.profile: self.queue = pyopencl.CommandQueue(self.ctx, properties=pyopencl.command_queue_properties.PROFILING_ENABLE) else: self.queue = pyopencl.CommandQueue(self.ctx) def log_profile(self): """If we are in profiling mode, prints out all timing for every single OpenCL call """ t = 0.0 out = ["", "Profiling info for OpenCL %s" % self.__class__.__name__] if self.profile: for e in self.events: if "__len__" in dir(e) and len(e) >= 2: et = 1e-6 * (e[1].profile.end - e[1].profile.start) out.append("%50s:\t%.3fms" % (e[0], et)) t += et out.append("_" * 80) out.append("%50s:\t%.3fms" % ("Total execution time", t)) logger.info(os.linesep.join(out)) return out # This should be implemented by concrete class # def __copy__(self): # """Shallow copy of the object # # :return: copy of the object # """ # return self.__class__((self._data, self._indices, self._indptr), # self.size, block_size=self.BLOCK_SIZE, # platformid=self.platform.id, # deviceid=self.device.id, # checksum=self.on_device.get("data"), # profile=self.profile, empty=self.empty) # # def __deepcopy__(self, memo=None): # """deep copy of the object # # :return: deepcopy of the object # """ # if memo is None: # memo = {} # new_csr = self._data.copy(), self._indices.copy(), self._indptr.copy() # memo[id(self._data)] = new_csr[0] # memo[id(self._indices)] = new_csr[1] # memo[id(self._indptr)] = new_csr[2] # new_obj = self.__class__(new_csr, self.size, # block_size=self.BLOCK_SIZE, # platformid=self.platform.id, # deviceid=self.device.id, # checksum=self.on_device.get("data"), # profile=self.profile, empty=self.empty) # memo[id(self)] = new_obj # return new_obj silx-0.6.1/silx/opencl/backprojection.py0000644023630100076410000005222213202530432020744 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module for (filtered) backprojection on the GPU""" from __future__ import absolute_import, print_function, with_statement, division __authors__ = ["A. Mirone, P. Paleo"] __license__ = "MIT" __date__ = "05/10/2017" import logging import numpy from .common import pyopencl from .processing import EventDescription, OpenclProcessing, BufferDescription from .utils import nextpower as nextpow2 if pyopencl: mf = pyopencl.mem_flags import pyopencl.array as parray else: raise ImportError("pyopencl is not installed") logger = logging.getLogger(__name__) # put in .common ? try: from pyfft.cl import Plan as pyfft_Plan _has_pyfft = True except ImportError: _has_pyfft = False # For silx v0.6 we disable the use FFT on GPU. _has_pyfft = False def _sizeof(Type): """ return the size (in bytes) of a scalar type, like the C behavior """ return numpy.dtype(Type).itemsize def _idivup(a, b): """ return the integer division, plus one if `a` is not a multiple of `b` """ return (a + (b - 1)) // b def fourier_filter(sino, filter_=None, fft_size=None): """Simple numpy based implementation of fourier space filter :param sino: of shape shape = (num_projs, num_bins) :param filter: filter function to apply in fourier space :fft_size: size on which perform the fft. May be larger than the sino array :return: filtered sinogram """ assert sino.ndim == 2 num_projs, num_bins = sino.shape if fft_size is None: fft_size = nextpow2(num_bins * 2 - 1) else: assert fft_size >= num_bins if fft_size == num_bins: sino_zeropadded = sino.astype(numpy.float32) else: sino_zeropadded = numpy.zeros((num_projs, fft_size), dtype=numpy.complex64) sino_zeropadded[:, :num_bins] = sino.astype(numpy.float32) if filter_ is None: h = numpy.zeros(fft_size, dtype=numpy.float32) L2 = fft_size // 2 + 1 h[0] = 1 / 4. j = numpy.linspace(1, L2, L2 // 2, False) h[1:L2:2] = -1. / (numpy.pi ** 2 * j ** 2) h[L2:] = numpy.copy(h[1:L2 - 1][::-1]) filter_ = numpy.fft.fft(h).astype(numpy.complex64) # Linear convolution sino_f = numpy.fft.fft(sino, fft_size) sino_f = sino_f * filter_ sino_filtered = numpy.fft.ifft(sino_f)[:, :num_bins].real # Send the filtered sinogram to device return numpy.ascontiguousarray(sino_filtered.real, dtype=numpy.float32) class Backprojection(OpenclProcessing): """A class for performing the backprojection using OpenCL""" kernel_files = ["backproj.cl", "array_utils.cl"] if _has_pyfft: kernel_files.append("backproj_helper.cl") def __init__(self, sino_shape, slice_shape=None, axis_position=None, angles=None, filter_name=None, ctx=None, devicetype="all", platformid=None, deviceid=None, profile=False): """Constructor of the OpenCL (filtered) backprojection :param sino_shape: shape of the sinogram. The sinogram is in the format (n_b, n_a) where n_b is the number of detector bins and n_a is the number of angles. :param slice_shape: Optional, shape of the reconstructed slice. By default, it is a square slice where the dimension is the "x dimension" of the sinogram (number of bins). :param axis_position: Optional, axis position. Default is `(shape[1]-1)/2.0`. :param angles: Optional, a list of custom angles in radian. :param filter_name: Optional, name of the filter for FBP. Default is the Ram-Lak filter. :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) """ # OS X enforces a workgroup size of 1 when the kernel has # synchronization barriers if sys.platform.startswith('darwin'): # assuming no discrete GPU # raise NotImplementedError("Backprojection is not implemented on CPU for OS X yet") OpenclProcessing.__init__(self, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, profile=profile) self.shape = sino_shape self.num_bins = numpy.int32(sino_shape[1]) self.num_projs = numpy.int32(sino_shape[0]) self.angles = angles if slice_shape is None: self.slice_shape = (self.num_bins, self.num_bins) else: self.slice_shape = slice_shape self.dimrec_shape = ( _idivup(self.slice_shape[0], 32) * 32, _idivup(self.slice_shape[1], 32) * 32 ) self.slice = numpy.zeros(self.dimrec_shape, dtype=numpy.float32) self.filter_name = filter_name if filter_name else "Ram-Lak" if axis_position: self.axis_pos = numpy.float32(axis_position) else: self.axis_pos = numpy.float32((sino_shape[1] - 1.) / 2) self.axis_array = None # TODO: add axis correction front-end self.is_cpu = False if self.device.type == "CPU": self.is_cpu = True self.compute_fft_plans() self.buffers = [ BufferDescription("_d_slice", numpy.prod(self.dimrec_shape), numpy.float32, mf.READ_WRITE), BufferDescription("d_sino", self.num_projs * self.num_bins, numpy.float32, mf.READ_WRITE), # before transferring to texture (if available) BufferDescription("d_cos", self.num_projs, numpy.float32, mf.READ_ONLY), BufferDescription("d_sin", self.num_projs, numpy.float32, mf.READ_ONLY), BufferDescription("d_axes", self.num_projs, numpy.float32, mf.READ_ONLY), ] self.allocate_buffers() if not(self.is_cpu): self.allocate_textures() self.compute_filter() if self.pyfft_plan: self.add_to_cl_mem({ "d_filter": self.d_filter, "d_sino_z": self.d_sino_z }) self.d_sino = self.cl_mem["d_sino"] # shorthand self.compute_angles() self.local_mem = 256 * 3 * _sizeof(numpy.float32) # constant for all image sizes OpenclProcessing.compile_kernels(self, self.kernel_files) # check that workgroup can actually be (16, 16) self.check_workgroup_size("backproj_cpu_kernel") # Workgroup and ndrange sizes are always the same self.wg = (16, 16) self.ndrange = ( _idivup(int(self.dimrec_shape[1]), 32) * self.wg[0], # int(): pyopencl <= 2015.1 _idivup(int(self.dimrec_shape[0]), 32) * self.wg[1] # int(): pyopencl <= 2015.1 ) def compute_angles(self): if self.angles is None: self.angles = numpy.linspace(0, numpy.pi, self.num_projs, False) h_cos = numpy.cos(self.angles).astype(numpy.float32) h_sin = numpy.sin(self.angles).astype(numpy.float32) pyopencl.enqueue_copy(self.queue, self.cl_mem["d_cos"], h_cos) pyopencl.enqueue_copy(self.queue, self.cl_mem["d_sin"], h_sin) if self.axis_array: pyopencl.enqueue_copy(self.queue, self.cl_mem["d_axes"], self.axis_array.astype(numpy.float32)) else: pyopencl.enqueue_copy(self.queue, self.cl_mem["d_axes"], numpy.ones(self.num_projs, dtype=numpy.float32) * self.axis_pos) def allocate_textures(self): """ Allocate the texture for the sinogram. """ self.d_sino_tex = pyopencl.Image( self.ctx, mf.READ_ONLY | mf.USE_HOST_PTR, pyopencl.ImageFormat( pyopencl.channel_order.INTENSITY, pyopencl.channel_type.FLOAT ), hostbuf=numpy.zeros(self.shape[::-1], dtype=numpy.float32) ) def compute_fft_plans(self): """ If pyfft is installed, prepare a batched 1D FFT plan for the filtering of FBP """ self.fft_size = nextpow2(self.num_bins * 2 - 1) if _has_pyfft: logger.debug("pyfft is available. Computing FFT plans...") # batched 1D transform self.pyfft_plan = pyfft_Plan(self.fft_size, queue=self.queue, wait_for_finish=True) self.d_sino_z = parray.zeros(self.queue, (self.num_projs, self.fft_size), dtype=numpy.complex64) logger.debug("... done") else: logger.debug("pyfft not available, using numpy.fft") self.pyfft_plan = None # TODO: fall-back to fftw if present ? def compute_filter(self): """ Compute the filter for FBP """ if self.filter_name == "Ram-Lak": L = self.fft_size h = numpy.zeros(L, dtype=numpy.float32) L2 = L // 2 + 1 h[0] = 1 / 4. j = numpy.linspace(1, L2, L2 // 2, False) h[1:L2:2] = -1. / (numpy.pi ** 2 * j ** 2) h[L2:] = numpy.copy(h[1:L2 - 1][::-1]) else: # TODO: other filters raise ValueError("Filter %s is not available" % self.filter_name) self.filter = h if self.pyfft_plan: self.d_filter = parray.to_device(self.queue, h.astype(numpy.complex64)) self.pyfft_plan.execute(self.d_filter.data) else: self.filter = numpy.fft.fft(h).astype(numpy.complex64) self.d_filter = None def _get_local_mem(self): return pyopencl.LocalMemory(self.local_mem) # constant for all image sizes def cpy2d_to_slice(self, dst): ndrange = (int(self.slice_shape[1]), int(self.slice_shape[0])) # pyopencl < 2015.2 slice_shape_ocl = numpy.int32(ndrange) wg = None kernel_args = ( dst.data, self.cl_mem["_d_slice"], numpy.int32(self.slice_shape[1]), numpy.int32(self.dimrec_shape[1]), numpy.int32((0, 0)), numpy.int32((0, 0)), slice_shape_ocl ) return self.kernels.cpy2d(self.queue, ndrange, wg, *kernel_args) def transfer_to_texture(self, sino): sino2 = sino if not(sino.flags["C_CONTIGUOUS"] and sino.dtype == numpy.float32): sino2 = numpy.ascontiguousarray(sino, dtype=numpy.float32) if self.is_cpu: ev = pyopencl.enqueue_copy( self.queue, self.d_sino, sino2 ) what = "transfer filtered sino H->D buffer" else: ev = pyopencl.enqueue_copy( self.queue, self.d_sino_tex, sino2, origin=(0, 0), region=self.shape[::-1] ) what = "transfer filtered sino H->D texture" return EventDescription(what, ev) def transfer_device_to_texture(self, d_sino): if self.is_cpu: if id(self.d_sino) == id(d_sino): return ev = pyopencl.enqueue_copy( self.queue, self.d_sino, d_sino ) what = "transfer filtered sino D->D buffer" else: ev = pyopencl.enqueue_copy( self.queue, self.d_sino_tex, d_sino, offset=0, origin=(0, 0), region=self.shape[::-1] ) what = "transfer filtered sino D->D texture" return EventDescription(what, ev) def backprojection(self, sino=None, dst=None): """Perform the backprojection on an input sinogram :param sino: sinogram. If provided, it returns the plain backprojection. :param dst: destination (pyopencl.Array). If provided, the result will be written in this array. :return: backprojection of sinogram """ events = [] with self.sem: if sino is not None: # assuming numpy.ndarray events.append(self.transfer_to_texture(sino)) # Prepare arguments for the kernel call if self.is_cpu: d_sino_ref = self.d_sino else: d_sino_ref = self.d_sino_tex kernel_args = ( self.num_projs, # num of projections (int32) self.num_bins, # num of bins (int32) self.axis_pos, # axis position (float32) self.cl_mem["_d_slice"], # d_slice (__global float32*) d_sino_ref, # d_sino (__read_only image2d_t or float*) numpy.float32(0), # gpu_offset_x (float32) numpy.float32(0), # gpu_offset_y (float32) self.cl_mem["d_cos"], # d_cos (__global float32*) self.cl_mem["d_sin"], # d_sin (__global float32*) self.cl_mem["d_axes"], # d_axis (__global float32*) self._get_local_mem() # shared mem (__local float32*) ) # Call the kernel if self.is_cpu: kernel_to_call = self.kernels.backproj_cpu_kernel else: kernel_to_call = self.kernels.backproj_kernel event_bpj = kernel_to_call( self.queue, self.ndrange, self.wg, *kernel_args ) if dst is None: self.slice[:] = 0 events.append(EventDescription("backprojection", event_bpj)) ev = pyopencl.enqueue_copy(self.queue, self.slice, self.cl_mem["_d_slice"]) events.append(EventDescription("copy D->H result", ev)) ev.wait() res = numpy.copy(self.slice) if self.dimrec_shape[0] > self.slice_shape[0] or self.dimrec_shape[1] > self.slice_shape[1]: res = res[:self.slice_shape[0], :self.slice_shape[1]] # if the slice is backprojected onto a bigger grid if self.slice_shape[1] > self.num_bins: res = res[:self.slice_shape[0], :self.slice_shape[1]] else: ev = self.cpy2d_to_slice(dst) events.append(EventDescription("copy D->D result", ev)) ev.wait() res = dst # /with self.sem if self.profile: self.events += events return res def filter_projections(self, sino, rescale=True): """ Performs the FBP on a given sinogram. :param sinogram: sinogram to (filter-)backproject :param rescale: if True (default), the sinogram is multiplied with (pi/n_projs) """ if sino.shape[0] != self.num_projs or sino.shape[1] != self.num_bins: raise ValueError("Expected sinogram with (projs, bins) = (%d, %d)" % (self.num_projs, self.num_bins)) if rescale: sino = sino * numpy.pi / self.num_projs events = [] # if pyfft is available, all can be done on the device if self.d_filter is not None: # Zero-pad the sinogram. # TODO: this can be done on GPU with a "Memcpy2D": # cl.enqueue_copy(queue, dst, src, host_origin=(0,0), buffer_origin=(0,0), region=shape, host_pitches=(sino.shape[1],), buffer_pitches=(self.fft_size,)) # However it does not work properly, and raises an error for pyopencl < 2017.1 sino_zeropadded = numpy.zeros((sino.shape[0], self.fft_size), dtype=numpy.complex64) sino_zeropadded[:, :self.num_bins] = sino.astype(numpy.float32) sino_zeropadded = numpy.ascontiguousarray(sino_zeropadded, dtype=numpy.complex64) with self.sem: # send to GPU ev = pyopencl.enqueue_copy(self.queue, self.d_sino_z.data, sino_zeropadded) events.append(EventDescription("Send sino H->D", ev)) # FFT (in-place) self.pyfft_plan.execute(self.d_sino_z.data, batch=self.num_projs) # Multiply (complex-wise) with the the filter ev = self.kernels.mult(self.queue, tuple(int(i) for i in self.d_sino_z.shape[::-1]), None, self.d_sino_z.data, self.d_filter.data, numpy.int32(self.fft_size), self.num_projs ) events.append(EventDescription("complex 2D-1D multiplication", ev)) # Inverse FFT (in-place) self.pyfft_plan.execute(self.d_sino_z.data, batch=self.num_projs, inverse=True) # Copy the real part of d_sino_z[:, :self.num_bins] (complex64) to d_sino (float32) ev = self.kernels.cpy2d_c2r(self.queue, self.shape[::-1], None, self.d_sino, self.d_sino_z.data, self.num_bins, self.num_projs, numpy.int32(self.fft_size) ) events.append(EventDescription("conversion from complex padded sinogram to sinogram", ev)) # debug # ev.wait() # h_sino = numpy.zeros(sino.shape, dtype=numpy.float32) # ev = pyopencl.enqueue_copy(self.queue, h_sino, self.d_sino) # ev.wait() # numpy.save("/tmp/filtered_sinogram_%s.npy" % self.ctx.devices[0].platform.name.split()[0], h_sino) events.append(self.transfer_device_to_texture(self.d_sino)) # ------ else: # no pyfft sino_filtered = fourier_filter(sino, filter_=self.filter, fft_size=self.fft_size) with self.sem: events.append(self.transfer_to_texture(sino_filtered)) if self.profile: self.events += events def filtered_backprojection(self, sino): """ Compute the filtered backprojection (FBP) on a sinogram. :param sino: sinogram (`numpy.ndarray`) in the format (projections, bins) """ self.filter_projections(sino) res = self.backprojection() return res __call__ = filtered_backprojection silx-0.6.1/silx/opencl/setup.py0000644023630100076410000000350113202530432017103 0ustar knobelusers00000000000000# coding: utf-8 # # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # from __future__ import division __contact__ = "jerome.kieffer@esrf.eu" __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" __authors__ = ["J. Kieffer"] __date__ = "16/08/2017" import os.path from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('opencl', parent_package, top_path) path = os.path.dirname(os.path.abspath(__file__)) if os.path.exists(os.path.join(path, 'sift')): config.add_subpackage('sift') config.add_subpackage('test') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/opencl/medfilt.py0000644023630100076410000003016113202530432017371 0ustar knobelusers00000000000000# -*- coding: utf-8 -*- # # Project: Azimuthal integration # https://github.com/silx-kit/pyFAI # # Copyright (C) 2012-2017 European Synchrotron Radiation Facility, Grenoble, France # # Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu) # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # . # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # . # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. """A module for performing the 1d, 2d and 3d median filter ... The target is to mimic the signature of scipy.signal.medfilt and scipy.medfilt2 The first implementation targets 2D implementation where this operation is costly (~10s/2kx2k image) """ from __future__ import absolute_import, print_function, with_statement, division __author__ = "Jerome Kieffer" __license__ = "MIT" __date__ = "12/09/2017" __copyright__ = "2012-2017, ESRF, Grenoble" __contact__ = "jerome.kieffer@esrf.fr" import logging import numpy from collections import OrderedDict from .common import pyopencl, kernel_workgroup_size from .processing import EventDescription, OpenclProcessing, BufferDescription if pyopencl: mf = pyopencl.mem_flags else: raise ImportError("pyopencl is not installed") logger = logging.getLogger(__name__) class MedianFilter2D(OpenclProcessing): """A class for doing median filtering using OpenCL""" buffers = [ BufferDescription("result", 1, numpy.float32, mf.WRITE_ONLY), BufferDescription("image_raw", 1, numpy.float32, mf.READ_ONLY), BufferDescription("image", 1, numpy.float32, mf.READ_WRITE), ] kernel_files = ["preprocess.cl", "bitonic.cl", "medfilt.cl"] mapping = {numpy.int8: "s8_to_float", numpy.uint8: "u8_to_float", numpy.int16: "s16_to_float", numpy.uint16: "u16_to_float", numpy.uint32: "u32_to_float", numpy.int32: "s32_to_float"} def __init__(self, shape, kernel_size=(3, 3), ctx=None, devicetype="all", platformid=None, deviceid=None, block_size=None, profile=False ): """Constructor of the OpenCL 2D median filtering class :param shape: shape of the images to treat :param kernel size: 2-tuple of odd values :param ctx: actual working context, left to None for automatic initialization from device type or platformid/deviceid :param devicetype: type of device, can be "CPU", "GPU", "ACC" or "ALL" :param platformid: integer with the platform_identifier, as given by clinfo :param deviceid: Integer with the device identifier, as given by clinfo :param block_size: preferred workgroup size, may vary depending on the outpcome of the compilation :param profile: switch on profiling to be able to profile at the kernel level, store profiling elements (makes code slightly slower) """ OpenclProcessing.__init__(self, ctx=ctx, devicetype=devicetype, platformid=platformid, deviceid=deviceid, block_size=block_size, profile=profile) self.shape = shape self.size = self.shape[0] * self.shape[1] self.kernel_size = self.calc_kernel_size(kernel_size) self.workgroup_size = (self.calc_wg(self.kernel_size), 1) # 3D kernel self.buffers = [BufferDescription(i.name, i.size * self.size, i.dtype, i.flags) for i in self.__class__.buffers] self.allocate_buffers() self.local_mem = self._get_local_mem(self.workgroup_size[0]) OpenclProcessing.compile_kernels(self, self.kernel_files, "-D NIMAGE=%i" % self.size) self.set_kernel_arguments() def set_kernel_arguments(self): """Parametrize all kernel arguments """ for val in self.mapping.values(): self.cl_kernel_args[val] = OrderedDict(((i, self.cl_mem[i]) for i in ("image_raw", "image"))) self.cl_kernel_args["medfilt2d"] = OrderedDict((("image", self.cl_mem["image"]), ("result", self.cl_mem["result"]), ("local", self.local_mem), ("khs1", numpy.int32(self.kernel_size[0] // 2)), # Kernel half-size along dim1 (lines) ("khs2", numpy.int32(self.kernel_size[1] // 2)), # Kernel half-size along dim2 (columns) ("height", numpy.int32(self.shape[0])), # Image size along dim1 (lines) ("width", numpy.int32(self.shape[1])))) # ('debug', self.cl_mem["debug"]))) # Image size along dim2 (columns)) def _get_local_mem(self, wg): return pyopencl.LocalMemory(wg * 32) # 4byte per float, 8 element per thread def send_buffer(self, data, dest): """Send a numpy array to the device, including the cast on the device if possible :param data: numpy array with data :param dest: name of the buffer as registered in the class """ dest_type = numpy.dtype([i.dtype for i in self.buffers if i.name == dest][0]) events = [] if (data.dtype == dest_type) or (data.dtype.itemsize > dest_type.itemsize): copy_image = pyopencl.enqueue_copy(self.queue, self.cl_mem[dest], numpy.ascontiguousarray(data, dest_type)) events.append(EventDescription("copy H->D %s" % dest, copy_image)) else: copy_image = pyopencl.enqueue_copy(self.queue, self.cl_mem["image_raw"], numpy.ascontiguousarray(data)) kernel = getattr(self.program, self.mapping[data.dtype.type]) cast_to_float = kernel(self.queue, (self.size,), None, self.cl_mem["image_raw"], self.cl_mem[dest]) events += [EventDescription("copy H->D %s" % dest, copy_image), EventDescription("cast to float", cast_to_float)] if self.profile: self.events += events def calc_wg(self, kernel_size): """calculate and return the optimal workgroup size for the first dimension, taking into account the 8-height band :param kernel_size: 2-tuple of int, shape of the median window :return: optimal workgroup size """ needed_threads = ((kernel_size[0] + 7) // 8) * kernel_size[1] if needed_threads < 8: wg = 8 elif needed_threads < 32: wg = 32 else: wg = 1 << (int(needed_threads).bit_length()) return wg def medfilt2d(self, image, kernel_size=None): """Actually apply the median filtering on the image :param image: numpy array with the image :param kernel_size: 2-tuple if :return: median-filtered 2D image Nota: for window size 1x1 -> 7x7 up to 49 / 64 elements in 8 threads, 8elt/th 9x9 -> 15x15 up to 225 / 256 elements in 32 threads, 8elt/th 17x17 -> 21x21 up to 441 / 512 elements in 64 threads, 8elt/th TODO: change window size on the fly, """ events = [] if kernel_size is None: kernel_size = self.kernel_size else: kernel_size = self.calc_kernel_size(kernel_size) kernel_half_size = kernel_size // numpy.int32(2) # this is the workgroup size wg = self.calc_wg(kernel_size) # check for valid work group size: amws = kernel_workgroup_size(self.program, "medfilt2d") logger.warning("max actual workgroup size: %s, expected: %s", amws, wg) if wg > amws: raise RuntimeError("Workgroup size is too big for medfilt2d: %s>%s" % (wg, amws)) localmem = self._get_local_mem(wg) assert image.ndim == 2, "Treat only 2D images" assert image.shape[0] <= self.shape[0], "height is OK" assert image.shape[1] <= self.shape[1], "width is OK" with self.sem: self.send_buffer(image, "image") kwargs = self.cl_kernel_args["medfilt2d"] kwargs["local"] = localmem kwargs["khs1"] = kernel_half_size[0] kwargs["khs2"] = kernel_half_size[1] kwargs["height"] = numpy.int32(image.shape[0]) kwargs["width"] = numpy.int32(image.shape[1]) # for k, v in kwargs.items(): # print("%s: %s (%s)" % (k, v, type(v))) mf2d = self.kernels.medfilt2d(self.queue, (wg, image.shape[1]), (wg, 1), *list(kwargs.values())) events.append(EventDescription("median filter 2d", mf2d)) result = numpy.empty(image.shape, numpy.float32) ev = pyopencl.enqueue_copy(self.queue, result, self.cl_mem["result"]) events.append(EventDescription("copy D->H result", ev)) ev.wait() if self.profile: self.events += events return result __call__ = medfilt2d @staticmethod def calc_kernel_size(kernel_size): """format the kernel size to be a 2-length numpy array of int32 """ kernel_size = numpy.asarray(kernel_size, dtype=numpy.int32) if kernel_size.shape == (): kernel_size = numpy.repeat(kernel_size.item(), 2).astype(numpy.int32) for size in kernel_size: if (size % 2) != 1: raise ValueError("Each element of kernel_size should be odd.") return kernel_size class _MedFilt2d(object): median_filter = None @classmethod def medfilt2d(cls, ary, kernel_size=3): """Median filter a 2-dimensional array. Apply a median filter to the `input` array using a local window-size given by `kernel_size` (must be odd). :param ary: A 2-dimensional input array. :param kernel_size: A scalar or a list of length 2, giving the size of the median filter window in each dimension. Elements of `kernel_size` should be odd. If `kernel_size` is a scalar, then this scalar is used as the size in each dimension. Default is a kernel of size (3, 3). :return: An array the same size as input containing the median filtered result. always work on float32 values About the padding: * The filling mode in scipy.signal.medfilt2d is zero-padding * This implementation is equivalent to: scipy.ndimage.filters.median_filter(ary, kernel_size, mode="nearest") """ image = numpy.atleast_2d(ary) shape = numpy.array(image.shape) if cls.median_filter is None: cls.median_filter = MedianFilter2D(image.shape, kernel_size) elif (numpy.array(cls.median_filter.shape) < shape).any(): # enlarger the buffer size new_shape = numpy.maximum(numpy.array(cls.median_filter.shape), shape) ctx = cls.median_filter.ctx cls.median_filter = MedianFilter2D(new_shape, kernel_size, ctx=ctx) return cls.median_filter.medfilt2d(image, kernel_size=kernel_size) medfilt2d = _MedFilt2d.medfilt2d silx-0.6.1/silx/test/0000755023630100076410000000000013202537043015076 5ustar knobelusers00000000000000silx-0.6.1/silx/test/test_sx.py0000644023630100076410000001317513202530306017143 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["T. Vincent", "P. Knobel"] __license__ = "MIT" __date__ = "05/12/2016" import logging import os import sys import unittest import numpy _logger = logging.getLogger(__name__) if sys.platform.startswith('linux') and not os.environ.get('DISPLAY', ''): # On linux and no DISPLAY available (e.g., ssh without -X) _logger.warning('silx.sx tests disabled (DISPLAY env. variable not set)') class SkipSXTest(unittest.TestCase): def runTest(self): self.skipTest( 'silx.sx tests disabled (DISPLAY env. variable not set)') def suite(): suite = unittest.TestSuite() suite.addTest(SkipSXTest()) return suite elif os.environ.get('WITH_QT_TEST', 'True') == 'False': # Explicitly disabled tests _logger.warning( "silx.sx tests disabled (env. variable WITH_QT_TEST=False)") class SkipSXTest(unittest.TestCase): def runTest(self): self.skipTest( "silx.sx tests disabled (env. variable WITH_QT_TEST=False)") def suite(): suite = unittest.TestSuite() suite.addTest(SkipSXTest()) return suite else: # Import here to avoid loading QT if tests are disabled from silx.gui import qt # load TestCaseQt before sx from silx.gui.test.utils import TestCaseQt from silx import sx class SXTest(TestCaseQt): """Test the sx module""" def _expose_and_close(self, plot): self.qWaitForWindowExposed(plot) self.qapp.processEvents() plot.setAttribute(qt.Qt.WA_DeleteOnClose) plot.close() def test_plot(self): """Test plot function""" y = numpy.random.random(100) x = numpy.arange(len(y)) * 0.5 # Nothing plt = sx.plot() self._expose_and_close(plt) # y plt = sx.plot(y, title='y') self._expose_and_close(plt) # y, style plt = sx.plot(y, 'blued ', title='y, "blued "') self._expose_and_close(plt) # x, y plt = sx.plot(x, y, title='x, y') self._expose_and_close(plt) # x, y, style plt = sx.plot(x, y, 'ro-', xlabel='x', title='x, y, "ro-"') self._expose_and_close(plt) # x, y, style, y plt = sx.plot(x, y, 'ro-', y ** 2, xlabel='x', ylabel='y', title='x, y, "ro-", y ** 2') self._expose_and_close(plt) # x, y, style, y, style plt = sx.plot(x, y, 'ro-', y ** 2, 'b--', title='x, y, "ro-", y ** 2, "b--"') self._expose_and_close(plt) # x, y, style, x, y, style plt = sx.plot(x, y, 'ro-', x, y ** 2, 'b--', title='x, y, "ro-", x, y ** 2, "b--"') self._expose_and_close(plt) # x, y, x, y plt = sx.plot(x, y, x, y ** 2, title='x, y, x, y ** 2') self._expose_and_close(plt) def test_imshow(self): """Test imshow function""" img = numpy.arange(100.).reshape(10, 10) + 1 # Nothing plt = sx.imshow() self._expose_and_close(plt) # image plt = sx.imshow(img) self._expose_and_close(plt) # image, gray cmap plt = sx.imshow(img, cmap='jet', title='jet cmap') self._expose_and_close(plt) # image, log cmap plt = sx.imshow(img, norm='log', title='log cmap') self._expose_and_close(plt) # image, fixed range plt = sx.imshow(img, vmin=10, vmax=20, title='[10,20] cmap') self._expose_and_close(plt) # image, keep ratio plt = sx.imshow(img, aspect=True, title='keep ratio') self._expose_and_close(plt) # image, change origin and scale plt = sx.imshow(img, origin=(10, 10), scale=(2, 2), title='origin=(10, 10), scale=(2, 2)') self._expose_and_close(plt) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(SXTest)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/test/utils.py0000644023630100076410000002444713202530432016616 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Utilities for writing tests. - :class:`ParametricTestCase` provides a :meth:`TestCase.subTest` replacement for Python < 3.4 - :class:`TestLogging` with context or the :func:`test_logging` decorator enables testing the number of logging messages of different levels. - :func:`temp_dir` provides a with context to create/delete a temporary directory. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "03/08/2017" import os import contextlib import functools import logging import numpy import shutil import sys import tempfile import unittest from ..resources import ExternalResources _logger = logging.getLogger(__name__) utilstest = ExternalResources(project="silx", url_base="http://www.silx.org/pub/silx/", env_key="SILX_DATA", timeout=60) "This is the instance to be used. Singleton-like feature provided by module" # Parametric Test Base Class ################################################## if sys.hexversion >= 0x030400F0: # Python >= 3.4 class ParametricTestCase(unittest.TestCase): pass else: class ParametricTestCase(unittest.TestCase): """TestCase with subTest support for Python < 3.4. Add subTest method to support parametric tests. API is the same, but behavior differs: If a subTest fails, the following ones are not run. """ _subtest_msg = None # Class attribute to provide a default value @contextlib.contextmanager def subTest(self, msg=None, **params): """Use as unittest.TestCase.subTest method in Python >= 3.4.""" # Format arguments as: '[msg] (key=value, ...)' param_str = ', '.join(['%s=%s' % (k, v) for k, v in params.items()]) self._subtest_msg = '[%s] (%s)' % (msg or '', param_str) yield self._subtest_msg = None def shortDescription(self): short_desc = super(ParametricTestCase, self).shortDescription() if self._subtest_msg is not None: # Append subTest message to shortDescription short_desc = ' '.join( [msg for msg in (short_desc, self._subtest_msg) if msg]) return short_desc if short_desc else None # Test logging messages ####################################################### class TestLogging(logging.Handler): """Context checking the number of logging messages from a specified Logger. It disables propagation of logging message while running. This is meant to be used as a with statement, for example: >>> with TestLogging(logger, error=2, warning=0): >>> pass # Run tests here expecting 2 ERROR and no WARNING from logger ... :param logger: Name or instance of the logger to test. (Default: root logger) :type logger: str or :class:`logging.Logger` :param int critical: Expected number of CRITICAL messages. Default: Do not check. :param int error: Expected number of ERROR messages. Default: Do not check. :param int warning: Expected number of WARNING messages. Default: Do not check. :param int info: Expected number of INFO messages. Default: Do not check. :param int debug: Expected number of DEBUG messages. Default: Do not check. :param int notset: Expected number of NOTSET messages. Default: Do not check. :raises RuntimeError: If the message counts are the expected ones. """ def __init__(self, logger=None, critical=None, error=None, warning=None, info=None, debug=None, notset=None): if logger is None: logger = logging.getLogger() elif not isinstance(logger, logging.Logger): logger = logging.getLogger(logger) self.logger = logger self.records = [] self.count_by_level = { logging.CRITICAL: critical, logging.ERROR: error, logging.WARNING: warning, logging.INFO: info, logging.DEBUG: debug, logging.NOTSET: notset } super(TestLogging, self).__init__() def __enter__(self): """Context (i.e., with) support""" self.records = [] # Reset recorded LogRecords self.logger.addHandler(self) self.logger.propagate = False # ensure no log message is ignored self.entry_level = self.logger.level * 1 self.logger.setLevel(logging.DEBUG) def __exit__(self, exc_type, exc_value, traceback): """Context (i.e., with) support""" self.logger.removeHandler(self) self.logger.propagate = True self.logger.setLevel(self.entry_level) for level, expected_count in self.count_by_level.items(): if expected_count is None: continue # Number of records for the specified level_str count = len([r for r in self.records if r.levelno == level]) if count != expected_count: # That's an error # Resend record logs through logger as they where masked # to help debug for record in self.records: self.logger.handle(record) raise RuntimeError( 'Expected %d %s logging messages, got %d' % ( expected_count, logging.getLevelName(level), count)) def emit(self, record): """Override :meth:`logging.Handler.emit`""" self.records.append(record) def test_logging(logger=None, critical=None, error=None, warning=None, info=None, debug=None, notset=None): """Decorator checking number of logging messages. Propagation of logging messages is disabled by this decorator. In case the expected number of logging messages is not found, it raises a RuntimeError. >>> class Test(unittest.TestCase): ... @test_logging('module_logger_name', error=2, warning=0) ... def test(self): ... pass # Test expecting 2 ERROR and 0 WARNING messages :param logger: Name or instance of the logger to test. (Default: root logger) :type logger: str or :class:`logging.Logger` :param int critical: Expected number of CRITICAL messages. Default: Do not check. :param int error: Expected number of ERROR messages. Default: Do not check. :param int warning: Expected number of WARNING messages. Default: Do not check. :param int info: Expected number of INFO messages. Default: Do not check. :param int debug: Expected number of DEBUG messages. Default: Do not check. :param int notset: Expected number of NOTSET messages. Default: Do not check. """ def decorator(func): test_context = TestLogging(logger, critical, error, warning, info, debug, notset) @functools.wraps(func) def wrapper(*args, **kwargs): with test_context: result = func(*args, **kwargs) return result return wrapper return decorator # Temporary directory context ################################################# @contextlib.contextmanager def temp_dir(): """with context providing a temporary directory. >>> import os.path >>> with temp_dir() as tmp: ... print(os.path.isdir(tmp)) # Use tmp directory """ tmp_dir = tempfile.mkdtemp() try: yield tmp_dir finally: shutil.rmtree(tmp_dir) # Synthetic data and random noise ############################################# def add_gaussian_noise(y, stdev=1., mean=0.): """Add random gaussian noise to synthetic data. :param ndarray y: Array of synthetic data :param float mean: Mean of the gaussian distribution of noise. :param float stdev: Standard deviation of the gaussian distribution of noise. :return: Array of data with noise added """ noise = numpy.random.normal(mean, stdev, size=y.size) noise.shape = y.shape return y + noise def add_poisson_noise(y): """Add random noise from a poisson distribution to synthetic data. :param ndarray y: Array of synthetic data :return: Array of data with noise added """ yn = numpy.random.poisson(y) yn.shape = y.shape return yn def add_relative_noise(y, max_noise=5.): """Add relative random noise to synthetic data. The maximum noise level is given in percents. An array of noise in the interval [-max_noise, max_noise] (continuous uniform distribution) is generated, and applied to the data the following way: :math:`yn = y * (1. + noise / 100.)` :param ndarray y: Array of synthetic data :param float max_noise: Maximum percentage of noise :return: Array of data with noise added """ noise = max_noise * (2 * numpy.random.random(size=y.size) - 1) noise.shape = y.shape return y * (1. + noise / 100.) silx-0.6.1/silx/test/test_version.py0000644023630100076410000000346313202530306020175 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Basic test of top-level package import and existence of version info.""" __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "26/02/2016" import unittest import silx class TestVersion(unittest.TestCase): def test_version(self): self.assertTrue(isinstance(silx.version, str)) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestVersion)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/test/__init__.py0000644023630100076410000000547213202530432017212 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Full silx test suite. It is possible to disable tests depending on Qt by setting :envvar:`WITH_QT_TEST` environment variable to 'False'. It will skip all tests from :mod:`silx.test.gui`. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "22/06/2017" import logging import os import unittest logger = logging.getLogger(__name__) def suite(): from . import test_version from . import test_resources from . import test_sx from ..io import test as test_io from ..math import test as test_math from ..image import test as test_image from ..gui import test as test_gui from ..utils import test as test_utils from ..opencl import test as test_ocl from ..app import test as test_app test_suite = unittest.TestSuite() # test sx first cause qui tests load ipython module test_suite.addTest(test_sx.suite()) test_suite.addTest(test_gui.suite()) # then test no-gui tests test_suite.addTest(test_utils.suite()) test_suite.addTest(test_version.suite()) test_suite.addTest(test_resources.suite()) test_suite.addTest(test_io.suite()) test_suite.addTest(test_math.suite()) test_suite.addTest(test_image.suite()) test_suite.addTest(test_ocl.suite()) test_suite.addTest(test_app.suite()) return test_suite def run_tests(): """Run test complete test_suite""" runner = unittest.TextTestRunner() if not runner.run(suite()).wasSuccessful(): print("Test suite failed") return 1 else: print("Test suite succeeded") return 0 silx-0.6.1/silx/test/test_resources.py0000644023630100076410000002410413202530432020515 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test for resource files management.""" __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "06/09/2017" import os import unittest import shutil import tempfile from silx.third_party import six import silx.resources from .utils import utilstest import socket class TestResources(unittest.TestCase): @classmethod def setUpClass(cls): super(TestResources, cls).setUpClass() cls.tmpDirectory = tempfile.mkdtemp(prefix="resource_") os.mkdir(os.path.join(cls.tmpDirectory, "gui")) destination_dir = os.path.join(cls.tmpDirectory, "gui", "icons") os.mkdir(destination_dir) source = silx.resources.resource_filename("gui/icons/zoom-in.png") destination = os.path.join(destination_dir, "foo.png") shutil.copy(source, destination) source = silx.resources.resource_filename("gui/icons/zoom-out.svg") destination = os.path.join(destination_dir, "close.png") shutil.copy(source, destination) @classmethod def tearDownClass(cls): super(TestResources, cls).tearDownClass() shutil.rmtree(cls.tmpDirectory) def setUp(self): # Store the original configuration self._oldResources = dict(silx.resources._RESOURCE_DIRECTORIES) unittest.TestCase.setUp(self) def tearDown(self): unittest.TestCase.tearDown(self) # Restiture the original configuration silx.resources._RESOURCE_DIRECTORIES = self._oldResources def test_resource_dir(self): """Get a resource directory""" icons_dirname = silx.resources.resource_filename('gui/icons/') self.assertTrue(os.path.isdir(icons_dirname)) def test_resource_file(self): """Get a resource file name""" filename = silx.resources.resource_filename('gui/icons/colormap.png') self.assertTrue(os.path.isfile(filename)) def test_resource_nonexistent(self): """Get a non existent resource""" filename = silx.resources.resource_filename('non_existent_file.txt') self.assertFalse(os.path.exists(filename)) def test_isdir(self): self.assertTrue(silx.resources.is_dir('gui/icons')) def test_not_isdir(self): self.assertFalse(silx.resources.is_dir('gui/icons/colormap.png')) def test_list_dir(self): result = silx.resources.list_dir('gui/icons') self.assertTrue(len(result) > 10) # With prefixed resources def test_resource_dir_with_prefix(self): """Get a resource directory""" icons_dirname = silx.resources.resource_filename('silx:gui/icons/') self.assertTrue(os.path.isdir(icons_dirname)) def test_resource_file_with_prefix(self): """Get a resource file name""" filename = silx.resources.resource_filename('silx:gui/icons/colormap.png') self.assertTrue(os.path.isfile(filename)) def test_resource_nonexistent_with_prefix(self): """Get a non existent resource""" filename = silx.resources.resource_filename('silx:non_existent_file.txt') self.assertFalse(os.path.exists(filename)) def test_isdir_with_prefix(self): self.assertTrue(silx.resources.is_dir('silx:gui/icons')) def test_not_isdir_with_prefix(self): self.assertFalse(silx.resources.is_dir('silx:gui/icons/colormap.png')) def test_list_dir_with_prefix(self): result = silx.resources.list_dir('silx:gui/icons') self.assertTrue(len(result) > 10) # Test new repository def test_repository_not_exists(self): """The resource from 'test' is available""" self.assertRaises(ValueError, silx.resources.resource_filename, 'test:foo.png') def test_adding_test_directory(self): """The resource from 'test' is available""" silx.resources.register_resource_directory("test", "silx.test.resources", forced_path=self.tmpDirectory) path = silx.resources.resource_filename('test:gui/icons/foo.png') self.assertTrue(os.path.exists(path)) def test_adding_test_directory_no_override(self): """The resource from 'silx' is still available""" silx.resources.register_resource_directory("test", "silx.test.resources", forced_path=self.tmpDirectory) filename1 = silx.resources.resource_filename('gui/icons/close.png') filename2 = silx.resources.resource_filename('silx:gui/icons/close.png') filename3 = silx.resources.resource_filename('test:gui/icons/close.png') self.assertTrue(os.path.isfile(filename1)) self.assertTrue(os.path.isfile(filename2)) self.assertTrue(os.path.isfile(filename3)) self.assertEqual(filename1, filename2) self.assertNotEqual(filename1, filename3) def test_adding_test_directory_non_existing(self): """A resource while not exists in test is not available anyway it exists in silx""" silx.resources.register_resource_directory("test", "silx.test.resources", forced_path=self.tmpDirectory) resource_name = "gui/icons/colormap.png" path = silx.resources.resource_filename('test:' + resource_name) path2 = silx.resources.resource_filename('silx:' + resource_name) self.assertFalse(os.path.exists(path)) self.assertTrue(os.path.exists(path2)) class TestResourcesWithoutPkgResources(TestResources): @classmethod def setUpClass(cls): super(TestResourcesWithoutPkgResources, cls).setUpClass() cls._old = silx.resources.pkg_resources silx.resources.pkg_resources = None @classmethod def tearDownClass(cls): silx.resources.pkg_resources = cls._old del cls._old super(TestResourcesWithoutPkgResources, cls).tearDownClass() class TestResourcesWithCustomDirectory(TestResources): @classmethod def setUpClass(cls): super(TestResourcesWithCustomDirectory, cls).setUpClass() cls._old = silx.resources._RESOURCES_DIR base = os.path.dirname(silx.resources.__file__) silx.resources._RESOURCES_DIR = base @classmethod def tearDownClass(cls): silx.resources._RESOURCES_DIR = cls._old del cls._old super(TestResourcesWithCustomDirectory, cls).tearDownClass() def isSilxWebsiteAvailable(): try: six.moves.urllib.request.urlopen('http://www.silx.org', timeout=1) return True except six.moves.urllib.error.URLError: return False except socket.timeout: # This exception is still received in Python 2.7 return False class TestExternalResources(unittest.TestCase): """This is a test for the ExternalResources""" @classmethod def setUpClass(cls): if not isSilxWebsiteAvailable(): raise unittest.SkipTest("Network or silx website not available") def setUp(self): self.utilstest = silx.resources.ExternalResources("toto", "http://www.silx.org/pub/silx/") def tearDown(self): if self.utilstest.data_home: shutil.rmtree(self.utilstest.data_home) self.utilstest = None def test_tempdir(self): "test the temporary directory creation" d = self.utilstest.tempdir self.assertTrue(os.path.isdir(d)) self.assertEqual(d, self.utilstest.tempdir, 'tmpdir is stable') self.utilstest.clean_up() self.assertFalse(os.path.isdir(d)) e = self.utilstest.tempdir self.assertTrue(os.path.isdir(e)) self.assertEqual(e, self.utilstest.tempdir, 'tmpdir is stable') self.assertNotEqual(d, e, "tempdir changed") self.utilstest.clean_up() def test_download(self): "test the download from silx.org" f = self.utilstest.getfile("lena.png") self.assertTrue(os.path.exists(f)) di = utilstest.getdir("source.tar.gz") for fi in di: self.assertTrue(os.path.exists(fi)) def test_download_all(self): "test the download of all files from silx.org" filename = self.utilstest.getfile("lena.png") directory = "source.tar.gz" _filelist = self.utilstest.getdir(directory) # download file and remove it to create a json mapping file os.remove(filename) directory_path = os.path.join(self.utilstest.data_home, "source") shutil.rmtree(directory_path) directory_path = os.path.join(self.utilstest.data_home, directory) os.remove(directory_path) filelist = self.utilstest.download_all() self.assertGreater(len(filelist), 1, "At least 2 items were downloaded") def suite(): loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loadTests(TestResources)) test_suite.addTest(loadTests(TestResourcesWithoutPkgResources)) test_suite.addTest(loadTests(TestResourcesWithCustomDirectory)) test_suite.addTest(loadTests(TestExternalResources)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/0000755023630100076410000000000013202537043015257 5ustar knobelusers00000000000000silx-0.6.1/silx/utils/test/0000755023630100076410000000000013202537043016236 5ustar knobelusers00000000000000silx-0.6.1/silx/utils/test/test_html.py0000644023630100076410000000415613202530306020614 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for html module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "19/09/2016" import unittest from .. import html class TestHtml(unittest.TestCase): """Tests for html module.""" def testLtGt(self): result = html.escape("'\"") self.assertEquals("<html>'"", result) def testLtAmpGt(self): # '&' have to be escaped first result = html.escape("<&>") self.assertEquals("<&>", result) def testNoQuotes(self): result = html.escape("\"m&m's\"", quote=False) self.assertEquals("\"m&m's\"", result) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestHtml)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/test/test_proxy.py0000644023630100076410000001667413202530432021041 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for weakref module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "02/10/2017" import unittest import pickle import numpy from ..proxy import Proxy class Thing(object): def __init__(self, value): self.value = value def __getitem__(self, selection): return selection + 1 def method(self, value): return value + 2 class InheritedProxy(Proxy): """Inheriting the proxy allow to specialisze methods""" def __init__(self, obj, value): Proxy.__init__(self, obj) self.value = value + 2 def __getitem__(self, selection): return selection + 3 def method(self, value): return value + 4 class TestProxy(unittest.TestCase): """Test that the proxy behave as expected""" def text_init(self): obj = Thing(10) p = Proxy(obj) self.assertTrue(isinstance(p, Thing)) self.assertTrue(isinstance(p, Proxy)) # methods and properties def test_has_special_method(self): obj = Thing(10) p = Proxy(obj) self.assertTrue(hasattr(p, "__getitem__")) def test_missing_special_method(self): obj = Thing(10) p = Proxy(obj) self.assertFalse(hasattr(p, "__and__")) def test_method(self): obj = Thing(10) p = Proxy(obj) self.assertEqual(p.method(10), obj.method(10)) def test_property(self): obj = Thing(10) p = Proxy(obj) self.assertEqual(p.value, obj.value) # special functions def test_getitem(self): obj = Thing(10) p = Proxy(obj) self.assertEqual(p[10], obj[10]) def test_setitem(self): obj = numpy.array([10, 20, 30]) p = Proxy(obj) p[0] = 20 self.assertEqual(obj[0], 20) def test_slice(self): obj = numpy.arange(20) p = Proxy(obj) expected = obj[0:10:2] result = p[0:10:2] self.assertEqual(list(result), list(expected)) # binary comparator methods def test_lt(self): obj = numpy.array([20]) p = Proxy(obj) expected = obj < obj result = p < p self.assertEqual(result, expected) # binary numeric methods def test_add(self): obj = numpy.array([20]) proxy = Proxy(obj) expected = obj + obj result = proxy + proxy self.assertEqual(result, expected) def test_iadd(self): expected = numpy.array([20]) expected += 10 obj = numpy.array([20]) result = Proxy(obj) result += 10 self.assertEqual(result, expected) def test_radd(self): obj = numpy.array([20]) p = Proxy(obj) expected = 10 + obj result = 10 + p self.assertEqual(result, expected) # binary logical methods def test_and(self): obj = numpy.array([20]) p = Proxy(obj) expected = obj & obj result = p & p self.assertEqual(result, expected) def test_iand(self): expected = numpy.array([20]) expected &= 10 obj = numpy.array([20]) result = Proxy(obj) result &= 10 self.assertEqual(result, expected) def test_rand(self): obj = numpy.array([20]) p = Proxy(obj) expected = 10 & obj result = 10 & p self.assertEqual(result, expected) # unary methods def test_neg(self): obj = numpy.array([20]) p = Proxy(obj) expected = -obj result = -p self.assertEqual(result, expected) def test_round(self): obj = 20.5 p = Proxy(obj) expected = round(obj) result = round(p) self.assertEqual(result, expected) # cast def test_bool(self): obj = True p = Proxy(obj) if p: pass else: self.fail() def test_str(self): obj = Thing(10) p = Proxy(obj) expected = str(obj) result = str(p) self.assertEqual(result, expected) def test_repr(self): obj = Thing(10) p = Proxy(obj) expected = repr(obj) result = repr(p) self.assertEqual(result, expected) def test_text_bool(self): obj = "" p = Proxy(obj) if p: self.fail() else: pass def test_text_str(self): obj = "a" p = Proxy(obj) expected = str(obj) result = str(p) self.assertEqual(result, expected) def test_text_repr(self): obj = "a" p = Proxy(obj) expected = repr(obj) result = repr(p) self.assertEqual(result, expected) def test_hash(self): obj = [0, 1, 2] p = Proxy(obj) with self.assertRaises(TypeError): hash(p) obj = (0, 1, 2) p = Proxy(obj) hash(p) class TestInheritedProxy(unittest.TestCase): """Test that inheriting the Proxy class behave as expected""" # methods and properties def test_method(self): obj = Thing(10) p = InheritedProxy(obj, 11) self.assertEqual(p.method(10), 11 + 3) def test_property(self): obj = Thing(10) p = InheritedProxy(obj, 11) self.assertEqual(p.value, 11 + 2) # special functions def test_getitem(self): obj = Thing(10) p = InheritedProxy(obj, 11) self.assertEqual(p[12], 12 + 3) class TestPickle(unittest.TestCase): def test_dumps(self): obj = Thing(10) p = Proxy(obj) expected = pickle.dumps(obj) result = pickle.dumps(p) self.assertEqual(result, expected) def test_loads(self): obj = Thing(10) p = Proxy(obj) obj2 = pickle.loads(pickle.dumps(p)) self.assertTrue(isinstance(obj2, Thing)) self.assertFalse(isinstance(obj2, Proxy)) self.assertEqual(obj.value, obj2.value) def suite(): loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loadTests(TestProxy)) test_suite.addTest(loadTests(TestPickle)) test_suite.addTest(loadTests(TestInheritedProxy)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/test/test_deprecation.py0000644023630100076410000000727313202530432022150 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for html module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "11/09/2017" import unittest from .. import deprecation from silx.test import utils class TestDeprecation(unittest.TestCase): """Tests for deprecation module.""" @deprecation.deprecated def deprecatedWithoutParam(self): pass @deprecation.deprecated(reason="r", replacement="r", since_version="v") def deprecatedWithParams(self): pass @deprecation.deprecated(reason="r", replacement="r", since_version="v", only_once=True) def deprecatedOnlyOnce(self): pass @deprecation.deprecated(reason="r", replacement="r", since_version="v", only_once=False) def deprecatedEveryTime(self): pass @utils.test_logging(deprecation.depreclog.name, warning=1) def testAnnotationWithoutParam(self): self.deprecatedWithoutParam() @utils.test_logging(deprecation.depreclog.name, warning=1) def testAnnotationWithParams(self): self.deprecatedWithParams() @utils.test_logging(deprecation.depreclog.name, warning=3) def testLoggedEveryTime(self): """Logged everytime cause it is 3 different locations""" self.deprecatedOnlyOnce() self.deprecatedOnlyOnce() self.deprecatedOnlyOnce() @utils.test_logging(deprecation.depreclog.name, warning=1) def testLoggedSingleTime(self): def log(): self.deprecatedOnlyOnce() log() log() log() @utils.test_logging(deprecation.depreclog.name, warning=3) def testLoggedEveryTime2(self): self.deprecatedEveryTime() self.deprecatedEveryTime() self.deprecatedEveryTime() @utils.test_logging(deprecation.depreclog.name, warning=1) def testWarning(self): deprecation.deprecated_warning(type_="t", name="n") def testBacktrace(self): testLogging = utils.TestLogging(deprecation.depreclog.name) with testLogging: self.deprecatedEveryTime() message = testLogging.records[0].getMessage() filename = __file__.replace(".pyc", ".py") self.assertTrue(filename in message) self.assertTrue("testBacktrace" in message) def suite(): test_suite = unittest.TestSuite() loadTests = unittest.defaultTestLoader.loadTestsFromTestCase test_suite.addTest(loadTests(TestDeprecation)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/test/test_launcher.py0000644023630100076410000001620613202530432021450 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for html module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "03/04/2017" import sys import unittest from silx.test.utils import ParametricTestCase from .. import launcher class CallbackMock(): def __init__(self, result=None): self._execute_count = 0 self._execute_argv = None self._result = result def execute(self, argv): self._execute_count = self._execute_count + 1 self._execute_argv = argv return self._result def __call__(self, argv): return self.execute(argv) class TestLauncherCommand(unittest.TestCase): """Tests for launcher class.""" def testEnv(self): command = launcher.LauncherCommand("foo") old = sys.argv params = ["foo", "bar"] with command.get_env(params): self.assertEqual(params, sys.argv) self.assertEqual(sys.argv, old) def testEnvWhileException(self): command = launcher.LauncherCommand("foo") old = sys.argv params = ["foo", "bar"] try: with command.get_env(params): raise RuntimeError() except RuntimeError: pass self.assertEqual(sys.argv, old) def testExecute(self): params = ["foo", "bar"] callback = CallbackMock(result=42) command = launcher.LauncherCommand("foo", function=callback) status = command.execute(params) self.assertEqual(callback._execute_count, 1) self.assertEqual(callback._execute_argv, params) self.assertEqual(status, 42) class TestModuleCommand(ParametricTestCase): def setUp(self): module_name = "silx.utils.test.test_launcher_command" command = launcher.LauncherCommand("foo", module_name=module_name) self.command = command def testHelp(self): status = self.command.execute(["--help"]) self.assertEqual(status, 0) def testException(self): try: self.command.execute(["exception"]) self.fail() except RuntimeError: pass def testCall(self): status = self.command.execute([]) self.assertEqual(status, 0) def testError(self): status = self.command.execute(["error"]) self.assertEqual(status, -1) class TestLauncher(ParametricTestCase): """Tests for launcher class.""" def testCallCommand(self): callback = CallbackMock(result=42) runner = launcher.Launcher(prog="prog") command = launcher.LauncherCommand("foo", function=callback) runner.add_command(command=command) status = runner.execute(["prog", "foo", "param1", "param2"]) self.assertEquals(status, 42) self.assertEquals(callback._execute_argv, ["prog foo", "param1", "param2"]) self.assertEquals(callback._execute_count, 1) def testAddCommand(self): runner = launcher.Launcher(prog="prog") module_name = "silx.utils.test.test_launcher_command" runner.add_command("foo", module_name=module_name) status = runner.execute(["prog", "foo"]) self.assertEquals(status, 0) def testCallHelpOnCommand(self): callback = CallbackMock(result=42) runner = launcher.Launcher(prog="prog") command = launcher.LauncherCommand("foo", function=callback) runner.add_command(command=command) status = runner.execute(["prog", "--help", "foo"]) self.assertEquals(status, 42) self.assertEquals(callback._execute_argv, ["prog foo", "--help"]) self.assertEquals(callback._execute_count, 1) def testCallHelpOnCommand2(self): callback = CallbackMock(result=42) runner = launcher.Launcher(prog="prog") command = launcher.LauncherCommand("foo", function=callback) runner.add_command(command=command) status = runner.execute(["prog", "help", "foo"]) self.assertEquals(status, 42) self.assertEquals(callback._execute_argv, ["prog foo", "--help"]) self.assertEquals(callback._execute_count, 1) def testCallHelpOnUnknownCommand(self): callback = CallbackMock(result=42) runner = launcher.Launcher(prog="prog") command = launcher.LauncherCommand("foo", function=callback) runner.add_command(command=command) status = runner.execute(["prog", "help", "foo2"]) self.assertEquals(status, -1) def testNotAvailableCommand(self): callback = CallbackMock(result=42) runner = launcher.Launcher(prog="prog") command = launcher.LauncherCommand("foo", function=callback) runner.add_command(command=command) status = runner.execute(["prog", "foo2", "param1", "param2"]) self.assertEquals(status, -1) self.assertEquals(callback._execute_count, 0) def testCallHelp(self): callback = CallbackMock(result=42) runner = launcher.Launcher(prog="prog") command = launcher.LauncherCommand("foo", function=callback) runner.add_command(command=command) status = runner.execute(["prog", "help"]) self.assertEquals(status, 0) self.assertEquals(callback._execute_count, 0) def testCommonCommands(self): runner = launcher.Launcher() tests = [ ["prog"], ["prog", "--help"], ["prog", "--version"], ["prog", "help", "--help"], ["prog", "help", "help"], ] for arguments in tests: with self.subTest(args=tests): status = runner.execute(arguments) self.assertEquals(status, 0) def suite(): loader = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loader(TestLauncherCommand)) test_suite.addTest(loader(TestLauncher)) test_suite.addTest(loader(TestModuleCommand)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/test/test_array_like.py0000644023630100076410000004041113202530306021764 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for array_like module""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "09/01/2017" try: import h5py except ImportError: h5py = None import numpy import os import tempfile import unittest from ..array_like import DatasetView, ListOfImages from ..array_like import get_dtype, get_concatenated_dtype, get_shape,\ is_array, is_nested_sequence, is_list_of_arrays @unittest.skipIf(h5py is None, "h5py is needed to test DatasetView") class TestTransposedDatasetView(unittest.TestCase): def setUp(self): # dataset attributes self.ndim = 3 self.original_shape = (5, 10, 20) self.size = 1 for dim in self.original_shape: self.size *= dim self.volume = numpy.arange(self.size).reshape(self.original_shape) self.tempdir = tempfile.mkdtemp() self.h5_fname = os.path.join(self.tempdir, "tempfile.h5") with h5py.File(self.h5_fname, "w") as f: f["volume"] = self.volume self.h5f = h5py.File(self.h5_fname, "r") self.all_permutations = [(0, 1, 2), (0, 2, 1), (1, 0, 2), (1, 2, 0), (2, 0, 1), (2, 1, 0)] def tearDown(self): self.h5f.close() os.unlink(self.h5_fname) os.rmdir(self.tempdir) def _testSize(self, obj): """These assertions apply to all following test cases""" self.assertEqual(obj.ndim, self.ndim) self.assertEqual(obj.size, self.size) size_from_shape = 1 for dim in obj.shape: size_from_shape *= dim self.assertEqual(size_from_shape, self.size) for dim in self.original_shape: self.assertIn(dim, obj.shape) def testNoTransposition(self): """no transposition (transposition = (0, 1, 2))""" a = DatasetView(self.h5f["volume"]) self.assertEqual(a.shape, self.original_shape) self._testSize(a) # reversing the dimensions twice results in no change rtrans = list(reversed(range(self.ndim))) self.assertTrue(numpy.array_equal( a, a.transpose(rtrans).transpose(rtrans))) for i in range(a.shape[0]): for j in range(a.shape[1]): for k in range(a.shape[2]): self.assertEqual(self.h5f["volume"][i, j, k], a[i, j, k]) def _testTransposition(self, transposition): """test transposed dataset :param tuple transposition: List of dimensions (0... n-1) sorted in the desired order """ a = DatasetView(self.h5f["volume"], transposition=transposition) self._testSize(a) # sort shape of transposed object, to hopefully find the original shape sorted_shape = tuple(dim_size for (_, dim_size) in sorted(zip(transposition, a.shape))) self.assertEqual(sorted_shape, self.original_shape) a_as_array = numpy.array(self.h5f["volume"]).transpose(transposition) # test the __array__ method self.assertTrue(numpy.array_equal( numpy.array(a), a_as_array)) # test slicing for selection in [(2, slice(None), slice(None)), (slice(None), 1, slice(0, 8)), (slice(0, 3), slice(None), 3), (1, 3, slice(None)), (slice(None), 2, 1), (4, slice(1, 9, 2), 2)]: self.assertIsInstance(a[selection], numpy.ndarray) self.assertTrue(numpy.array_equal( a[selection], a_as_array[selection])) # test the DatasetView.__getitem__ for single values # (step adjusted to test at least 3 indices in each dimension) for i in range(0, a.shape[0], a.shape[0] // 3): for j in range(0, a.shape[1], a.shape[1] // 3): for k in range(0, a.shape[2], a.shape[2] // 3): sorted_indices = tuple(idx for (_, idx) in sorted(zip(transposition, [i, j, k]))) viewed_value = a[i, j, k] corresponding_original_value = self.h5f["volume"][sorted_indices] self.assertEqual(viewed_value, corresponding_original_value) # reversing the dimensions twice results in no change rtrans = list(reversed(range(self.ndim))) self.assertTrue(numpy.array_equal( a, a.transpose(rtrans).transpose(rtrans))) # test .T property self.assertTrue(numpy.array_equal( a.T, a.transpose(rtrans))) def testTransposition012(self): """transposition = (0, 1, 2) (should be the same as testNoTransposition)""" self._testTransposition((0, 1, 2)) def testTransposition021(self): """transposition = (0, 2, 1)""" self._testTransposition((0, 2, 1)) def testTransposition102(self): """transposition = (1, 0, 2)""" self._testTransposition((1, 0, 2)) def testTransposition120(self): """transposition = (1, 2, 0)""" self._testTransposition((1, 2, 0)) def testTransposition201(self): """transposition = (2, 0, 1)""" self._testTransposition((2, 0, 1)) def testTransposition210(self): """transposition = (2, 1, 0)""" self._testTransposition((2, 1, 0)) def testAllDoubleTranspositions(self): for trans1 in self.all_permutations: for trans2 in self.all_permutations: self._testDoubleTransposition(trans1, trans2) def _testDoubleTransposition(self, transposition1, transposition2): a = DatasetView(self.h5f["volume"], transposition=transposition1).transpose(transposition2) b = self.volume.transpose(transposition1).transpose(transposition2) self.assertTrue(numpy.array_equal(a, b), "failed with double transposition %s %s" % (transposition1, transposition2)) def test1DIndex(self): a = DatasetView(self.h5f["volume"]) self.assertTrue(numpy.array_equal(self.volume[1], a[1])) b = DatasetView(self.h5f["volume"], transposition=(1, 0, 2)) self.assertTrue(numpy.array_equal(self.volume[:, 1, :], b[1])) class TestTransposedListOfImages(unittest.TestCase): def setUp(self): # images attributes self.ndim = 3 self.original_shape = (5, 10, 20) self.size = 1 for dim in self.original_shape: self.size *= dim volume = numpy.arange(self.size).reshape(self.original_shape) self.images = [] for i in range(self.original_shape[0]): self.images.append( volume[i]) self.images_as_3D_array = numpy.array(self.images) self.all_permutations = [(0, 1, 2), (0, 2, 1), (1, 0, 2), (1, 2, 0), (2, 0, 1), (2, 1, 0)] def tearDown(self): pass def _testSize(self, obj): """These assertions apply to all following test cases""" self.assertEqual(obj.ndim, self.ndim) self.assertEqual(obj.size, self.size) size_from_shape = 1 for dim in obj.shape: size_from_shape *= dim self.assertEqual(size_from_shape, self.size) for dim in self.original_shape: self.assertIn(dim, obj.shape) def testNoTransposition(self): """no transposition (transposition = (0, 1, 2))""" a = ListOfImages(self.images) self.assertEqual(a.shape, self.original_shape) self._testSize(a) for i in range(a.shape[0]): for j in range(a.shape[1]): for k in range(a.shape[2]): self.assertEqual(self.images[i][j, k], a[i, j, k]) # reversing the dimensions twice results in no change rtrans = list(reversed(range(self.ndim))) self.assertTrue(numpy.array_equal( a, a.transpose(rtrans).transpose(rtrans))) # test .T property self.assertTrue(numpy.array_equal( a.T, a.transpose(rtrans))) def _testTransposition(self, transposition): """test transposed dataset :param tuple transposition: List of dimensions (0... n-1) sorted in the desired order """ a = ListOfImages(self.images, transposition=transposition) self._testSize(a) # sort shape of transposed object, to hopefully find the original shape sorted_shape = tuple(dim_size for (_, dim_size) in sorted(zip(transposition, a.shape))) self.assertEqual(sorted_shape, self.original_shape) a_as_array = numpy.array(self.images).transpose(transposition) # test the DatasetView.__array__ method self.assertTrue(numpy.array_equal( numpy.array(a), a_as_array)) # test slicing for selection in [(2, slice(None), slice(None)), (slice(None), 1, slice(0, 8)), (slice(0, 3), slice(None), 3), (1, 3, slice(None)), (slice(None), 2, 1), (4, slice(1, 9, 2), 2)]: self.assertIsInstance(a[selection], numpy.ndarray) self.assertTrue(numpy.array_equal( a[selection], a_as_array[selection])) # test the DatasetView.__getitem__ for single values # (step adjusted to test at least 3 indices in each dimension) for i in range(0, a.shape[0], a.shape[0] // 3): for j in range(0, a.shape[1], a.shape[1] // 3): for k in range(0, a.shape[2], a.shape[2] // 3): viewed_value = a[i, j, k] sorted_indices = tuple(idx for (_, idx) in sorted(zip(transposition, [i, j, k]))) corresponding_original_value = self.images[sorted_indices[0]][sorted_indices[1:]] self.assertEqual(viewed_value, corresponding_original_value) # reversing the dimensions twice results in no change rtrans = list(reversed(range(self.ndim))) self.assertTrue(numpy.array_equal( a, a.transpose(rtrans).transpose(rtrans))) # test .T property self.assertTrue(numpy.array_equal( a.T, a.transpose(rtrans))) def _testDoubleTransposition(self, transposition1, transposition2): a = ListOfImages(self.images, transposition=transposition1).transpose(transposition2) b = self.images_as_3D_array.transpose(transposition1).transpose(transposition2) self.assertTrue(numpy.array_equal(a, b), "failed with double transposition %s %s" % (transposition1, transposition2)) def testTransposition012(self): """transposition = (0, 1, 2) (should be the same as testNoTransposition)""" self._testTransposition((0, 1, 2)) def testTransposition021(self): """transposition = (0, 2, 1)""" self._testTransposition((0, 2, 1)) def testTransposition102(self): """transposition = (1, 0, 2)""" self._testTransposition((1, 0, 2)) def testTransposition120(self): """transposition = (1, 2, 0)""" self._testTransposition((1, 2, 0)) def testTransposition201(self): """transposition = (2, 0, 1)""" self._testTransposition((2, 0, 1)) def testTransposition210(self): """transposition = (2, 1, 0)""" self._testTransposition((2, 1, 0)) def testAllDoubleTranspositions(self): for trans1 in self.all_permutations: for trans2 in self.all_permutations: self._testDoubleTransposition(trans1, trans2) def test1DIndex(self): a = ListOfImages(self.images) self.assertTrue(numpy.array_equal(self.images[1], a[1])) b = ListOfImages(self.images, transposition=(1, 0, 2)) self.assertTrue(numpy.array_equal(self.images_as_3D_array[:, 1, :], b[1])) class TestFunctions(unittest.TestCase): """Test functions to guess the dtype and shape of an array_like object""" def testListOfLists(self): l = [[0, 1, 2], [2, 3, 4]] self.assertEqual(get_dtype(l), numpy.dtype(int)) self.assertEqual(get_shape(l), (2, 3)) self.assertTrue(is_nested_sequence(l)) self.assertFalse(is_array(l)) self.assertFalse(is_list_of_arrays(l)) l = [[0., 1.], [2., 3.]] self.assertEqual(get_dtype(l), numpy.dtype(float)) self.assertEqual(get_shape(l), (2, 2)) self.assertTrue(is_nested_sequence(l)) self.assertFalse(is_array(l)) self.assertFalse(is_list_of_arrays(l)) # concatenated dtype of int and float l = [numpy.array([[0, 1, 2], [2, 3, 4]]), numpy.array([[0., 1., 2.], [2., 3., 4.]])] self.assertEqual(get_concatenated_dtype(l), numpy.array(l).dtype) self.assertEqual(get_shape(l), (2, 2, 3)) self.assertFalse(is_nested_sequence(l)) self.assertFalse(is_array(l)) self.assertTrue(is_list_of_arrays(l)) def testNumpyArray(self): a = numpy.array([[0, 1], [2, 3]]) self.assertEqual(get_dtype(a), a.dtype) self.assertFalse(is_nested_sequence(a)) self.assertTrue(is_array(a)) self.assertFalse(is_list_of_arrays(a)) @unittest.skipIf(h5py is None, "h5py is needed for this test") def testH5pyDataset(self): a = numpy.array([[0, 1], [2, 3]]) tempdir = tempfile.mkdtemp() h5_fname = os.path.join(tempdir, "tempfile.h5") with h5py.File(h5_fname, "w") as h5f: h5f["dataset"] = a d = h5f["dataset"] self.assertEqual(get_dtype(d), numpy.dtype(int)) self.assertFalse(is_nested_sequence(d)) self.assertTrue(is_array(d)) self.assertFalse(is_list_of_arrays(d)) os.unlink(h5_fname) os.rmdir(tempdir) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestTransposedDatasetView)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestTransposedListOfImages)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestFunctions)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/test/__init__.py0000644023630100076410000000357213202530432020351 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["T. Vincent", "P. Knobel"] __license__ = "MIT" __date__ = "02/10/2017" import unittest from . import test_weakref from . import test_html from . import test_array_like from . import test_launcher from . import test_deprecation from . import test_proxy def suite(): test_suite = unittest.TestSuite() test_suite.addTest(test_weakref.suite()) test_suite.addTest(test_html.suite()) test_suite.addTest(test_array_like.suite()) test_suite.addTest(test_launcher.suite()) test_suite.addTest(test_deprecation.suite()) test_suite.addTest(test_proxy.suite()) return test_suite silx-0.6.1/silx/utils/test/test_launcher_command.py0000644023630100076410000000316713202530432023150 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for html module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "03/04/2017" import sys def main(argv): if "--help" in argv: # Common behaviour of ArgumentParser sys.exit(0) if "exception" in argv: raise RuntimeError("Simulated exception") if "error" in argv: return -1 return 0 silx-0.6.1/silx/utils/test/test_weakref.py0000644023630100076410000002372313202530306021275 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Tests for weakref module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "15/09/2016" import unittest from .. import weakref class Dummy(object): """Dummy class to use it as geanie pig""" def inc(self, a): return a + 1 def __lt__(self, other): return True def dummy_inc(a): """Dummy function to use it as geanie pig""" return a + 1 class TestWeakMethod(unittest.TestCase): """Tests for weakref.WeakMethod""" def testMethod(self): dummy = Dummy() callable_ = weakref.WeakMethod(dummy.inc) self.assertEquals(callable_()(10), 11) def testMethodWithDeadObject(self): dummy = Dummy() callable_ = weakref.WeakMethod(dummy.inc) dummy = None self.assertIsNone(callable_()) def testMethodWithDeadFunction(self): dummy = Dummy() dummy.inc2 = lambda self, a: a + 1 callable_ = weakref.WeakMethod(dummy.inc2) dummy.inc2 = None self.assertIsNone(callable_()) def testFunction(self): callable_ = weakref.WeakMethod(dummy_inc) self.assertEquals(callable_()(10), 11) def testDeadFunction(self): def inc(a): return a + 1 callable_ = weakref.WeakMethod(inc) inc = None self.assertIsNone(callable_()) def testLambda(self): store = lambda a: a + 1 # noqa: E731 callable_ = weakref.WeakMethod(store) self.assertEquals(callable_()(10), 11) def testDeadLambda(self): callable_ = weakref.WeakMethod(lambda a: a + 1) self.assertIsNone(callable_()) def testCallbackOnDeadObject(self): self.__count = 0 def callback(ref): self.__count += 1 self.assertIs(callable_, ref) dummy = Dummy() callable_ = weakref.WeakMethod(dummy.inc, callback) dummy = None self.assertEquals(self.__count, 1) def testCallbackOnDeadMethod(self): self.__count = 0 def callback(ref): self.__count += 1 self.assertIs(callable_, ref) dummy = Dummy() dummy.inc2 = lambda self, a: a + 1 callable_ = weakref.WeakMethod(dummy.inc2, callback) dummy.inc2 = None self.assertEquals(self.__count, 1) def testCallbackOnDeadFunction(self): self.__count = 0 def callback(ref): self.__count += 1 self.assertIs(callable_, ref) store = lambda a: a + 1 # noqa: E731 callable_ = weakref.WeakMethod(store, callback) store = None self.assertEquals(self.__count, 1) def testEquals(self): dummy = Dummy() callable1 = weakref.WeakMethod(dummy.inc) callable2 = weakref.WeakMethod(dummy.inc) self.assertEquals(callable1, callable2) def testInSet(self): callable_set = set([]) dummy = Dummy() callable_set.add(weakref.WeakMethod(dummy.inc)) callable_ = weakref.WeakMethod(dummy.inc) self.assertIn(callable_, callable_set) def testInDict(self): callable_dict = {} dummy = Dummy() callable_dict[weakref.WeakMethod(dummy.inc)] = 10 callable_ = weakref.WeakMethod(dummy.inc) self.assertEquals(callable_dict.get(callable_), 10) class TestWeakMethodProxy(unittest.TestCase): def testMethod(self): dummy = Dummy() callable_ = weakref.WeakMethodProxy(dummy.inc) self.assertEquals(callable_(10), 11) def testMethodWithDeadObject(self): dummy = Dummy() method = weakref.WeakMethodProxy(dummy.inc) dummy = None self.assertRaises(ReferenceError, method, 9) class TestWeakList(unittest.TestCase): """Tests for weakref.WeakList""" def setUp(self): self.list = weakref.WeakList() self.object1 = Dummy() self.object2 = Dummy() self.list.append(self.object1) self.list.append(self.object2) def testAppend(self): obj = Dummy() self.list.append(obj) self.assertEquals(len(self.list), 3) obj = None self.assertEquals(len(self.list), 2) def testRemove(self): self.list.remove(self.object1) self.assertEquals(len(self.list), 1) def testPop(self): obj = self.list.pop(0) self.assertIs(obj, self.object1) self.assertEquals(len(self.list), 1) def testGetItem(self): self.assertIs(self.object1, self.list[0]) def testGetItemSlice(self): objects = self.list[:] self.assertEquals(len(objects), 2) self.assertIs(self.object1, objects[0]) self.assertIs(self.object2, objects[1]) def testIter(self): obj_list = list(self.list) self.assertEquals(len(obj_list), 2) self.assertIs(self.object1, obj_list[0]) def testLen(self): self.assertEquals(len(self.list), 2) def testSetItem(self): obj = Dummy() self.list[0] = obj self.assertIsNot(self.object1, self.list[0]) obj = None self.assertEquals(len(self.list), 1) def testSetItemSlice(self): obj = Dummy() self.list[:] = [obj, obj] self.assertEquals(len(self.list), 2) self.assertIs(obj, self.list[0]) self.assertIs(obj, self.list[1]) obj = None self.assertEquals(len(self.list), 0) def testDelItem(self): del self.list[0] self.assertEquals(len(self.list), 1) self.assertIs(self.object2, self.list[0]) def testDelItemSlice(self): del self.list[:] self.assertEquals(len(self.list), 0) def testContains(self): self.assertIn(self.object1, self.list) def testAdd(self): others = [Dummy()] l = self.list + others self.assertIs(l[0], self.object1) self.assertEquals(len(l), 3) others = None self.assertEquals(len(l), 2) def testExtend(self): others = [Dummy()] self.list.extend(others) self.assertIs(self.list[0], self.object1) self.assertEquals(len(self.list), 3) others = None self.assertEquals(len(self.list), 2) def testIadd(self): others = [Dummy()] self.list += others self.assertIs(self.list[0], self.object1) self.assertEquals(len(self.list), 3) others = None self.assertEquals(len(self.list), 2) def testMul(self): l = self.list * 2 self.assertIs(l[0], self.object1) self.assertEquals(len(l), 4) self.object1 = None self.assertEquals(len(l), 2) self.assertIs(l[0], self.object2) self.assertIs(l[1], self.object2) def testImul(self): self.list *= 2 self.assertIs(self.list[0], self.object1) self.assertEquals(len(self.list), 4) self.object1 = None self.assertEquals(len(self.list), 2) self.assertIs(self.list[0], self.object2) self.assertIs(self.list[1], self.object2) def testCount(self): self.list.append(self.object2) self.assertEquals(self.list.count(self.object1), 1) self.assertEquals(self.list.count(self.object2), 2) def testIndex(self): self.assertEquals(self.list.index(self.object1), 0) self.assertEquals(self.list.index(self.object2), 1) def testInsert(self): obj = Dummy() self.list.insert(1, obj) self.assertEquals(len(self.list), 3) self.assertIs(self.list[1], obj) obj = None self.assertEquals(len(self.list), 2) def testReverse(self): self.list.reverse() self.assertEquals(len(self.list), 2) self.assertIs(self.list[0], self.object2) self.assertIs(self.list[1], self.object1) def testReverted(self): new_list = reversed(self.list) self.assertEquals(len(new_list), 2) self.assertIs(self.list[1], self.object2) self.assertIs(self.list[0], self.object1) self.assertIs(new_list[0], self.object2) self.assertIs(new_list[1], self.object1) self.object1 = None self.assertEquals(len(new_list), 1) def testStr(self): self.assertNotEquals(self.list.__str__(), "[]") def testRepr(self): self.assertNotEquals(self.list.__repr__(), "[]") def testSort(self): # only a coverage self.list.sort() self.assertEquals(len(self.list), 2) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestWeakMethod)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestWeakMethodProxy)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestWeakList)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/utils/launcher.py0000644023630100076410000002374313202530432017436 0ustar knobelusers00000000000000#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module define silx application available throug the silx launcher. """ __authors__ = ["P. Knobel", "V. Valls"] __license__ = "MIT" __date__ = "03/04/2017" import sys import importlib import contextlib import argparse import logging _logger = logging.getLogger(__name__) class LauncherCommand(): """Description of a command""" def __init__(self, name, description=None, module_name=None, function=None): """ Constructor :param str name: Name of the command :param str description: Description of the command :param str module_name: Module name to execute :param callable function: Python function to execute """ self.name = name self.module_name = module_name if description is None: description = "A command" self.description = description self.function = function def get_module(self): """Returns the python module to execute. If any. :rtype: module """ try: module = importlib.import_module(self.module_name) return module except ImportError as e: if "No module name" in e.args[0]: msg = "Error while reaching module '%s'" _logger.debug(msg, self.module_name, exc_info=True) missing_module = e.args[0].split("'")[1] msg = "Module '%s' is not installed but is mandatory."\ + " You can install it using \"pip install %s\"." _logger.error(msg, missing_module, missing_module) else: msg = "Error while reaching module '%s'" _logger.error(msg, self.module_name, exc_info=True) return None def get_function(self): """Returns the main function to execute. :rtype: callable """ if self.function is not None: return self.function else: module = self.get_module() if module is None: _logger.error("Imposible to load module name '%s'" % self.module_name) return None # reach the 'main' function if not hasattr(module, "main"): raise TypeError("Module excpect to have a 'main' function") else: main = getattr(module, "main") return main @contextlib.contextmanager def get_env(self, argv): """Fix the environement before and after executing the command. :param list argv: The list of arguments (the first one is the name of the application and command) :rtype: int """ # fix the context old_argv = sys.argv sys.argv = argv try: yield finally: # clean up the context sys.argv = old_argv def execute(self, argv): """Execute the command. :param list[str] argv: The list of arguments (the first one is the name of the application and command) :rtype: int :returns: The execution status """ with self.get_env(argv): func = self.get_function() if func is None: _logger.error("Imposible to execute the command '%s'" % self.name) return -1 try: status = func(argv) except SystemExit as e: # ArgumentParser likes to finish with a sys.exit status = e.args[0] return status class Launcher(object): """ Manage launch of module. Provides an API to describe available commands and feature to display help and execute the commands. """ def __init__(self, prog=None, usage=None, description=None, epilog=None, version=None): """ :param str prog: Name of the program. If it is not defined it uses the first argument of `sys.argv` :param str usage: Custom the string explaining the usage. Else it is autogenerated. :param str description: Description of the application displayed after the usage. :param str epilog: Custom the string displayed at the end of the help. :param str version: Define the version of the application. """ if prog is None: prog = sys.argv[0] self.prog = prog self.usage = usage self.description = description self.epilog = epilog self.version = version self._commands = {} help_command = LauncherCommand( "help", description="Show help of the following command", function=self.execute_help) self.add_command(command=help_command) def add_command(self, name=None, module_name=None, description=None, command=None): """ Add a command to the launcher. See also `LauncherCommand`. :param str name: Name of the command :param str module_name: Module to execute :param str description: Description of the command :param LauncherCommand command: A `LauncherCommand` """ if command is not None: assert(name is None and module_name is None and description is None) else: command = LauncherCommand( name=name, description=description, module_name=module_name) self._commands[command.name] = command def print_help(self): """Print the help to stdout. """ usage = self.usage if usage is None: usage = "usage: {0.prog} [--version|--help] []" description = self.description epilog = self.epilog if epilog is None: epilog = "See '{0.prog} help ' to read about a specific subcommand" print(usage.format(self)) print("") if description is not None: print(description) print("") print("The {0.prog} commands are:".format(self)) commands = sorted(self._commands.keys()) for command in commands: command = self._commands[command] print(" {:10s} {:s}".format(command.name, command.description)) print("") print(epilog.format(self)) def execute_help(self, argv): """Execute the help command. :param list[str] argv: The list of arguments (the first one is the name of the application with the help command) :rtype: int :returns: The execution status """ description = "Display help information about %s" % self.prog parser = argparse.ArgumentParser(description=description) parser.add_argument( 'command', default=None, nargs=argparse.OPTIONAL, help='Command in which aving help') try: options = parser.parse_args(argv[1:]) except SystemExit as e: # ArgumentParser likes to finish with a sys.exit return e.args[0] command_name = options.command if command_name is None: self.print_help() return 0 if command_name not in self._commands: print("Unknown command: %s", command_name) self.print_help() return -1 command = self._commands[command_name] prog = "%s %s" % (self.prog, command.name) return command.execute([prog, "--help"]) def execute(self, argv=None): """Execute the launcher. :param list[str] argv: The list of arguments (the first one is the name of the application) :rtype: int :returns: The execution status """ if argv is None: argv = sys.argv if len(argv) <= 1: self.print_help() return 0 command_name = argv[1] if command_name == "--version": print("%s version %s" % (self.prog, str(self.version))) return 0 if command_name in ["--help", "-h"]: # Special help command if len(argv) == 2: self.print_help() return 0 else: command_name = argv[2] command_argv = argv[2:] + ["--help"] command_argv[0] = "%s %s" % (self.prog, command_argv[0]) else: command_argv = argv[1:] command_argv[0] = "%s %s" % (self.prog, command_argv[0]) if command_name not in self._commands: print("Unknown command: %s" % command_name) self.print_help() return -1 command = self._commands[command_name] return command.execute(command_argv) silx-0.6.1/silx/utils/deprecation.py0000644023630100076410000001110213202530432020114 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Bunch of useful decorators""" from __future__ import absolute_import, print_function, division __authors__ = ["Jerome Kieffer", "H. Payno", "P. Knobel"] __license__ = "MIT" __date__ = "11/09/2017" import sys import logging import functools import traceback depreclog = logging.getLogger("silx.DEPRECATION") deprecache = set([]) def deprecated(func=None, reason=None, replacement=None, since_version=None, only_once=True): """ Decorator that deprecates the use of a function :param str reason: Reason for deprecating this function (e.g. "feature no longer provided", :param str replacement: Name of replacement function (if the reason for deprecating was to rename the function) :param str since_version: First *silx* version for which the function was deprecated (e.g. "0.5.0"). :param bool only_once: If true, the deprecation warning will only be generated one time. Default is true. """ def decorator(func): @functools.wraps(func) def wrapper(*args, **kwargs): name = func.func_name if sys.version_info[0] < 3 else func.__name__ deprecated_warning(type_='Function', name=name, reason=reason, replacement=replacement, since_version=since_version, only_once=only_once, skip_backtrace_count=1) return func(*args, **kwargs) return wrapper if func is not None: return decorator(func) return decorator def deprecated_warning(type_, name, reason=None, replacement=None, since_version=None, only_once=True, skip_backtrace_count=0): """ Function to log a deprecation warning :param str type_: Nature of the object to be deprecated: "Module", "Function", "Class" ... :param name: Object name. :param str reason: Reason for deprecating this function (e.g. "feature no longer provided", :param str replacement: Name of replacement function (if the reason for deprecating was to rename the function) :param str since_version: First *silx* version for which the function was deprecated (e.g. "0.5.0"). :param bool only_once: If true, the deprecation warning will only be generated one time for each different call locations. Default is true. :param int skip_backtrace_count: Amount of last backtrace to ignore when logging the backtrace """ if not depreclog.isEnabledFor(logging.WARNING): # Avoid computation when it is not logged return msg = "%s %s is deprecated" if since_version is not None: msg += " since silx version %s" % since_version msg += "." if reason is not None: msg += " Reason: %s." % reason if replacement is not None: msg += " Use '%s' instead." % replacement msg += "\n%s" limit = 2 + skip_backtrace_count backtrace = "".join(traceback.format_stack(limit=limit)[0]) backtrace = backtrace.rstrip() if only_once: data = (msg, type_, name, backtrace) if data in deprecache: return else: deprecache.add(data) depreclog.warning(msg, type_, name, backtrace) silx-0.6.1/silx/utils/html.py0000644023630100076410000000467313202530306016602 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Utils function relative to HTML """ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "19/09/2016" def escape(string, quote=True): """Returns a string where HTML metacharacters are properly escaped. Compatibility layer to avoid incompatibilities between Python versions, Qt versions and Qt bindings. >>> import silx.utils.html >>> silx.utils.html.escape("") >>> "<html>" .. note:: Since Python 3.3 you can use the `html` module. For previous version, it is provided by `sgi` module. .. note:: Qt4 provides it with `Qt.escape` while Qt5 provide it with `QString.toHtmlEscaped`. But `QString` is not exposed by `PyQt` or `PySide`. :param str string: Human readable string. :param bool quote: Escape quote and double quotes (default behaviour). :returns: Valid HTML syntax to display the input string. :rtype: str """ string = string.replace("&", "&") # must be done first string = string.replace("<", "<") string = string.replace(">", ">") if quote: string = string.replace("'", "'") string = string.replace("\"", """) return string silx-0.6.1/silx/utils/weakref.py0000644023630100076410000002742613202530306017263 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Weakref utils for compatibility between Python 2 and Python 3 or for extended features. """ from __future__ import absolute_import __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "15/09/2016" import weakref import types import inspect def ref(object, callback=None): """Returns a weak reference to object. The original object can be retrieved by calling the reference object if the referent is still alive. If the referent is no longer alive, calling the reference object will cause None to be returned. The signature is the same as the standard `weakref` library, but it returns `WeakMethod` if the object is a bound method. :param object: An object :param func callback: If provided, and the returned weakref object is still alive, the callback will be called when the object is about to be finalized. The weak reference object will be passed as the only parameter to the callback. Then the referent will no longer be available. :return: A weak reference to the object """ if inspect.ismethod(object): return WeakMethod(object, callback) else: return weakref.ref(object, callback) def proxy(object, callback=None): """Return a proxy to object which uses a weak reference. This supports use of the proxy in most contexts instead of requiring the explicit dereferencing used with weak reference objects. The signature is the same as the standard `weakref` library, but it returns `WeakMethodProxy` if the object is a bound method. :param object: An object :param func callback: If provided, and the returned weakref object is still alive, the callback will be called when the object is about to be finalized. The weak reference object will be passed as the only parameter to the callback. Then the referent will no longer be available. :return: A proxy to a weak reference of the object """ if inspect.ismethod(object): return WeakMethodProxy(object, callback) else: return weakref.proxy(object, callback) class WeakMethod(object): """Wraps a callable object like a function or a bound method. Feature callback when the object is about to be finalized. Provids the same interface as a normal weak reference. """ def __init__(self, function, callback=None): """ Constructor :param function: Function/method to be called :param callback: If callback is provided and not None, and the returned weakref object is still alive, the callback will be called when the object is about to be finalized; the weak reference object will be passed as the only parameter to the callback; the referent will no longer be available """ self.__callback = callback if inspect.ismethod(function): # it is a bound method self.__obj = weakref.ref(function.__self__, self.__call_callback) self.__method = weakref.ref(function.__func__, self.__call_callback) else: self.__obj = None self.__method = weakref.ref(function, self.__call_callback) def __call_callback(self, ref): """Called when the object is about to be finalized""" if not self.is_alive(): return self.__obj = None self.__method = None if self.__callback is not None: self.__callback(self) def __call__(self): """Return a callable function or None if the WeakMethod is dead.""" if self.__obj is not None: method = self.__method() obj = self.__obj() if method is None or obj is None: return None return types.MethodType(method, obj) elif self.__method is not None: return self.__method() else: return None def is_alive(self): """True if the WeakMethod is still alive""" return self.__method is not None def __eq__(self, other): """Check it another obect is equal to this. :param object other: Object to compare with """ if isinstance(other, WeakMethod): if not self.is_alive(): return False return self.__obj == other.__obj and self.__method == other.__method return False def __ne__(self, other): """Check it another obect is not equal to this. :param object other: Object to compare with """ if isinstance(other, WeakMethod): if not self.is_alive(): return False return self.__obj != other.__obj or self.__method != other.__method return True def __hash__(self): """Returns the hash for the object.""" return self.__obj.__hash__() ^ self.__method.__hash__() class WeakMethodProxy(WeakMethod): """Wraps a callable object like a function or a bound method with a weakref proxy. """ def __call__(self, *args, **kwargs): """Dereference the method and call it if the method is still alive. Else raises an ReferenceError. :raises: ReferenceError, if the method is not alive """ fn = super(WeakMethodProxy, self).__call__() if fn is None: raise ReferenceError("weakly-referenced object no longer exists") return fn(*args, **kwargs) class WeakList(list): """Manage a list of weaked references. When an object is dead, the list is flaged as invalid. If expected the list is cleaned up to remove dead objects. """ def __init__(self, enumerator=()): """Create a WeakList :param iterator enumerator: A list of object to initialize the list """ list.__init__(self) self.__list = [] self.__is_valid = True for obj in enumerator: self.append(obj) def __invalidate(self, ref): """Flag the list as invalidated. The list contains dead references.""" self.__is_valid = False def __create_ref(self, obj): """Create a weakref from an object. It uses the `ref` module function. """ return ref(obj, self.__invalidate) def __clean(self): """Clean the list from dead references""" if self.__is_valid: return self.__list = [ref for ref in self.__list if ref() is not None] self.__is_valid = True def __iter__(self): """Iterate over objects of the list""" for ref in self.__list: obj = ref() if obj is not None: yield obj def __len__(self): """Count item on the list""" self.__clean() return len(self.__list) def __getitem__(self, key): """Returns the object at the requested index :param key: Indexes to get :type key: int or slice """ self.__clean() data = self.__list[key] if isinstance(data, list): result = [ref() for ref in data] else: result = data() return result def __setitem__(self, key, obj): """Set an item at an index :param key: Indexes to set :type key: int or slice """ self.__clean() if isinstance(key, slice): objs = [self.__create_ref(o) for o in obj] self.__list[key] = objs else: obj_ref = self.__create_ref(obj) self.__list[key] = obj_ref def __delitem__(self, key): """Delete an Indexes item of this list :param key: Index to delete :type key: int or slice """ self.__clean() del self.__list[key] def __delslice__(self, i, j): """Looks to be used in Python 2.7""" self.__delitem__(slice(i, j, None)) def __setslice__(self, i, j, sequence): """Looks to be used in Python 2.7""" self.__setitem__(slice(i, j, None), sequence) def __getslice__(self, i, j): """Looks to be used in Python 2.7""" return self.__getitem__(slice(i, j, None)) def __reversed__(self): """Returns a copy of the reverted list""" reversed_list = reversed(list(self)) return WeakList(reversed_list) def __contains__(self, obj): """Returns true if the object is in the list""" ref = self.__create_ref(obj) return ref in self.__list def __add__(self, other): """Returns a WeakList containing this list an the other""" l = WeakList(self) l.extend(other) return l def __iadd__(self, other): """Add objects to this list inplace""" self.extend(other) return self def __mul__(self, n): """Returns a WeakList containing n-duplication object of this list""" return WeakList(list(self) * n) def __imul__(self, n): """N-duplication of the objects to this list inplace""" self.__list *= n return self def append(self, obj): """Add an object at the end of the list""" ref = self.__create_ref(obj) self.__list.append(ref) def count(self, obj): """Returns the number of occurencies of an object""" ref = self.__create_ref(obj) return self.__list.count(ref) def extend(self, other): """Append the list with all objects from another list""" for obj in other: self.append(obj) def index(self, obj): """Returns the index of an object""" ref = self.__create_ref(obj) return self.__list.index(ref) def insert(self, index, obj): """Insert an object at the requested index""" ref = self.__create_ref(obj) self.__list.insert(index, ref) def pop(self, index): """Remove and return an object at the requested index""" self.__clean() obj = self.__list.pop(index)() return obj def remove(self, obj): """Remove an object from the list""" ref = self.__create_ref(obj) self.__list.remove(ref) def reverse(self): """Reverse the list inplace""" self.__list.reverse() def sort(self, key=None, reverse=False): """Sort the list inplace. Not very efficient. """ sorted_list = list(self) sorted_list.sort(key=key, reverse=reverse) self.__list = [] self.extend(sorted_list) def __str__(self): unref_list = list(self) return "WeakList(%s)" % str(unref_list) def __repr__(self): unref_list = list(self) return "WeakList(%s)" % repr(unref_list) silx-0.6.1/silx/utils/proxy.py0000644023630100076410000002101713202530432017006 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module containing proxy objects""" from __future__ import absolute_import, print_function, division __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "02/10/2017" from silx.third_party import six class Proxy(object): """Create a proxy of an object. Provides default methods and property using :meth:`__getattr__` and special method by redefining them one by one. Special methods are defined as properties, as a result if the `obj` method is not defined, the property code fail and the special method will not be visible. """ __slots__ = ["__obj", "__weakref__"] def __init__(self, obj): object.__setattr__(self, "_Proxy__obj", obj) __class__ = property(lambda self: self.__obj.__class__) def __getattr__(self, name): return getattr(self.__obj, name) __setattr__ = property(lambda self: self.__obj.__setattr__) __delattr__ = property(lambda self: self.__obj.__delattr__) # binary comparator methods __lt__ = property(lambda self: self.__obj.__lt__) __le__ = property(lambda self: self.__obj.__le__) __eq__ = property(lambda self: self.__obj.__eq__) __ne__ = property(lambda self: self.__obj.__ne__) __gt__ = property(lambda self: self.__obj.__gt__) __ge__ = property(lambda self: self.__obj.__ge__) if six.PY2: __cmp__ = property(lambda self: self.__obj.__cmp__) # binary numeric methods __add__ = property(lambda self: self.__obj.__add__) __radd__ = property(lambda self: self.__obj.__radd__) __iadd__ = property(lambda self: self.__obj.__iadd__) __sub__ = property(lambda self: self.__obj.__sub__) __rsub__ = property(lambda self: self.__obj.__rsub__) __isub__ = property(lambda self: self.__obj.__isub__) __mul__ = property(lambda self: self.__obj.__mul__) __rmul__ = property(lambda self: self.__obj.__rmul__) __imul__ = property(lambda self: self.__obj.__imul__) if six.PY2: # Only part of Python 2 # Python 3 uses __truediv__ and __floordiv__ __div__ = property(lambda self: self.__obj.__div__) __rdiv__ = property(lambda self: self.__obj.__rdiv__) __idiv__ = property(lambda self: self.__obj.__idiv__) __truediv__ = property(lambda self: self.__obj.__truediv__) __rtruediv__ = property(lambda self: self.__obj.__rtruediv__) __itruediv__ = property(lambda self: self.__obj.__itruediv__) __floordiv__ = property(lambda self: self.__obj.__floordiv__) __rfloordiv__ = property(lambda self: self.__obj.__rfloordiv__) __ifloordiv__ = property(lambda self: self.__obj.__ifloordiv__) __mod__ = property(lambda self: self.__obj.__mod__) __rmod__ = property(lambda self: self.__obj.__rmod__) __imod__ = property(lambda self: self.__obj.__imod__) __divmod__ = property(lambda self: self.__obj.__divmod__) __rdivmod__ = property(lambda self: self.__obj.__rdivmod__) __pow__ = property(lambda self: self.__obj.__pow__) __rpow__ = property(lambda self: self.__obj.__rpow__) __ipow__ = property(lambda self: self.__obj.__ipow__) __lshift__ = property(lambda self: self.__obj.__lshift__) __rlshift__ = property(lambda self: self.__obj.__rlshift__) __ilshift__ = property(lambda self: self.__obj.__ilshift__) __rshift__ = property(lambda self: self.__obj.__rshift__) __rrshift__ = property(lambda self: self.__obj.__rrshift__) __irshift__ = property(lambda self: self.__obj.__irshift__) # binary logical methods __and__ = property(lambda self: self.__obj.__and__) __rand__ = property(lambda self: self.__obj.__rand__) __iand__ = property(lambda self: self.__obj.__iand__) __xor__ = property(lambda self: self.__obj.__xor__) __rxor__ = property(lambda self: self.__obj.__rxor__) __ixor__ = property(lambda self: self.__obj.__ixor__) __or__ = property(lambda self: self.__obj.__or__) __ror__ = property(lambda self: self.__obj.__ror__) __ior__ = property(lambda self: self.__obj.__ior__) # unary methods __neg__ = property(lambda self: self.__obj.__neg__) __pos__ = property(lambda self: self.__obj.__pos__) __abs__ = property(lambda self: self.__obj.__abs__) __invert__ = property(lambda self: self.__obj.__invert__) if six.PY3: __floor__ = property(lambda self: self.__obj.__floor__) __ceil__ = property(lambda self: self.__obj.__ceil__) __round__ = property(lambda self: self.__obj.__round__) # cast __repr__ = property(lambda self: self.__obj.__repr__) __str__ = property(lambda self: self.__obj.__str__) __complex__ = property(lambda self: self.__obj.__complex__) __int__ = property(lambda self: self.__obj.__int__) __float__ = property(lambda self: self.__obj.__float__) __hash__ = property(lambda self: self.__obj.__hash__) if six.PY2: __long__ = property(lambda self: self.__obj.__long__) __oct__ = property(lambda self: self.__obj.__oct__) __hex__ = property(lambda self: self.__obj.__hex__) __unicode__ = property(lambda self: self.__obj.__unicode__) __nonzero__ = property(lambda self: lambda: bool(self.__obj)) if six.PY3: __bytes__ = property(lambda self: self.__obj.__bytes__) __bool__ = property(lambda self: lambda: bool(self.__obj)) __format__ = property(lambda self: self.__obj.__format__) # container __len__ = property(lambda self: self.__obj.__len__) if six.PY3: __length_hint__ = property(lambda self: self.__obj.__length_hint__) __getitem__ = property(lambda self: self.__obj.__getitem__) __missing__ = property(lambda self: self.__obj.__missing__) __setitem__ = property(lambda self: self.__obj.__setitem__) __delitem__ = property(lambda self: self.__obj.__delitem__) __iter__ = property(lambda self: self.__obj.__iter__) __reversed__ = property(lambda self: self.__obj.__reversed__) __contains__ = property(lambda self: self.__obj.__contains__) if six.PY2: __getslice__ = property(lambda self: self.__obj.__getslice__) __setslice__ = property(lambda self: self.__obj.__setslice__) __delslice__ = property(lambda self: self.__obj.__delslice__) # pickle __reduce__ = property(lambda self: self.__obj.__reduce__) __reduce_ex__ = property(lambda self: self.__obj.__reduce_ex__) # async if six.PY3: __await__ = property(lambda self: self.__obj.__await__) __aiter__ = property(lambda self: self.__obj.__aiter__) __anext__ = property(lambda self: self.__obj.__anext__) __aenter__ = property(lambda self: self.__obj.__aenter__) __aexit__ = property(lambda self: self.__obj.__aexit__) # other __index__ = property(lambda self: self.__obj.__index__) if six.PY2: __coerce__ = property(lambda self: self.__obj.__coerce__) if six.PY3: __next__ = property(lambda self: self.__obj.__next__) __enter__ = property(lambda self: self.__obj.__enter__) __exit__ = property(lambda self: self.__obj.__exit__) __concat__ = property(lambda self: self.__obj.__concat__) __iconcat__ = property(lambda self: self.__obj.__iconcat__) if six.PY2: __repeat__ = property(lambda self: self.__obj.__repeat__) __irepeat__ = property(lambda self: self.__obj.__irepeat__) __call__ = property(lambda self: self.__obj.__call__) silx-0.6.1/silx/utils/__init__.py0000644023630100076410000000000013202530306017351 0ustar knobelusers00000000000000silx-0.6.1/silx/utils/array_like.py0000644023630100076410000005161613202530432017757 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Functions and classes for array-like objects, implementing common numpy array features for datasets or nested sequences, while trying to avoid copying data. Classes: - :class:`DatasetView`: Similar to a numpy view, to access a h5py dataset as if it was transposed, without casting it into a numpy array (this lets h5py handle reading the data from the file into memory, as needed). - :class:`ListOfImages`: Similar to a numpy view, to access a list of 2D numpy arrays as if it was a 3D array (possibly transposed), without casting it into a numpy array. Functions: - :func:`is_array` - :func:`is_list_of_arrays` - :func:`is_nested_sequence` - :func:`get_shape` - :func:`get_dtype` - :func:`get_concatenated_dtype` """ from __future__ import absolute_import, print_function, division import numpy import sys from silx.third_party import six __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "26/04/2017" def is_array(obj): """Return True if object implements necessary attributes to be considered similar to a numpy array. Attributes needed are "shape", "dtype", "__getitem__" and "__array__". :param obj: Array-like object (numpy array, h5py dataset...) :return: boolean """ # add more required attribute if necessary for attr in ("shape", "dtype", "__array__", "__getitem__"): if not hasattr(obj, attr): return False return True def is_list_of_arrays(obj): """Return True if object is a sequence of numpy arrays, e.g. a list of images as 2D arrays. :param obj: list of arrays :return: boolean""" # object must not be a numpy array if is_array(obj): return False # object must have a __len__ method if not hasattr(obj, "__len__"): return False # all elements in sequence must be arrays for arr in obj: if not is_array(arr): return False return True def is_nested_sequence(obj): """Return True if object is a nested sequence. A simple 1D sequence is considered to be a nested sequence. Numpy arrays and h5py datasets are not considered to be nested sequences. To test if an object is a nested sequence in a more general sense, including arrays and datasets, use:: is_nested_sequence(obj) or is_array(obj) :param obj: nested sequence (numpy array, h5py dataset...) :return: boolean""" # object must not be a numpy array if is_array(obj): return False if not hasattr(obj, "__len__"): return False # obj must not be a list of (lists of) numpy arrays subsequence = obj while hasattr(subsequence, "__len__"): if is_array(subsequence): return False # strings cause infinite loops if isinstance(subsequence, six.string_types + (six.binary_type, )): return True subsequence = subsequence[0] # object has __len__ and is not an array return True def get_shape(array_like): """Return shape of an array like object. In case the object is a nested sequence but not an array or dataset (list of lists, tuples...), the size of each dimension is assumed to be uniform, and is deduced from the length of the first sequence. :param array_like: Array like object: numpy array, hdf5 dataset, multi-dimensional sequence :return: Shape of array, as a tuple of integers """ if hasattr(array_like, "shape"): return array_like.shape shape = [] subsequence = array_like while hasattr(subsequence, "__len__"): shape.append(len(subsequence)) # strings cause infinite loops if isinstance(subsequence, six.string_types + (six.binary_type, )): break subsequence = subsequence[0] return tuple(shape) def get_dtype(array_like): """Return dtype of an array like object. In the case of a nested sequence, the type of the first value is inspected. :param array_like: Array like object: numpy array, hdf5 dataset, multi-dimensional nested sequence :return: numpy dtype of object """ if hasattr(array_like, "dtype"): return array_like.dtype subsequence = array_like while hasattr(subsequence, "__len__"): # strings cause infinite loops if isinstance(subsequence, six.string_types + (six.binary_type, )): break subsequence = subsequence[0] return numpy.dtype(type(subsequence)) def get_concatenated_dtype(arrays): """Return dtype of array resulting of concatenation of a list of arrays (without actually concatenating them). :param arrays: list of numpy arrays :return: resulting dtype after concatenating arrays """ dtypes = {a.dtype for a in arrays} dummy = [] for dt in dtypes: dummy.append(numpy.zeros((1, 1), dtype=dt)) return numpy.array(dummy).dtype class ListOfImages(object): """This class provides a way to access values and slices in a stack of images stored as a list of 2D numpy arrays, without creating a 3D numpy array first. A transposition can be specified, as a 3-tuple of dimensions in the wanted order. For example, to transpose from ``xyz`` ``(0, 1, 2)`` into ``yzx``, the transposition tuple is ``(1, 2, 0)`` All the 2D arrays in the list must have the same shape. The global dtype of the stack of images is the one that would be obtained by casting the list of 2D arrays into a 3D numpy array. :param images: list of 2D numpy arrays, or :class:`ListOfImages` object :param transposition: Tuple of dimension numbers in the wanted order """ def __init__(self, images, transposition=None): """ """ super(ListOfImages, self).__init__() # if images is a ListOfImages instance, get the underlying data # as a list of 2D arrays if isinstance(images, ListOfImages): images = images.images # test stack of images is as expected assert is_list_of_arrays(images), \ "Image stack must be a list of arrays" image0_shape = images[0].shape for image in images: assert image.ndim == 2, \ "Images must be 2D numpy arrays" assert image.shape == image0_shape, \ "All images must have the same shape" self.images = images """List of images""" self.shape = (len(images), ) + image0_shape """Tuple of array dimensions""" self.dtype = get_concatenated_dtype(images) """Data-type of the global array""" self.ndim = 3 """Number of array dimensions""" self.size = len(images) * image0_shape[0] * image0_shape[1] """Number of elements in the array.""" self.transposition = list(range(self.ndim)) """List of dimension indices, in an order depending on the specified transposition. By default this is simply [0, ..., self.ndim], but it can be changed by specifying a different ``transposition`` parameter at initialization. Use :meth:`transpose`, to create a new :class:`ListOfImages` with a different :attr:`transposition`. """ if transposition is not None: assert len(transposition) == self.ndim assert set(transposition) == set(list(range(self.ndim))), \ "Transposition must be a sequence containing all dimensions" self.transposition = transposition self.__sort_shape() def __sort_shape(self): """Sort shape in the order defined in :attr:`transposition` """ new_shape = tuple(self.shape[dim] for dim in self.transposition) self.shape = new_shape def __sort_indices(self, indices): """Return array indices sorted in the order needed to access data in the original non-transposed images. :param indices: Tuple of ndim indices, in the order needed to access the transposed view :return: Sorted tuple of indices, to access original data """ assert len(indices) == self.ndim sorted_indices = tuple(idx for (_, idx) in sorted(zip(self.transposition, indices))) return sorted_indices def __array__(self, dtype=None): """Cast the images into a numpy array, and return it. If a transposition has been done on this images, return a transposed view of a numpy array.""" return numpy.transpose(numpy.array(self.images, dtype=dtype), self.transposition) def __len__(self): return self.shape[0] def transpose(self, transposition=None): """Return a re-ordered (dimensions permutated) :class:`ListOfImages`. The returned object refers to the same images but with a different :attr:`transposition`. :param list[int] transposition: List/tuple of dimension numbers in the wanted order. If ``None`` (default), reverse the dimensions. :return: new :class:`ListOfImages` object """ # by default, reverse the dimensions if transposition is None: transposition = list(reversed(self.transposition)) # If this ListOfImages is already transposed, sort new transposition # relative to old transposition elif list(self.transposition) != list(range(self.ndim)): transposition = [self.transposition[i] for i in transposition] return ListOfImages(self.images, transposition) @property def T(self): """ Same as self.transpose() :return: DatasetView with dimensions reversed.""" return self.transpose() def __getitem__(self, item): """Handle a subset of numpy indexing with regards to the dimension order as specified in :attr:`transposition` Following features are **not supported**: - fancy indexing using numpy arrays - using ellipsis objects :param item: Index :return: value or slice as a numpy array """ # 1-D slicing -> n-D slicing (n=1) if not hasattr(item, "__len__"): # first dimension index is given item = [item] # following dimensions are indexed with : (all elements) item += [slice(None) for _i in range(self.ndim - 1)] # n-dimensional slicing if len(item) != self.ndim: raise IndexError( "N-dim slicing requires a tuple of N indices/slices. " + "Needed dimensions: %d" % self.ndim) # get list of indices sorted in the original images order sorted_indices = self.__sort_indices(item) list_idx, array_idx = sorted_indices[0], sorted_indices[1:] images_selection = self.images[list_idx] # now we must transpose the output data output_dimensions = [] frozen_dimensions = [] for i, idx in enumerate(item): # slices and sequences if not isinstance(idx, int): output_dimensions.append(self.transposition[i]) # regular integer index else: # whenever a dimension is fixed (indexed by an integer) # the number of output dimension is reduced frozen_dimensions.append(self.transposition[i]) # decrement output dimensions that are above frozen dimensions for frozen_dim in reversed(sorted(frozen_dimensions)): for i, out_dim in enumerate(output_dimensions): if out_dim > frozen_dim: output_dimensions[i] -= 1 assert (len(output_dimensions) + len(frozen_dimensions)) == self.ndim assert set(output_dimensions) == set(range(len(output_dimensions))) # single list elements selected if isinstance(images_selection, numpy.ndarray): return numpy.transpose(images_selection[array_idx], axes=output_dimensions) # muliple list elements selected else: # apply selection first output_stack = [] for img in images_selection: output_stack.append(img[array_idx]) # then cast into a numpy array, and transpose return numpy.transpose(numpy.array(output_stack), axes=output_dimensions) def min(self): """ :return: Global minimum value """ min_value = self.images[0].min() if len(self.images) > 1: for img in self.images[1:]: min_value = min(min_value, img.min()) return min_value def max(self): """ :return: Global maximum value """ max_value = self.images[0].max() if len(self.images) > 1: for img in self.images[1:]: max_value = max(max_value, img.max()) return max_value class DatasetView(object): """This class provides a way to transpose a dataset without casting it into a numpy array. This way, the dataset in a file need not necessarily be integrally read into memory to view it in a different transposition. .. note:: The performances depend a lot on the way the dataset was written to file. Depending on the chunking strategy, reading a complete 2D slice in an unfavorable direction may still require the entire dataset to be read from disk. :param dataset: h5py dataset :param transposition: List of dimensions sorted in the order of transposition (relative to the original h5py dataset) """ def __init__(self, dataset, transposition=None): """ """ super(DatasetView, self).__init__() self.dataset = dataset """original dataset""" self.shape = dataset.shape """Tuple of array dimensions""" self.dtype = dataset.dtype """Data-type of the array’s element""" self.ndim = len(dataset.shape) """Number of array dimensions""" size = 0 if self.ndim: size = 1 for dimsize in self.shape: size *= dimsize self.size = size """Number of elements in the array.""" self.transposition = list(range(self.ndim)) """List of dimension indices, in an order depending on the specified transposition. By default this is simply [0, ..., self.ndim], but it can be changed by specifying a different `transposition` parameter at initialization. Use :meth:`transpose`, to create a new :class:`DatasetView` with a different :attr:`transposition`. """ if transposition is not None: assert len(transposition) == self.ndim assert set(transposition) == set(list(range(self.ndim))), \ "Transposition must be a list containing all dimensions" self.transposition = transposition self.__sort_shape() def __sort_shape(self): """Sort shape in the order defined in :attr:`transposition` """ new_shape = tuple(self.shape[dim] for dim in self.transposition) self.shape = new_shape def __sort_indices(self, indices): """Return array indices sorted in the order needed to access data in the original non-transposed dataset. :param indices: Tuple of ndim indices, in the order needed to access the view :return: Sorted tuple of indices, to access original data """ assert len(indices) == self.ndim sorted_indices = tuple(idx for (_, idx) in sorted(zip(self.transposition, indices))) return sorted_indices def __getitem__(self, item): """Handle fancy indexing with regards to the dimension order as specified in :attr:`transposition` The supported fancy-indexing syntax is explained at http://docs.h5py.org/en/latest/high/dataset.html#fancy-indexing. Additional restrictions exist if the data has been transposed: - numpy boolean array indexing is not supported - ellipsis objects are not supported :param item: Index, possibly fancy index (must be supported by h5py) :return: Sliced numpy array or numpy scalar """ # no transposition, let the original dataset handle indexing if self.transposition == list(range(self.ndim)): return self.dataset[item] # 1-D slicing: create a list of indices to switch to n-D slicing if not hasattr(item, "__len__"): # first dimension index (list index) is given item = [item] # following dimensions are indexed with slices representing all elements item += [slice(None) for _i in range(self.ndim - 1)] # n-dimensional slicing if len(item) != self.ndim: raise IndexError( "N-dim slicing requires a tuple of N indices/slices. " + "Needed dimensions: %d" % self.ndim) # get list of indices sorted in the original dataset order sorted_indices = self.__sort_indices(item) output_data_not_transposed = self.dataset[sorted_indices] # now we must transpose the output data output_dimensions = [] frozen_dimensions = [] for i, idx in enumerate(item): # slices and sequences if not isinstance(idx, int): output_dimensions.append(self.transposition[i]) # regular integer index else: # whenever a dimension is fixed (indexed by an integer) # the number of output dimension is reduced frozen_dimensions.append(self.transposition[i]) # decrement output dimensions that are above frozen dimensions for frozen_dim in reversed(sorted(frozen_dimensions)): for i, out_dim in enumerate(output_dimensions): if out_dim > frozen_dim: output_dimensions[i] -= 1 assert (len(output_dimensions) + len(frozen_dimensions)) == self.ndim assert set(output_dimensions) == set(range(len(output_dimensions))) return numpy.transpose(output_data_not_transposed, axes=output_dimensions) def __array__(self, dtype=None): """Cast the dataset into a numpy array, and return it. If a transposition has been done on this dataset, return a transposed view of a numpy array.""" return numpy.transpose(numpy.array(self.dataset, dtype=dtype), self.transposition) def __len__(self): return self.shape[0] def transpose(self, transposition=None): """Return a re-ordered (dimensions permutated) :class:`DatasetView`. The returned object refers to the same dataset but with a different :attr:`transposition`. :param list[int] transposition: List of dimension numbers in the wanted order. If ``None`` (default), reverse the dimensions. :return: Transposed DatasetView """ # by default, reverse the dimensions if transposition is None: transposition = list(reversed(self.transposition)) # If this DatasetView is already transposed, sort new transposition # relative to old transposition elif list(self.transposition) != list(range(self.ndim)): transposition = [self.transposition[i] for i in transposition] return DatasetView(self.dataset, transposition) @property def T(self): """ Same as self.transpose() :return: DatasetView with dimensions reversed.""" return self.transpose() silx-0.6.1/silx/utils/setup.py0000644023630100076410000000325013202530306016764 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "24/08/2016" from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('utils', parent_package, top_path) config.add_subpackage('test') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/app/0000755023630100076410000000000013202537043014677 5ustar knobelusers00000000000000silx-0.6.1/silx/app/test_.py0000644023630100076410000001403313202530432016363 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Launch unittests of the library""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "04/08/2017" import sys import os import argparse import logging import unittest class StreamHandlerUnittestReady(logging.StreamHandler): """The unittest class TestResult redefine sys.stdout/err to capture stdout/err from tests and to display them only when a test fail. This class allow to use unittest stdout-capture by using the last sys.stdout and not a cached one. """ def emit(self, record): """ :type record: logging.LogRecord """ self.stream = sys.stderr super(StreamHandlerUnittestReady, self).emit(record) def flush(self): pass def createBasicHandler(): """Create the handler using the basic configuration""" hdlr = StreamHandlerUnittestReady() fs = logging.BASIC_FORMAT dfs = None fmt = logging.Formatter(fs, dfs) hdlr.setFormatter(fmt) return hdlr # Use an handler compatible with unittests, else use_buffer is not working for h in logging.root.handlers: logging.root.removeHandler(h) logging.root.addHandler(createBasicHandler()) logging.captureWarnings(True) _logger = logging.getLogger(__name__) """Module logger""" class TextTestResultWithSkipList(unittest.TextTestResult): """Override default TextTestResult to display list of skipped tests at the end """ def printErrors(self): unittest.TextTestResult.printErrors(self) # Print skipped tests at the end self.printErrorList("SKIPPED", self.skipped) def main(argv): """ Main function to launch the unittests as an application :param argv: Command line arguments :returns: exit status """ parser = argparse.ArgumentParser(description=__doc__) parser.add_argument("-v", "--verbose", default=0, action="count", dest="verbose", help="Increase verbosity. Option -v prints additional " + "INFO messages. Use -vv for full verbosity, " + "including debug messages and test help strings.") parser.add_argument("-x", "--no-gui", dest="gui", default=True, action="store_false", help="Disable the test of the graphical use interface") parser.add_argument("-g", "--no-opengl", dest="opengl", default=True, action="store_false", help="Disable tests using OpenGL") parser.add_argument("-o", "--no-opencl", dest="opencl", default=True, action="store_false", help="Disable the test of the OpenCL part") parser.add_argument("-l", "--low-mem", dest="low_mem", default=False, action="store_true", help="Disable test with large memory consumption (>100Mbyte") parser.add_argument("--qt-binding", dest="qt_binding", default=None, help="Force using a Qt binding, from 'PyQt4', 'PyQt5', or 'PySide'") options = parser.parse_args(argv[1:]) test_verbosity = 1 use_buffer = True if options.verbose == 1: logging.root.setLevel(logging.INFO) _logger.info("Set log level: INFO") test_verbosity = 2 use_buffer = False elif options.verbose > 1: logging.root.setLevel(logging.DEBUG) _logger.info("Set log level: DEBUG") test_verbosity = 2 use_buffer = False if not options.gui: os.environ["WITH_QT_TEST"] = "False" if not options.opencl: os.environ["SILX_OPENCL"] = "False" if not options.opengl: os.environ["WITH_GL_TEST"] = "False" if options.low_mem: os.environ["SILX_TEST_LOW_MEM"] = "True" if options.qt_binding: binding = options.qt_binding.lower() if binding == "pyqt4": _logger.info("Force using PyQt4") import PyQt4.QtCore # noqa elif binding == "pyqt5": _logger.info("Force using PyQt5") import PyQt5.QtCore # noqa elif binding == "pyside": _logger.info("Force using PySide") import PySide.QtCore # noqa else: raise ValueError("Qt binding '%s' is unknown" % options.qt_binding) # Run the tests runnerArgs = {} runnerArgs["verbosity"] = test_verbosity runnerArgs["buffer"] = use_buffer runner = unittest.TextTestRunner(**runnerArgs) runner.resultclass = TextTestResultWithSkipList # Display the result when using CTRL-C unittest.installHandler() import silx.test test_suite = unittest.TestSuite() test_suite.addTest(silx.test.suite()) result = runner.run(test_suite) if result.wasSuccessful(): exit_status = 0 else: exit_status = 1 return exit_status silx-0.6.1/silx/app/test/0000755023630100076410000000000013202537043015656 5ustar knobelusers00000000000000silx-0.6.1/silx/app/test/test_view.py0000644023630100076410000001073313202530432020240 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module testing silx.app.view""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "29/09/2017" import unittest import sys import os # TODO: factor this code with silx.gui.test with_qt = False if sys.platform.startswith('linux') and not os.environ.get('DISPLAY', ''): reason = 'test disabled (DISPLAY env. variable not set)' view = None TestCaseQt = unittest.TestCase elif os.environ.get('WITH_QT_TEST', 'True') == 'False': reason = "test disabled (env. variable WITH_QT_TEST=False)" view = None TestCaseQt = unittest.TestCase else: from silx.gui.test.utils import TestCaseQt from .. import view with_qt = True reason = "" class QApplicationMock(object): def __init__(self, args): pass def exec_(self): return 0 def deleteLater(self): pass class ViewerMock(object): def __init__(self): super(ViewerMock, self).__init__() self.__class__._instance = self self.appendFileCalls = [] def appendFile(self, filename): self.appendFileCalls.append(filename) def resize(self, size): pass def show(self): pass @unittest.skipUnless(with_qt, "Qt binding required for TestLauncher") class TestLauncher(unittest.TestCase): """Test command line parsing""" @classmethod def setUpClass(cls): super(TestLauncher, cls).setUpClass() cls._Viewer = view.Viewer view.Viewer = ViewerMock cls._QApplication = view.qt.QApplication view.qt.QApplication = QApplicationMock @classmethod def tearDownClass(cls): view.Viewer = cls._Viewer view.qt.QApplication = cls._QApplication cls._Viewer = None super(TestLauncher, cls).tearDownClass() def testHelp(self): # option -h must cause a raise SystemExit or a return 0 try: result = view.main(["view", "--help"]) except SystemExit as e: result = e.args[0] self.assertEqual(result, 0) def testWrongOption(self): try: result = view.main(["view", "--foo"]) except SystemExit as e: result = e.args[0] self.assertNotEqual(result, 0) def testWrongFile(self): try: result = view.main(["view", "__file.not.found__"]) except SystemExit as e: result = e.args[0] self.assertEqual(result, 0) def testFile(self): # sys.executable is an existing readable file result = view.main(["view", sys.executable]) self.assertEqual(result, 0) viewer = ViewerMock._instance self.assertEqual(viewer.appendFileCalls, [sys.executable]) ViewerMock._instance = None class TestViewer(TestCaseQt): """Test for Viewer class""" @unittest.skipUnless(with_qt, reason) def testConstruct(self): if view is not None: widget = view.Viewer() self.qWaitForWindowExposed(widget) def suite(): test_suite = unittest.TestSuite() loader = unittest.defaultTestLoader.loadTestsFromTestCase test_suite.addTest(loader(TestViewer)) test_suite.addTest(loader(TestLauncher)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/app/test/test_convert.py0000644023630100076410000001300013202530432020734 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module testing silx.app.convert""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "12/09/2017" import os import sys import tempfile import unittest import io import gc try: import h5py except ImportError: h5py = None import silx from .. import convert from silx.test import utils # content of a spec file sftext = """#F /tmp/sf.dat #E 1455180875 #D Thu Feb 11 09:54:35 2016 #C imaging User = opid17 #O0 Pslit HGap MRTSlit UP MRTSlit DOWN #O1 Sslit1 VOff Sslit1 HOff Sslit1 VGap #o0 pshg mrtu mrtd #o2 ss1vo ss1ho ss1vg #J0 Seconds IA ion.mono Current #J1 xbpmc2 idgap1 Inorm #S 1 ascan ss1vo -4.55687 -0.556875 40 0.2 #D Thu Feb 11 09:55:20 2016 #T 0.2 (Seconds) #P0 180.005 -0.66875 0.87125 #P1 14.74255 16.197579 12.238283 #N 4 #L MRTSlit UP second column 3rd_col -1.23 5.89 8 8.478100E+01 5 1.56 3.14 2.73 -3.14 1.2 2.3 3.4 #S 1 aaaaaa #D Thu Feb 11 10:00:32 2016 #@MCADEV 1 #@MCA %16C #@CHANN 3 0 2 1 #@CALIB 1 2 3 #N 3 #L uno duo 1 2 @A 0 1 2 @A 10 9 8 3 4 @A 3.1 4 5 @A 7 6 5 5 6 @A 6 7.7 8 @A 4 3 2 """ class TestConvertCommand(unittest.TestCase): """Test command line parsing""" def testHelp(self): # option -h must cause a `raise SystemExit` or a `return 0` try: result = convert.main(["convert", "--help"]) except SystemExit as e: result = e.args[0] self.assertEqual(result, 0) @unittest.skipUnless(h5py is None, "h5py is installed, this test is specific to h5py missing") @utils.test_logging(convert._logger.name, error=1) def testH5pyNotInstalled(self): result = convert.main(["convert", "foo.spec", "bar.edf"]) # we explicitly return -1 if h5py is not imported self.assertNotEqual(result, 0) @unittest.skipIf(h5py is None, "h5py is required to test convert") def testWrongOption(self): # presence of a wrong option must cause a SystemExit or a return # with a non-zero status try: result = convert.main(["convert", "--foo"]) except SystemExit as e: result = e.args[0] self.assertNotEqual(result, 0) @unittest.skipIf(h5py is None, "h5py is required to test convert") @utils.test_logging(convert._logger.name, error=3) # one error log per missing file + one "Aborted" error log def testWrongFiles(self): result = convert.main(["convert", "foo.spec", "bar.edf"]) self.assertNotEqual(result, 0) @unittest.skipIf(h5py is None, "h5py is required to test convert") def testFile(self): # create a writable temp directory tempdir = tempfile.mkdtemp() # write a temporary SPEC file specname = os.path.join(tempdir, "input.dat") with io.open(specname, "wb") as fd: if sys.version < '3.0': fd.write(sftext) else: fd.write(bytes(sftext, 'ascii')) # convert it h5name = os.path.join(tempdir, "output.h5") command_list = ["convert", "-m", "w", "--no-root-group", specname, "-o", h5name] result = convert.main(command_list) self.assertEqual(result, 0) self.assertTrue(os.path.isfile(h5name)) with h5py.File(h5name, "r") as h5f: title12 = h5f["/1.2/title"][()] if sys.version > '3.0': title12 = title12.decode() self.assertEqual(title12, "1 aaaaaa") creator = h5f.attrs.get("creator") self.assertIsNotNone(creator, "No creator attribute in NXroot group") creator = creator.decode() # make sure we can compare creator with native string self.assertTrue(creator.startswith("silx %s" % silx.version)) command = " ".join(command_list) self.assertTrue(creator.endswith(command)) # delete input file gc.collect() # necessary to free spec file on Windows os.unlink(specname) os.unlink(h5name) os.rmdir(tempdir) def suite(): test_suite = unittest.TestSuite() loader = unittest.defaultTestLoader.loadTestsFromTestCase test_suite.addTest(loader(TestConvertCommand)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/app/test/__init__.py0000644023630100076410000000310413202530432017760 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "30/03/2017" import unittest from . import test_view from . import test_convert def suite(): test_suite = unittest.TestSuite() test_suite.addTest(test_view.suite()) test_suite.addTest(test_convert.suite()) return test_suite silx-0.6.1/silx/app/qtutils.py0000644023630100076410000002132013202530432016747 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Qt utils for Silx applications""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "22/09/2017" import sys try: # it should be loaded before h5py import hdf5plugin # noqa except ImportError: hdf5plugin = None try: import h5py except ImportError: h5py = None try: import fabio except ImportError: fabio = None from silx.gui import qt from silx.gui import icons _LICENSE_TEMPLATE = """

Copyright (C) {year} European Synchrotron Radiation Facility

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.

""" class About(qt.QDialog): """ Util dialog to display an common about box for all the silx GUIs. """ def __init__(self, parent=None): """ :param files_: List of HDF5 or Spec files (pathes or :class:`silx.io.spech5.SpecH5` or :class:`h5py.File` instances) """ super(About, self).__init__(parent) self.__createLayout() self.setSizePolicy(qt.QSizePolicy.Fixed, qt.QSizePolicy.Fixed) self.setModal(True) self.setApplicationName(None) def __createLayout(self): layout = qt.QVBoxLayout(self) layout.setContentsMargins(24, 15, 24, 20) layout.setSpacing(8) self.__label = qt.QLabel(self) self.__label.setWordWrap(True) flags = self.__label.textInteractionFlags() flags = flags | qt.Qt.TextSelectableByKeyboard flags = flags | qt.Qt.TextSelectableByMouse self.__label.setTextInteractionFlags(flags) self.__label.setOpenExternalLinks(True) self.__label.setSizePolicy(qt.QSizePolicy.Minimum, qt.QSizePolicy.Preferred) licenseButton = qt.QPushButton(self) licenseButton.setText("License...") licenseButton.clicked.connect(self.__displayLicense) licenseButton.setAutoDefault(False) self.__options = qt.QDialogButtonBox() self.__options.addButton(licenseButton, qt.QDialogButtonBox.ActionRole) okButton = self.__options.addButton(qt.QDialogButtonBox.Ok) okButton.setDefault(True) okButton.clicked.connect(self.accept) layout.addWidget(self.__label) layout.addWidget(self.__options) layout.setStretch(0, 100) layout.setStretch(1, 0) def getHtmlLicense(self): """Returns the text license in HTML format. :rtype: str """ from silx._version import __date__ as date year = date.split("/")[2] info = dict( year=year ) textLicense = _LICENSE_TEMPLATE.format(**info) return textLicense def __displayLicense(self): """Displays the license used by silx.""" text = self.getHtmlLicense() licenseDialog = qt.QMessageBox(self) licenseDialog.setWindowTitle("License") licenseDialog.setText(text) licenseDialog.exec_() def setApplicationName(self, name): self.__applicationName = name if name is None: self.setWindowTitle("About") else: self.setWindowTitle("About %s" % name) self.__updateText() @staticmethod def __formatOptionalLibraries(name, isAvailable): """Utils to format availability of features""" if isAvailable: template = '%s is installed' else: template = '%s is not installed' return template % name def __updateText(self): """Update the content of the dialog according to the settings.""" import silx._version message = """
{application_name}

{silx_version}

Upstream project on GitHub
Silx version
{silx_version}
Qt version
{qt_version}
Qt binding
{qt_binding}
Python version
{python_version}
Optional libraries
{optional_lib}

Copyright (C) European Synchrotron Radiation Facility

""" optional_lib = [] optional_lib.append(self.__formatOptionalLibraries("FabIO", fabio is not None)) optional_lib.append(self.__formatOptionalLibraries("H5py", h5py is not None)) optional_lib.append(self.__formatOptionalLibraries("hdf5plugin", hdf5plugin is not None)) # Access to the logo in SVG or PNG logo = icons.getQFile("../logo/silx") info = dict( application_name=self.__applicationName, esrf_url="http://www.esrf.eu", project_url="https://github.com/silx-kit/silx", silx_version=silx._version.version, qt_binding=qt.BINDING, qt_version=qt.qVersion(), python_version=sys.version.replace("\n", "
"), optional_lib="
".join(optional_lib), silx_image_path=logo.fileName() ) self.__label.setText(message.format(**info)) self.__updateSize() def __updateSize(self): """Force the size to a QMessageBox like size.""" screenSize = qt.QApplication.desktop().availableGeometry(qt.QCursor.pos()).size() hardLimit = min(screenSize.width() - 480, 1000) if screenSize.width() <= 1024: hardLimit = screenSize.width() softLimit = min(screenSize.width() / 2, 420) layoutMinimumSize = self.layout().totalMinimumSize() width = layoutMinimumSize.width() if width > softLimit: width = softLimit if width > hardLimit: width = hardLimit height = layoutMinimumSize.height() self.setFixedSize(width, height) @staticmethod def about(parent, applicationName): """Displays a silx about box with title and text text. :param qt.QWidget parent: The parent widget :param str title: The title of the dialog :param str applicationName: The content of the dialog """ dialog = About(parent) dialog.setApplicationName(applicationName) dialog.exec_() silx-0.6.1/silx/app/convert.py0000644023630100076410000002600513202530432016727 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Convert silx supported data files into HDF5 files""" import ast import sys import os import argparse from glob import glob import logging import numpy import silx __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "12/09/2017" _logger = logging.getLogger(__name__) """Module logger""" def main(argv): """ Main function to launch the converter as an application :param argv: Command line arguments :returns: exit status """ parser = argparse.ArgumentParser(description=__doc__) parser.add_argument( 'input_files', nargs="+", help='Input files (EDF, SPEC)') parser.add_argument( '-o', '--output-uri', nargs="?", help='Output file (HDF5). If omitted, it will be the ' 'concatenated input file names, with a ".h5" suffix added.' ' An URI can be provided to write the data into a specific ' 'group in the output file: /path/to/file::/path/to/group') parser.add_argument( '-m', '--mode', default="w-", help='Write mode: "r+" (read/write, file must exist), ' '"w" (write, existing file is lost), ' '"w-" (write, fail if file exists) or ' '"a" (read/write if exists, create otherwise)') parser.add_argument( '--no-root-group', action="store_true", help='This option disables the default behavior of creating a ' 'root group (entry) for each file to be converted. When ' 'merging multiple input files, this can cause conflicts ' 'when datasets have the same name (see --overwrite-data).') parser.add_argument( '--overwrite-data', action="store_true", help='If the output path exists and an input dataset has the same' ' name as an existing output dataset, overwrite the output ' 'dataset (in modes "r+" or "a").') parser.add_argument( '--min-size', type=int, default=500, help='Minimum number of elements required to be in a dataset to ' 'apply compression or chunking (default 500).') parser.add_argument( '--chunks', nargs="?", const="auto", help='Chunk shape. Provide an argument that evaluates as a python ' 'tuple (e.g. "(1024, 768)"). If this option is provided without ' 'specifying an argument, the h5py library will guess a chunk for ' 'you. Note that if you specify an explicit chunking shape, it ' 'will be applied identically to all datasets with a large enough ' 'size (see --min-size). ') parser.add_argument( '--compression', nargs="?", const="gzip", help='Compression filter. By default, the datasets in the output ' 'file are not compressed. If this option is specified without ' 'argument, the GZIP compression is used. Additional compression ' 'filters may be available, depending on your HDF5 installation.') def check_gzip_compression_opts(value): ivalue = int(value) if ivalue < 0 or ivalue > 9: raise argparse.ArgumentTypeError( "--compression-opts must be an int from 0 to 9") return ivalue parser.add_argument( '--compression-opts', type=check_gzip_compression_opts, help='Compression options. For "gzip", this may be an integer from ' '0 to 9, with a default of 4. This is only supported for GZIP.') parser.add_argument( '--shuffle', action="store_true", help='Enables the byte shuffle filter, may improve the compression ' 'ratio for block oriented compressors like GZIP or LZF.') parser.add_argument( '--fletcher32', action="store_true", help='Adds a checksum to each chunk to detect data corruption.') parser.add_argument( '--debug', action="store_true", default=False, help='Set logging system in debug mode') options = parser.parse_args(argv[1:]) # some shells (windows) don't interpret wildcard characters (*, ?, []) old_input_list = list(options.input_files) options.input_files = [] for fname in old_input_list: globbed_files = glob(fname) if not globbed_files: # no files found, keep the name as it is, to raise an error later options.input_files += [fname] else: options.input_files += globbed_files old_input_list = None if options.debug: logging.root.setLevel(logging.DEBUG) # Import most of the things here to be sure to use the right logging level try: # it should be loaded before h5py import hdf5plugin # noqa except ImportError: _logger.debug("Backtrace", exc_info=True) hdf5plugin = None try: import h5py from silx.io.convert import write_to_h5 except ImportError: _logger.debug("Backtrace", exc_info=True) h5py = None write_to_h5 = None if h5py is None: message = "Module 'h5py' is not installed but is mandatory."\ + " You can install it using \"pip install h5py\"." _logger.error(message) return -1 if hdf5plugin is None: message = "Module 'hdf5plugin' is not installed. It supports additional hdf5"\ + " compressions. You can install it using \"pip install hdf5plugin\"." _logger.debug(message) # Test that the output path is writeable if options.output_uri is None: input_basenames = [os.path.basename(name) for name in options.input_files] output_name = ''.join(input_basenames) + ".h5" _logger.info("No output file specified, using %s", output_name) hdf5_path = "/" else: if "::" in options.output_uri: output_name, hdf5_path = options.output_uri.split("::") else: output_name, hdf5_path = options.output_uri, "/" if os.path.isfile(output_name): if options.mode == "w-": _logger.error("Output file %s exists and mode is 'w-'" " (write, file must not exist). Aborting.", output_name) return -1 elif not os.access(output_name, os.W_OK): _logger.error("Output file %s exists and is not writeable.", output_name) return -1 elif options.mode == "w": _logger.info("Output file %s exists and mode is 'w'. " "Overwriting existing file.", output_name) elif options.mode in ["a", "r+"]: _logger.info("Appending data to existing file %s.", output_name) else: if options.mode == "r+": _logger.error("Output file %s does not exist and mode is 'r+'" " (append, file must exist). Aborting.", output_name) return -1 else: _logger.info("Creating new output file %s.", output_name) # Test that all input files exist and are readable bad_input = False for fname in options.input_files: if not os.access(fname, os.R_OK): _logger.error("Cannot read input file %s.", fname) bad_input = True if bad_input: _logger.error("Aborting.") return -1 # create_dataset special args create_dataset_args = {} if options.chunks is not None: if options.chunks.lower() in ["auto", "true"]: create_dataset_args["chunks"] = True else: try: chunks = ast.literal_eval(options.chunks) except (ValueError, SyntaxError): _logger.error("Invalid --chunks argument %s", options.chunks) return -1 if not isinstance(chunks, (tuple, list)): _logger.error("--chunks argument str does not evaluate to a tuple") return -1 else: nitems = numpy.prod(chunks) nbytes = nitems * 8 if nbytes > 10**6: _logger.warning("Requested chunk size might be larger than" " the default 1MB chunk cache, for float64" " data. This can dramatically affect I/O " "performances.") create_dataset_args["chunks"] = chunks if options.compression is not None: create_dataset_args["compression"] = options.compression if options.compression_opts is not None: create_dataset_args["compression_opts"] = options.compression_opts if options.shuffle: create_dataset_args["shuffle"] = True if options.fletcher32: create_dataset_args["fletcher32"] = True with h5py.File(output_name, mode=options.mode) as h5f: for input_name in options.input_files: hdf5_path_for_file = hdf5_path if not options.no_root_group: hdf5_path_for_file = hdf5_path.rstrip("/") + "/" + os.path.basename(input_name) write_to_h5(input_name, h5f, h5path=hdf5_path_for_file, overwrite_data=options.overwrite_data, create_dataset_args=create_dataset_args, min_size=options.min_size) # append the convert command to the creator attribute, for NeXus files creator = h5f[hdf5_path_for_file].attrs.get("creator", b"").decode() convert_command = " ".join(argv) if convert_command not in creator: h5f[hdf5_path_for_file].attrs["creator"] = \ numpy.string_(creator + "; convert command: %s" % " ".join(argv)) return 0 silx-0.6.1/silx/app/__init__.py0000644023630100076410000000260413202530432017005 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Application provided by the launcher""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "30/03/2017" silx-0.6.1/silx/app/view.py0000644023630100076410000002352413202530432016224 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Browse a data file with a GUI""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "02/10/2017" import sys import os import argparse import logging import collections _logger = logging.getLogger(__name__) """Module logger""" from silx.gui import qt class Viewer(qt.QMainWindow): """ This window allows to browse a data file like images or HDF5 and it's content. """ def __init__(self): """ :param files_: List of HDF5 or Spec files (pathes or :class:`silx.io.spech5.SpecH5` or :class:`h5py.File` instances) """ # Import it here to be sure to use the right logging level import silx.gui.hdf5 from silx.gui.data.DataViewerFrame import DataViewerFrame qt.QMainWindow.__init__(self) self.setWindowTitle("Silx viewer") self.__asyncload = False self.__dialogState = None self.__treeview = silx.gui.hdf5.Hdf5TreeView(self) """Silx HDF5 TreeView""" self.__dataViewer = DataViewerFrame(self) vSpliter = qt.QSplitter(qt.Qt.Vertical) vSpliter.addWidget(self.__dataViewer) vSpliter.setSizes([10, 0]) spliter = qt.QSplitter(self) spliter.addWidget(self.__treeview) spliter.addWidget(vSpliter) spliter.setStretchFactor(1, 1) main_panel = qt.QWidget(self) layout = qt.QVBoxLayout() layout.addWidget(spliter) layout.setStretchFactor(spliter, 1) main_panel.setLayout(layout) self.setCentralWidget(main_panel) model = self.__treeview.selectionModel() model.selectionChanged.connect(self.displayData) self.__treeview.addContextMenuCallback(self.closeAndSyncCustomContextMenu) treeModel = self.__treeview.findHdf5TreeModel() columns = list(treeModel.COLUMN_IDS) columns.remove(treeModel.DESCRIPTION_COLUMN) columns.remove(treeModel.NODE_COLUMN) self.__treeview.header().setSections(columns) self.createActions() self.createMenus() def createActions(self): action = qt.QAction("E&xit", self) action.setShortcuts(qt.QKeySequence.Quit) action.setStatusTip("Exit the application") action.triggered.connect(self.close) self._exitAction = action action = qt.QAction("&Open", self) action.setStatusTip("Open a file") action.triggered.connect(self.open) self._openAction = action action = qt.QAction("&About", self) action.setStatusTip("Show the application's About box") action.triggered.connect(self.about) self._aboutAction = action def createMenus(self): fileMenu = self.menuBar().addMenu("&File") fileMenu.addAction(self._openAction) fileMenu.addSeparator() fileMenu.addAction(self._exitAction) helpMenu = self.menuBar().addMenu("&Help") helpMenu.addAction(self._aboutAction) def open(self): dialog = self.createFileDialog() if self.__dialogState is None: currentDirectory = os.getcwd() dialog.setDirectory(currentDirectory) else: dialog.restoreState(self.__dialogState) result = dialog.exec_() if not result: return self.__dialogState = dialog.saveState() filenames = dialog.selectedFiles() for filename in filenames: self.appendFile(filename) def createFileDialog(self): dialog = qt.QFileDialog(self) dialog.setWindowTitle("Open") dialog.setModal(True) extensions = collections.OrderedDict() # expect h5py extensions["HDF5 files"] = "*.h5 *.hdf" extensions["NeXus files"] = "*.nx *.nxs *.h5 *.hdf" # no dependancy extensions["NeXus layout from spec files"] = "*.dat *.spec *.mca" extensions["Numpy binary files"] = "*.npz *.npy" # expect fabio extensions["NeXus layout from raster images"] = "*.edf *.tif *.tiff *.cbf *.mccd" extensions["NeXus layout from EDF files"] = "*.edf" extensions["NeXus layout from TIFF image files"] = "*.tif *.tiff" extensions["NeXus layout from CBF files"] = "*.cbf" extensions["NeXus layout from MarCCD image files"] = "*.mccd" filters = [] filters.append("All supported files (%s)" % " ".join(extensions.values())) for name, extension in extensions.items(): filters.append("%s (%s)" % (name, extension)) filters.append("All files (*)") dialog.setNameFilters(filters) dialog.setFileMode(qt.QFileDialog.ExistingFiles) return dialog def about(self): from . import qtutils qtutils.About.about(self, "Silx viewer") def appendFile(self, filename): self.__treeview.findHdf5TreeModel().appendFile(filename) def displayData(self): """Called to update the dataviewer with the selected data. """ selected = list(self.__treeview.selectedH5Nodes(ignoreBrokenLinks=False)) if len(selected) == 1: # Update the viewer for a single selection data = selected[0] self.__dataViewer.setData(data) def useAsyncLoad(self, useAsync): self.__asyncload = useAsync def closeAndSyncCustomContextMenu(self, event): """Called to populate the context menu :param silx.gui.hdf5.Hdf5ContextMenuEvent event: Event containing expected information to populate the context menu """ selectedObjects = event.source().selectedH5Nodes(ignoreBrokenLinks=False) menu = event.menu() if len(menu.children()): menu.addSeparator() # Import it here to be sure to use the right logging level import h5py for obj in selectedObjects: if obj.ntype is h5py.File: action = qt.QAction("Remove %s" % obj.local_filename, event.source()) action.triggered.connect(lambda: self.__treeview.findHdf5TreeModel().removeH5pyObject(obj.h5py_object)) menu.addAction(action) action = qt.QAction("Synchronize %s" % obj.local_filename, event.source()) action.triggered.connect(lambda: self.__treeview.findHdf5TreeModel().synchronizeH5pyObject(obj.h5py_object)) menu.addAction(action) def main(argv): """ Main function to launch the viewer as an application :param argv: Command line arguments :returns: exit status """ parser = argparse.ArgumentParser(description=__doc__) parser.add_argument( 'files', nargs=argparse.ZERO_OR_MORE, help='Data file to show (h5 file, edf files, spec files)') parser.add_argument( '--debug', dest="debug", action="store_true", default=False, help='Set logging system in debug mode') parser.add_argument( '--use-opengl-plot', dest="use_opengl_plot", action="store_true", default=False, help='Use OpenGL for plots (instead of matplotlib)') options = parser.parse_args(argv[1:]) if options.debug: logging.root.setLevel(logging.DEBUG) # # Import most of the things here to be sure to use the right logging level # try: # it should be loaded before h5py import hdf5plugin # noqa except ImportError: _logger.debug("Backtrace", exc_info=True) hdf5plugin = None try: import h5py except ImportError: _logger.debug("Backtrace", exc_info=True) h5py = None if h5py is None: message = "Module 'h5py' is not installed but is mandatory."\ + " You can install it using \"pip install h5py\"." _logger.error(message) return -1 if hdf5plugin is None: message = "Module 'hdf5plugin' is not installed. It supports some hdf5"\ + " compressions. You can install it using \"pip install hdf5plugin\"." _logger.warning(message) # # Run the application # if options.use_opengl_plot: from silx.gui.plot import PlotWidget PlotWidget.setDefaultBackend("opengl") app = qt.QApplication([]) qt.QLocale.setDefault(qt.QLocale.c()) sys.excepthook = qt.exceptionHandler window = Viewer() window.resize(qt.QSize(640, 480)) for filename in options.files: try: window.appendFile(filename) except IOError as e: _logger.error(e.args[0]) _logger.debug("Backtrace", exc_info=True) window.show() result = app.exec_() # remove ending warnings relative to QTimer app.deleteLater() return result silx-0.6.1/silx/app/setup.py0000644023630100076410000000324313202530432016406 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "30/03/2017" from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('app', parent_package, top_path) config.add_subpackage('test') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/math/0000755023630100076410000000000013202537043015050 5ustar knobelusers00000000000000silx-0.6.1/silx/math/marchingcubes.cpp0000644023630100076410000342263413202530432020377 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [ "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h", "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ufuncobject.h", "silx/math/marchingcubes/mc.hpp" ], "include_dirs": [ "silx/math/marchingcubes", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c++" }, "module_name": "silx.math.marchingcubes" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef 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} template class __Pyx_FakeReference { public: __Pyx_FakeReference() : ptr(NULL) { } __Pyx_FakeReference(const T& ref) : ptr(const_cast(&ref)) { } T *operator->() { return ptr; } T *operator&() { return ptr; } operator T&() { return *ptr; } template bool operator ==(U other) { return *ptr == other; } template bool operator !=(U other) { return *ptr != other; } private: T *ptr; }; #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__math__marchingcubes #define __PYX_HAVE_API__silx__math__marchingcubes #include #include #include #include "numpy/arrayobject.h" #include "numpy/ufuncobject.h" #include #include "ios" #include "new" #include "stdexcept" #include "typeinfo" #include "mc.hpp" #include "pythread.h" #include "pystate.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; 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#if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t */ typedef npy_int8 __pyx_t_5numpy_int8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t */ typedef npy_int16 __pyx_t_5numpy_int16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":727 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< * ctypedef npy_int64 int64_t * #ctypedef npy_int96 int96_t */ typedef npy_int32 __pyx_t_5numpy_int32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":728 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< * #ctypedef npy_int96 int96_t * #ctypedef npy_int128 int128_t */ typedef npy_int64 __pyx_t_5numpy_int64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":734 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< * ctypedef npy_uint64 uint64_t * #ctypedef npy_uint96 uint96_t */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":735 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< * #ctypedef npy_uint96 uint96_t * #ctypedef npy_uint128 uint128_t */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":739 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< * ctypedef npy_float64 float64_t * #ctypedef npy_float80 float80_t */ typedef npy_float32 __pyx_t_5numpy_float32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":740 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< * #ctypedef npy_float80 float80_t * #ctypedef npy_float128 float128_t */ typedef npy_float64 __pyx_t_5numpy_float64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t */ typedef npy_long __pyx_t_5numpy_int_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":750 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< * ctypedef npy_longlong longlong_t * */ typedef npy_longlong __pyx_t_5numpy_long_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< * * ctypedef npy_ulong uint_t */ typedef npy_longlong __pyx_t_5numpy_longlong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t */ typedef npy_ulong __pyx_t_5numpy_uint_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":754 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulonglong_t * */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< * * ctypedef npy_intp intp_t */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":757 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< * ctypedef npy_uintp uintp_t * */ typedef npy_intp __pyx_t_5numpy_intp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< * * ctypedef npy_double float_t */ typedef npy_uintp __pyx_t_5numpy_uintp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t */ typedef npy_double __pyx_t_5numpy_float_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":761 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< * ctypedef npy_longdouble longdouble_t * */ typedef npy_double __pyx_t_5numpy_double_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cfloat cfloat_t */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; /* Declarations.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus typedef ::std::complex< float > __pyx_t_float_complex; #else typedef float _Complex __pyx_t_float_complex; #endif #else typedef struct { float real, imag; } __pyx_t_float_complex; #endif static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float, float); /* Declarations.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus typedef ::std::complex< double > __pyx_t_double_complex; #else typedef double _Complex __pyx_t_double_complex; #endif #else typedef struct { double real, imag; } __pyx_t_double_complex; #endif static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double, double); /*--- Type declarations ---*/ struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes; struct __pyx_array_obj; struct __pyx_MemviewEnum_obj; struct __pyx_memoryview_obj; struct __pyx_memoryviewslice_obj; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":765 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< * ctypedef npy_clongdouble clongdouble_t * */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cdouble complex_t */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":768 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< * * cdef inline object PyArray_MultiIterNew1(a): */ typedef npy_cdouble __pyx_t_5numpy_complex_t; /* "silx/math/marchingcubes.pyx":56 * * * cdef class MarchingCubes: # <<<<<<<<<<<<<< * """Compute isosurface using marching cubes algorithm. * */ struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes { PyObject_HEAD MarchingCubes *c_mc; }; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_array_obj { PyObject_HEAD struct __pyx_vtabstruct_array *__pyx_vtab; char *data; Py_ssize_t len; char *format; int ndim; Py_ssize_t *_shape; Py_ssize_t *_strides; Py_ssize_t itemsize; PyObject *mode; PyObject *_format; void (*callback_free_data)(void *); int free_data; int dtype_is_object; }; /* "View.MemoryView":275 * * @cname('__pyx_MemviewEnum') * cdef class Enum(object): # <<<<<<<<<<<<<< * cdef object name * def __init__(self, name): */ struct __pyx_MemviewEnum_obj { PyObject_HEAD PyObject *name; }; /* "View.MemoryView":326 * * @cname('__pyx_memoryview') * cdef class memoryview(object): # <<<<<<<<<<<<<< * * cdef object obj */ struct __pyx_memoryview_obj { PyObject_HEAD struct __pyx_vtabstruct_memoryview *__pyx_vtab; PyObject *obj; PyObject *_size; PyObject *_array_interface; PyThread_type_lock lock; __pyx_atomic_int acquisition_count[2]; __pyx_atomic_int *acquisition_count_aligned_p; 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#endif /* PyObjectCallOneArg.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\ PyObject_RichCompare(op1, op2, Py_EQ) #endif /* PyObjectCallNoArg.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func); #else #define __Pyx_PyObject_CallNoArg(func) __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL) #endif /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* RaiseException.proto */ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /* ArgTypeTest.proto */ static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* BufferIndexError.proto */ static void __Pyx_RaiseBufferIndexError(int axis); /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* DictGetItem.proto */ #if PY_MAJOR_VERSION >= 3 && !CYTHON_COMPILING_IN_PYPY static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* IncludeStringH.proto */ #include /* BytesEquals.proto */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals); /* UnicodeEquals.proto */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals); /* StrEquals.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Equals __Pyx_PyUnicode_Equals #else #define __Pyx_PyString_Equals __Pyx_PyBytes_Equals #endif /* None.proto */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t, Py_ssize_t); /* UnaryNegOverflows.proto */ #define UNARY_NEG_WOULD_OVERFLOW(x)\ (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *); /*proto*/ /* GetAttr.proto */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* CppExceptionConversion.proto */ #ifndef __Pyx_CppExn2PyErr #include #include #include #include static void __Pyx_CppExn2PyErr() { try { if (PyErr_Occurred()) ; // let the latest Python exn pass through and ignore the current one else throw; } catch (const std::bad_alloc& exn) { PyErr_SetString(PyExc_MemoryError, exn.what()); } catch (const std::bad_cast& exn) { PyErr_SetString(PyExc_TypeError, exn.what()); } catch (const std::bad_typeid& exn) { PyErr_SetString(PyExc_TypeError, exn.what()); } catch (const std::domain_error& exn) { PyErr_SetString(PyExc_ValueError, exn.what()); } catch (const std::invalid_argument& exn) { PyErr_SetString(PyExc_ValueError, exn.what()); } catch (const std::ios_base::failure& exn) { PyErr_SetString(PyExc_IOError, exn.what()); } catch (const std::out_of_range& exn) { PyErr_SetString(PyExc_IndexError, exn.what()); } catch (const std::overflow_error& exn) { PyErr_SetString(PyExc_OverflowError, exn.what()); } catch (const std::range_error& exn) { PyErr_SetString(PyExc_ArithmeticError, exn.what()); } catch (const std::underflow_error& exn) { PyErr_SetString(PyExc_ArithmeticError, exn.what()); } catch (const std::exception& exn) { PyErr_SetString(PyExc_RuntimeError, exn.what()); } catch (...) { PyErr_SetString(PyExc_RuntimeError, "Unknown exception"); } } #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value); /* RealImag.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus #define __Pyx_CREAL(z) ((z).real()) #define __Pyx_CIMAG(z) ((z).imag()) #else #define __Pyx_CREAL(z) (__real__(z)) #define __Pyx_CIMAG(z) (__imag__(z)) #endif #else #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif #if defined(__cplusplus) && CYTHON_CCOMPLEX\ && (defined(_WIN32) || defined(__clang__) || (defined(__GNUC__) && (__GNUC__ >= 5 || __GNUC__ == 4 && __GNUC_MINOR__ >= 4 )) || __cplusplus >= 201103) #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_float(a, b) ((a)==(b)) #define __Pyx_c_sum_float(a, b) ((a)+(b)) #define __Pyx_c_diff_float(a, b) ((a)-(b)) #define __Pyx_c_prod_float(a, b) ((a)*(b)) #define __Pyx_c_quot_float(a, b) ((a)/(b)) #define __Pyx_c_neg_float(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_float(z) ((z)==(float)0) #define __Pyx_c_conj_float(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_float(z) (::std::abs(z)) #define __Pyx_c_pow_float(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_float(z) ((z)==0) #define __Pyx_c_conj_float(z) (conjf(z)) #if 1 #define __Pyx_c_abs_float(z) (cabsf(z)) #define __Pyx_c_pow_float(a, b) (cpowf(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex); static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex); #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex, __pyx_t_float_complex); #endif #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_double(a, b) ((a)==(b)) #define __Pyx_c_sum_double(a, b) ((a)+(b)) #define __Pyx_c_diff_double(a, b) ((a)-(b)) #define __Pyx_c_prod_double(a, b) ((a)*(b)) #define __Pyx_c_quot_double(a, b) ((a)/(b)) #define __Pyx_c_neg_double(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_double(z) ((z)==(double)0) #define __Pyx_c_conj_double(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_double(z) (::std::abs(z)) #define __Pyx_c_pow_double(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_double(z) ((z)==0) #define __Pyx_c_conj_double(z) (conj(z)) #if 1 #define __Pyx_c_abs_double(z) (cabs(z)) #define __Pyx_c_pow_double(a, b) (cpow(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex); static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex); #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex, __pyx_t_double_complex); #endif #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_float(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* PyIdentifierFromString.proto */ #if !defined(__Pyx_PyIdentifier_FromString) #if PY_MAJOR_VERSION < 3 #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) #else #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) #endif #endif /* ModuleImport.proto */ static PyObject *__Pyx_ImportModule(const char *name); /* TypeImport.proto */ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cpython.buffer' */ /* Module declarations from 'libc.string' */ /* Module declarations from 'libc.stdio' */ /* Module declarations from '__builtin__' */ /* Module declarations from 'cpython.type' */ static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; /* Module declarations from 'cpython' */ /* Module declarations from 'cpython.object' */ /* Module declarations from 'cpython.ref' */ /* Module declarations from 'libc.stdlib' */ /* Module declarations from 'numpy' */ /* Module declarations from 'numpy' */ static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'libcpp.vector' */ /* Module declarations from 'libcpp' */ /* Module declarations from 'silx.math.mc' */ /* Module declarations from 'silx.math.marchingcubes' */ static PyTypeObject *__pyx_ptype_4silx_4math_13marchingcubes_MarchingCubes = 0; static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static PyObject *__pyx_convert_vector_to_py_float(const std::vector &); /*proto*/ static PyObject *__pyx_convert_vector_to_py_unsigned_int(const std::vector &); /*proto*/ static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_float32_t = { "float32_t", NULL, sizeof(__pyx_t_5numpy_float32_t), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; #define __Pyx_MODULE_NAME "silx.math.marchingcubes" int __pyx_module_is_main_silx__math__marchingcubes = 0; /* Implementation of 'silx.math.marchingcubes' */ static PyObject *__pyx_builtin_IndexError; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_RuntimeError; static PyObject *__pyx_builtin_ImportError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_id; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_data[] = "data"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_ravel[] = "ravel"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_slice0[] = "slice0"; static const char __pyx_k_slice1[] = "slice1"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_uint32[] = "uint32"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_process[] = "process"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_isolevel[] = "isolevel"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_sampling[] = "sampling"; static const char __pyx_k_T_Vincent[] = "T. Vincent"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_16_08_2017[] = "16/08/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_ImportError[] = "ImportError"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_get_indices[] = "get_indices"; static const char __pyx_k_get_normals[] = "get_normals"; static const char __pyx_k_RuntimeError[] = "RuntimeError"; static const char __pyx_k_get_vertices[] = "get_vertices"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_invert_normals[] = "invert_normals"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_Index_out_of_range[] = "Index out of range"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_numpy_core_multiarray_failed_to[] = "numpy.core.multiarray failed to import"; static const char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_This_module_provides_marching_cu[] = "This module provides marching cubes implementation.\n\nIt provides a :class:`MarchingCubes` class allowing to build an isosurface\nfrom data provided as a 3D data set or slice by slice.\n"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; static const char __pyx_k_numpy_core_umath_failed_to_impor[] = "numpy.core.umath failed to import"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static const char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; static PyObject *__pyx_kp_s_16_08_2017; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; static PyObject *__pyx_n_s_ImportError; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Index_out_of_range; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_n_s_RuntimeError; static PyObject *__pyx_kp_s_T_Vincent; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_class; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_data; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_n_s_get_indices; static PyObject *__pyx_n_s_get_normals; static PyObject *__pyx_n_s_get_vertices; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_invert_normals; static PyObject *__pyx_n_s_isolevel; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_kp_s_numpy_core_multiarray_failed_to; static PyObject *__pyx_kp_s_numpy_core_umath_failed_to_impor; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_process; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_ravel; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_sampling; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_slice0; static PyObject *__pyx_n_s_slice1; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_test; static PyObject *__pyx_n_s_uint32; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_kp_u_unknown_dtype_code_in_numpy_pxd; static PyObject *__pyx_n_s_unpack; static int __pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes___cinit__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self, PyObject *__pyx_v_data, PyObject *__pyx_v_isolevel, PyObject *__pyx_v_invert_normals, PyObject *__pyx_v_sampling); /* proto */ static void __pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_2__dealloc__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_4__getitem__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_6process(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self, PyArrayObject *__pyx_v_data); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_8process_slice(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self, PyArrayObject *__pyx_v_slice0, PyArrayObject *__pyx_v_slice1); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_10finish_process(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_12reset(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_5shape___get__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_8sampling___get__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_8isolevel___get__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_14invert_normals___get__(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_14get_vertices(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_16get_normals(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_13marchingcubes_13MarchingCubes_18get_indices(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes *__pyx_v_self); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); 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/* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_10__setitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item, PyObject *__pyx_v_value); /* proto */ static int __pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum___init__(struct __pyx_MemviewEnum_obj *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum_2__repr__(struct __pyx_MemviewEnum_obj *__pyx_v_self); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview___cinit__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj, int __pyx_v_flags, int __pyx_v_dtype_is_object); /* proto */ static void __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_2__dealloc__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_4__getitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_6__setitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); 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int __pyx_v_negative_step; int __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":813 * cdef bint negative_step * * if not is_slice: # <<<<<<<<<<<<<< * * if start < 0: */ __pyx_t_1 = ((!(__pyx_v_is_slice != 0)) != 0); if (__pyx_t_1) { /* "View.MemoryView":815 * if not is_slice: * * if start < 0: # <<<<<<<<<<<<<< * start += shape * if not 0 <= start < shape: */ __pyx_t_1 = ((__pyx_v_start < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":816 * * if start < 0: * start += shape # <<<<<<<<<<<<<< * if not 0 <= start < shape: * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) */ __pyx_v_start = (__pyx_v_start + __pyx_v_shape); /* "View.MemoryView":815 * if not is_slice: * * if start < 0: # <<<<<<<<<<<<<< * start += shape * if not 0 <= start < shape: */ } /* "View.MemoryView":817 * if start < 0: * start += shape * if not 0 <= start < shape: # <<<<<<<<<<<<<< * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) * else: */ __pyx_t_1 = (0 <= __pyx_v_start); 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goto __pyx_L6_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step < 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L6_bool_binop_done:; __pyx_v_negative_step = __pyx_t_2; /* "View.MemoryView":823 * negative_step = have_step != 0 and step < 0 * * if have_step and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ __pyx_t_1 = (__pyx_v_have_step != 0); if (__pyx_t_1) { } else { __pyx_t_2 = __pyx_t_1; goto __pyx_L9_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step == 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L9_bool_binop_done:; if (__pyx_t_2) { /* "View.MemoryView":824 * * if have_step and step == 0: * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) # <<<<<<<<<<<<<< * * */ __pyx_t_3 = __pyx_memoryview_err_dim(__pyx_builtin_ValueError, ((char *)"Step may not be zero (axis %d)"), __pyx_v_dim); if (unlikely(__pyx_t_3 == -1)) __PYX_ERR(2, 824, __pyx_L1_error) /* "View.MemoryView":823 * negative_step = have_step != 0 and step < 0 * * if have_step and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ } /* "View.MemoryView":827 * * * if have_start: # <<<<<<<<<<<<<< * if start < 0: * start += shape */ __pyx_t_2 = (__pyx_v_have_start != 0); 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__pyx_r = __pyx_t_5; __pyx_t_5 = 0; goto __pyx_L0; /* "View.MemoryView":1070 * * @cname('__pyx_memoryview_copy_object_from_slice') * cdef memoryview_copy_from_slice(memoryview memview, __Pyx_memviewslice *memviewslice): # <<<<<<<<<<<<<< * """ * Create a new memoryview object from a given memoryview object and slice. */ /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_5); __Pyx_AddTraceback("View.MemoryView.memoryview_copy_from_slice", __pyx_clineno, __pyx_lineno, __pyx_filename); __pyx_r = 0; __pyx_L0:; __Pyx_XGIVEREF(__pyx_r); __Pyx_RefNannyFinishContext(); return __pyx_r; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ static Py_ssize_t abs_py_ssize_t(Py_ssize_t __pyx_v_arg) { Py_ssize_t __pyx_r; int __pyx_t_1; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1094 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ } /* "View.MemoryView":1096 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ /*else*/ { __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1104 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1105 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1107 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, Py_ssize_t __pyx_v_stride, int __pyx_v_ndim, char __pyx_v_order) { int __pyx_v_idx; Py_ssize_t __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ __pyx_t_1 = ((__pyx_v_order == 'F') != 0); if (__pyx_t_1) { /* "View.MemoryView":1181 * * if order == 'F': * for idx in range(ndim): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_idx = __pyx_t_3; /* "View.MemoryView":1182 * if order == 'F': * for idx in range(ndim): * strides[idx] = stride # <<<<<<<<<<<<<< * stride = stride * shape[idx] * else: */ (__pyx_v_strides[__pyx_v_idx]) = __pyx_v_stride; /* "View.MemoryView":1183 * for idx in range(ndim): * strides[idx] = stride * stride = stride * shape[idx] # <<<<<<<<<<<<<< * else: * for idx in range(ndim - 1, -1, -1): */ __pyx_v_stride = (__pyx_v_stride * (__pyx_v_shape[__pyx_v_idx])); } /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ goto __pyx_L3; 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} else { __pyx_t_5 = __pyx_t_4; } __pyx_v_ndim = __pyx_t_5; /* "View.MemoryView":1275 * cdef int ndim = max(src_ndim, dst_ndim) * * for i in range(ndim): # <<<<<<<<<<<<<< * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: */ __pyx_t_5 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_5; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1276 * * for i in range(ndim): * if src.shape[i] != dst.shape[i]: # <<<<<<<<<<<<<< * if src.shape[i] == 1: * broadcasting = True */ __pyx_t_2 = (((__pyx_v_src.shape[__pyx_v_i]) != (__pyx_v_dst.shape[__pyx_v_i])) != 0); if (__pyx_t_2) { /* "View.MemoryView":1277 * for i in range(ndim): * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: # <<<<<<<<<<<<<< * broadcasting = True * src.strides[i] = 0 */ __pyx_t_2 = (((__pyx_v_src.shape[__pyx_v_i]) == 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1278 * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: * broadcasting = True # <<<<<<<<<<<<<< * src.strides[i] = 0 * else: */ __pyx_v_broadcasting = 1; /* "View.MemoryView":1279 * if src.shape[i] == 1: * broadcasting = True * src.strides[i] = 0 # <<<<<<<<<<<<<< * else: * _err_extents(i, dst.shape[i], src.shape[i]) */ (__pyx_v_src.strides[__pyx_v_i]) = 0; /* "View.MemoryView":1277 * for i in range(ndim): * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: # <<<<<<<<<<<<<< * broadcasting = True * src.strides[i] = 0 */ goto __pyx_L7; } /* "View.MemoryView":1281 * src.strides[i] = 0 * else: * _err_extents(i, dst.shape[i], src.shape[i]) # <<<<<<<<<<<<<< * * if src.suboffsets[i] >= 0: */ /*else*/ { __pyx_t_4 = __pyx_memoryview_err_extents(__pyx_v_i, (__pyx_v_dst.shape[__pyx_v_i]), (__pyx_v_src.shape[__pyx_v_i])); if (unlikely(__pyx_t_4 == -1)) __PYX_ERR(2, 1281, __pyx_L1_error) } __pyx_L7:; /* "View.MemoryView":1276 * * for i in range(ndim): * if src.shape[i] != dst.shape[i]: # <<<<<<<<<<<<<< * if src.shape[i] == 1: * broadcasting = True */ } /* "View.MemoryView":1283 * _err_extents(i, dst.shape[i], src.shape[i]) * * if src.suboffsets[i] >= 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Dimension %d is not direct", i) * */ __pyx_t_2 = (((__pyx_v_src.suboffsets[__pyx_v_i]) >= 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":1284 * * if src.suboffsets[i] >= 0: * _err_dim(ValueError, "Dimension %d is not direct", i) # <<<<<<<<<<<<<< * * if slices_overlap(&src, &dst, ndim, itemsize): */ __pyx_t_4 = __pyx_memoryview_err_dim(__pyx_builtin_ValueError, ((char *)"Dimension %d is not direct"), __pyx_v_i); if (unlikely(__pyx_t_4 == -1)) __PYX_ERR(2, 1284, __pyx_L1_error) /* "View.MemoryView":1283 * _err_extents(i, dst.shape[i], src.shape[i]) * * if src.suboffsets[i] >= 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Dimension %d is not direct", i) * */ } } /* "View.MemoryView":1286 * _err_dim(ValueError, "Dimension %d is not direct", i) * * if slices_overlap(&src, &dst, ndim, itemsize): # <<<<<<<<<<<<<< * * if not slice_is_contig(src, order, ndim): */ __pyx_t_2 = (__pyx_slices_overlap((&__pyx_v_src), (&__pyx_v_dst), __pyx_v_ndim, __pyx_v_itemsize) != 0); if (__pyx_t_2) { /* "View.MemoryView":1288 * if slices_overlap(&src, &dst, ndim, itemsize): * * if not slice_is_contig(src, order, ndim): # <<<<<<<<<<<<<< * order = get_best_order(&dst, ndim) * */ __pyx_t_2 = ((!(__pyx_memviewslice_is_contig(__pyx_v_src, __pyx_v_order, __pyx_v_ndim) != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1289 * * if not slice_is_contig(src, order, ndim): * order = get_best_order(&dst, ndim) # <<<<<<<<<<<<<< * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) */ __pyx_v_order = __pyx_get_best_slice_order((&__pyx_v_dst), __pyx_v_ndim); /* "View.MemoryView":1288 * if slices_overlap(&src, &dst, ndim, itemsize): * * if not slice_is_contig(src, order, ndim): # <<<<<<<<<<<<<< * order = get_best_order(&dst, ndim) * */ } /* "View.MemoryView":1291 * order = get_best_order(&dst, ndim) * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) # <<<<<<<<<<<<<< * src = tmp * */ __pyx_t_6 = __pyx_memoryview_copy_data_to_temp((&__pyx_v_src), (&__pyx_v_tmp), __pyx_v_order, __pyx_v_ndim); if (unlikely(__pyx_t_6 == NULL)) __PYX_ERR(2, 1291, __pyx_L1_error) __pyx_v_tmpdata = __pyx_t_6; /* "View.MemoryView":1292 * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) * src = tmp # <<<<<<<<<<<<<< * * if not broadcasting: */ __pyx_v_src = __pyx_v_tmp; /* "View.MemoryView":1286 * _err_dim(ValueError, "Dimension %d is not direct", i) * * if slices_overlap(&src, &dst, ndim, itemsize): # <<<<<<<<<<<<<< * * if not slice_is_contig(src, order, ndim): */ } /* "View.MemoryView":1294 * src = tmp * * if not broadcasting: # <<<<<<<<<<<<<< * * */ __pyx_t_2 = ((!(__pyx_v_broadcasting != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1297 * * * if slice_is_contig(src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): */ __pyx_t_2 = (__pyx_memviewslice_is_contig(__pyx_v_src, 'C', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1298 * * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) # <<<<<<<<<<<<<< * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig(__pyx_v_dst, 'C', __pyx_v_ndim); /* "View.MemoryView":1297 * * * if slice_is_contig(src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): */ goto __pyx_L12; } /* "View.MemoryView":1299 * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'F', ndim) * */ __pyx_t_2 = (__pyx_memviewslice_is_contig(__pyx_v_src, 'F', __pyx_v_ndim) != 0); 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/* "View.MemoryView":1305 * * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) # <<<<<<<<<<<<<< * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) */ memcpy(__pyx_v_dst.data, __pyx_v_src.data, __pyx_memoryview_slice_get_size((&__pyx_v_src), __pyx_v_ndim)); /* "View.MemoryView":1306 * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * free(tmpdata) * return 0 */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1307 * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) # <<<<<<<<<<<<<< * return 0 * */ free(__pyx_v_tmpdata); /* "View.MemoryView":1308 * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) * return 0 # <<<<<<<<<<<<<< * * if order == 'F' == get_best_order(&dst, ndim): */ __pyx_r = 0; 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/* "View.MemoryView":1320 * refcount_copying(&dst, dtype_is_object, ndim, True) * * free(tmpdata) # <<<<<<<<<<<<<< * return 0 * */ free(__pyx_v_tmpdata); /* "View.MemoryView":1321 * * free(tmpdata) * return 0 # <<<<<<<<<<<<<< * * @cname('__pyx_memoryview_broadcast_leading') */ __pyx_r = 0; goto __pyx_L0; /* "View.MemoryView":1252 * * @cname('__pyx_memoryview_copy_contents') * cdef int memoryview_copy_contents(__Pyx_memviewslice src, # <<<<<<<<<<<<<< * __Pyx_memviewslice dst, * int src_ndim, int dst_ndim, */ /* function exit code */ __pyx_L1_error:; { #ifdef WITH_THREAD PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure(); #endif __Pyx_AddTraceback("View.MemoryView.memoryview_copy_contents", __pyx_clineno, __pyx_lineno, __pyx_filename); #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif } __pyx_r = -1; __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1324 * * @cname('__pyx_memoryview_broadcast_leading') * cdef void broadcast_leading(__Pyx_memviewslice *mslice, # <<<<<<<<<<<<<< * int ndim, * int ndim_other) nogil: */ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim, int __pyx_v_ndim_other) { int __pyx_v_i; int __pyx_v_offset; int __pyx_t_1; int __pyx_t_2; /* "View.MemoryView":1328 * int ndim_other) nogil: * cdef int i * cdef int offset = ndim_other - ndim # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_offset = (__pyx_v_ndim_other - __pyx_v_ndim); /* "View.MemoryView":1330 * cdef int offset = ndim_other - ndim * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * mslice.shape[i + offset] = mslice.shape[i] * mslice.strides[i + offset] = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1331 * * for i in range(ndim - 1, -1, -1): * mslice.shape[i + offset] = mslice.shape[i] # <<<<<<<<<<<<<< * mslice.strides[i + offset] = mslice.strides[i] * mslice.suboffsets[i + offset] = mslice.suboffsets[i] */ (__pyx_v_mslice->shape[(__pyx_v_i + __pyx_v_offset)]) = (__pyx_v_mslice->shape[__pyx_v_i]); /* "View.MemoryView":1332 * for i in range(ndim - 1, -1, -1): * mslice.shape[i + offset] = mslice.shape[i] * mslice.strides[i + offset] = mslice.strides[i] # <<<<<<<<<<<<<< * mslice.suboffsets[i + offset] = mslice.suboffsets[i] * */ (__pyx_v_mslice->strides[(__pyx_v_i + __pyx_v_offset)]) = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1333 * mslice.shape[i + offset] = mslice.shape[i] * mslice.strides[i + offset] = mslice.strides[i] * mslice.suboffsets[i + offset] = mslice.suboffsets[i] # <<<<<<<<<<<<<< * * for i in range(offset): */ (__pyx_v_mslice->suboffsets[(__pyx_v_i + __pyx_v_offset)]) = (__pyx_v_mslice->suboffsets[__pyx_v_i]); } /* "View.MemoryView":1335 * mslice.suboffsets[i + offset] = mslice.suboffsets[i] * * for i in range(offset): # <<<<<<<<<<<<<< * mslice.shape[i] = 1 * mslice.strides[i] = mslice.strides[0] */ __pyx_t_1 = __pyx_v_offset; for (__pyx_t_2 = 0; __pyx_t_2 < __pyx_t_1; __pyx_t_2+=1) { __pyx_v_i = __pyx_t_2; /* "View.MemoryView":1336 * * for i in range(offset): * mslice.shape[i] = 1 # <<<<<<<<<<<<<< * mslice.strides[i] = mslice.strides[0] * mslice.suboffsets[i] = -1 */ (__pyx_v_mslice->shape[__pyx_v_i]) = 1; /* "View.MemoryView":1337 * for i in range(offset): * mslice.shape[i] = 1 * mslice.strides[i] = mslice.strides[0] # <<<<<<<<<<<<<< * mslice.suboffsets[i] = -1 * */ (__pyx_v_mslice->strides[__pyx_v_i]) = (__pyx_v_mslice->strides[0]); /* "View.MemoryView":1338 * mslice.shape[i] = 1 * mslice.strides[i] = mslice.strides[0] * mslice.suboffsets[i] = -1 # <<<<<<<<<<<<<< * * */ (__pyx_v_mslice->suboffsets[__pyx_v_i]) = -1L; } /* "View.MemoryView":1324 * * @cname('__pyx_memoryview_broadcast_leading') * cdef void broadcast_leading(__Pyx_memviewslice *mslice, # <<<<<<<<<<<<<< * int ndim, * int ndim_other) nogil: */ /* function exit code */ } /* "View.MemoryView":1346 * * @cname('__pyx_memoryview_refcount_copying') * cdef void refcount_copying(__Pyx_memviewslice *dst, bint dtype_is_object, # <<<<<<<<<<<<<< * int ndim, bint inc) nogil: * */ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *__pyx_v_dst, int __pyx_v_dtype_is_object, int __pyx_v_ndim, int __pyx_v_inc) { int __pyx_t_1; /* "View.MemoryView":1350 * * * if dtype_is_object: # <<<<<<<<<<<<<< * refcount_objects_in_slice_with_gil(dst.data, dst.shape, * dst.strides, ndim, inc) */ __pyx_t_1 = (__pyx_v_dtype_is_object != 0); if (__pyx_t_1) { /* "View.MemoryView":1351 * * if dtype_is_object: * refcount_objects_in_slice_with_gil(dst.data, dst.shape, # <<<<<<<<<<<<<< * dst.strides, ndim, inc) * */ __pyx_memoryview_refcount_objects_in_slice_with_gil(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_inc); /* "View.MemoryView":1350 * * * if dtype_is_object: # <<<<<<<<<<<<<< * refcount_objects_in_slice_with_gil(dst.data, dst.shape, * dst.strides, ndim, inc) */ } /* "View.MemoryView":1346 * * @cname('__pyx_memoryview_refcount_copying') * cdef void refcount_copying(__Pyx_memviewslice *dst, bint dtype_is_object, # <<<<<<<<<<<<<< * int ndim, bint inc) nogil: * */ /* function exit code */ } /* "View.MemoryView":1355 * * @cname('__pyx_memoryview_refcount_objects_in_slice_with_gil') * cdef void refcount_objects_in_slice_with_gil(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * bint inc) with gil: */ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, int __pyx_v_inc) { __Pyx_RefNannyDeclarations #ifdef WITH_THREAD PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure(); #endif __Pyx_RefNannySetupContext("refcount_objects_in_slice_with_gil", 0); /* "View.MemoryView":1358 * Py_ssize_t *strides, int ndim, * bint inc) with gil: * refcount_objects_in_slice(data, shape, strides, ndim, inc) # <<<<<<<<<<<<<< * * @cname('__pyx_memoryview_refcount_objects_in_slice') */ __pyx_memoryview_refcount_objects_in_slice(__pyx_v_data, __pyx_v_shape, __pyx_v_strides, __pyx_v_ndim, __pyx_v_inc); /* "View.MemoryView":1355 * * @cname('__pyx_memoryview_refcount_objects_in_slice_with_gil') * cdef void refcount_objects_in_slice_with_gil(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * bint inc) with gil: */ /* function exit code */ __Pyx_RefNannyFinishContext(); #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif } /* "View.MemoryView":1361 * * @cname('__pyx_memoryview_refcount_objects_in_slice') * cdef void refcount_objects_in_slice(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, bint inc): * cdef Py_ssize_t i */ static void __pyx_memoryview_refcount_objects_in_slice(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, int __pyx_v_inc) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; __Pyx_RefNannyDeclarations Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; int __pyx_t_3; __Pyx_RefNannySetupContext("refcount_objects_in_slice", 0); /* "View.MemoryView":1365 * cdef Py_ssize_t i * * for i in range(shape[0]): # <<<<<<<<<<<<<< * if ndim == 1: * if inc: */ __pyx_t_1 = (__pyx_v_shape[0]); for (__pyx_t_2 = 0; __pyx_t_2 < __pyx_t_1; __pyx_t_2+=1) { __pyx_v_i = __pyx_t_2; /* "View.MemoryView":1366 * * for i in range(shape[0]): * if ndim == 1: # <<<<<<<<<<<<<< * if inc: * Py_INCREF(( data)[0]) */ __pyx_t_3 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_3) { /* "View.MemoryView":1367 * for i in range(shape[0]): * if ndim == 1: * if inc: # <<<<<<<<<<<<<< * Py_INCREF(( data)[0]) * else: */ __pyx_t_3 = (__pyx_v_inc != 0); if (__pyx_t_3) { /* "View.MemoryView":1368 * if ndim == 1: * if inc: * Py_INCREF(( data)[0]) # <<<<<<<<<<<<<< * else: * Py_DECREF(( data)[0]) */ Py_INCREF((((PyObject **)__pyx_v_data)[0])); /* "View.MemoryView":1367 * for i in range(shape[0]): * if ndim == 1: * if inc: # <<<<<<<<<<<<<< * Py_INCREF(( data)[0]) * else: */ goto __pyx_L6; } /* "View.MemoryView":1370 * Py_INCREF(( data)[0]) * else: * Py_DECREF(( data)[0]) # <<<<<<<<<<<<<< * else: * refcount_objects_in_slice(data, shape + 1, strides + 1, */ /*else*/ { Py_DECREF((((PyObject **)__pyx_v_data)[0])); } __pyx_L6:; /* "View.MemoryView":1366 * * for i in range(shape[0]): * if ndim == 1: # <<<<<<<<<<<<<< * if inc: * Py_INCREF(( data)[0]) */ goto __pyx_L5; } /* "View.MemoryView":1372 * Py_DECREF(( data)[0]) * else: * refcount_objects_in_slice(data, shape + 1, strides + 1, # <<<<<<<<<<<<<< * ndim - 1, inc) * */ /*else*/ { /* "View.MemoryView":1373 * else: * refcount_objects_in_slice(data, shape + 1, strides + 1, * ndim - 1, inc) # <<<<<<<<<<<<<< * * data += strides[0] */ __pyx_memoryview_refcount_objects_in_slice(__pyx_v_data, (__pyx_v_shape + 1), (__pyx_v_strides + 1), (__pyx_v_ndim - 1), __pyx_v_inc); } __pyx_L5:; /* "View.MemoryView":1375 * ndim - 1, inc) * * data += strides[0] # <<<<<<<<<<<<<< * * */ __pyx_v_data = (__pyx_v_data + (__pyx_v_strides[0])); } /* "View.MemoryView":1361 * * @cname('__pyx_memoryview_refcount_objects_in_slice') * cdef void refcount_objects_in_slice(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, bint inc): * cdef Py_ssize_t i */ /* function exit code */ __Pyx_RefNannyFinishContext(); } /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item, int __pyx_v_dtype_is_object) { /* "View.MemoryView":1384 * size_t itemsize, void *item, * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) # <<<<<<<<<<<<<< * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef Py_ssize_t extent = shape[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_extent = (__pyx_v_shape[0]); /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1399 * * if ndim == 1: * for i in range(extent): # <<<<<<<<<<<<<< * memcpy(data, item, itemsize) * data += stride */ __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1400 * if ndim == 1: * for i in range(extent): * memcpy(data, item, itemsize) # <<<<<<<<<<<<<< * data += stride * else: */ memcpy(__pyx_v_data, __pyx_v_item, __pyx_v_itemsize); /* "View.MemoryView":1401 * for i in range(extent): * memcpy(data, item, itemsize) * data += stride # <<<<<<<<<<<<<< * else: * for i in range(extent): */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ goto __pyx_L3; } /* "View.MemoryView":1403 * data += stride * else: * for i in range(extent): # <<<<<<<<<<<<<< * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) */ /*else*/ { __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1404 * else: * for i in range(extent): * _slice_assign_scalar(data, shape + 1, strides + 1, # <<<<<<<<<<<<<< * ndim - 1, itemsize, item) * data += stride */ __pyx_memoryview__slice_assign_scalar(__pyx_v_data, (__pyx_v_shape + 1), (__pyx_v_strides + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1406 * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) * data += stride # <<<<<<<<<<<<<< * * */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } } __pyx_L3:; /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /* function exit code */ } static PyObject *__pyx_tp_new_4silx_4math_13marchingcubes_MarchingCubes(PyTypeObject *t, PyObject *a, PyObject *k) { PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; if (unlikely(__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_1__cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_4silx_4math_13marchingcubes_MarchingCubes(PyObject *o) { #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_3__dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_4silx_4math_13marchingcubes_MarchingCubes(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static PyObject *__pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_5shape_1__get__(o); } static PyObject *__pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_sampling(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_8sampling_1__get__(o); } static PyObject *__pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_isolevel(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_8isolevel_1__get__(o); } static PyObject *__pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_invert_normals(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_14invert_normals_1__get__(o); } static PyMethodDef __pyx_methods_4silx_4math_13marchingcubes_MarchingCubes[] = { {"process", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_7process, METH_O, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_6process}, {"process_slice", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_9process_slice, METH_VARARGS|METH_KEYWORDS, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_8process_slice}, {"finish_process", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_11finish_process, METH_NOARGS, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_10finish_process}, {"reset", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_13reset, METH_NOARGS, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_12reset}, {"get_vertices", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_15get_vertices, METH_NOARGS, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_14get_vertices}, {"get_normals", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_17get_normals, METH_NOARGS, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_16get_normals}, {"get_indices", (PyCFunction)__pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_19get_indices, METH_NOARGS, __pyx_doc_4silx_4math_13marchingcubes_13MarchingCubes_18get_indices}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_4silx_4math_13marchingcubes_MarchingCubes[] = { {(char *)"shape", __pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_shape, 0, (char *)"The shape of the processed scalar field (depth, height, width).", 0}, {(char *)"sampling", __pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_sampling, 0, (char *)"The sampling over each dimension (depth, height, width).\n\n Default: 1, 1, 1\n ", 0}, {(char *)"isolevel", __pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_isolevel, 0, (char *)"The iso-level at which to generate the isosurface", 0}, {(char *)"invert_normals", __pyx_getprop_4silx_4math_13marchingcubes_13MarchingCubes_invert_normals, 0, (char *)"True to use gradient descent as normals.", 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_MarchingCubes = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_4silx_4math_13marchingcubes_MarchingCubes, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_MarchingCubes = { 0, /*mp_length*/ __pyx_pw_4silx_4math_13marchingcubes_13MarchingCubes_5__getitem__, /*mp_subscript*/ 0, /*mp_ass_subscript*/ }; static PyTypeObject __pyx_type_4silx_4math_13marchingcubes_MarchingCubes = { PyVarObject_HEAD_INIT(0, 0) "silx.math.marchingcubes.MarchingCubes", /*tp_name*/ sizeof(struct __pyx_obj_4silx_4math_13marchingcubes_MarchingCubes), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_4silx_4math_13marchingcubes_MarchingCubes, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_MarchingCubes, /*tp_as_sequence*/ &__pyx_tp_as_mapping_MarchingCubes, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ "Compute isosurface using marching cubes algorithm.\n\n It builds a surface from a 3D scalar dataset as a 3D contour at a\n given value.\n The resulting surface is not topologically correct.\n\n See: http://paulbourke.net/geometry/polygonise/\n\n Lorensen, W. E. and Cline, H. E. Marching cubes: A high resolution 3D\n surface construction algorithm. Computer Graphics, 21, 4 (July 1987).\n ACM, 163-169.\n\n Generated vertex and normal coordinates are in the same order\n as input array, i.e., (dim 0, dim 1, dim 2).\n\n Expected indices in memory of a (2, 2, 2) dataset:\n\n dim 0 (depth)\n |\n |\n 4 +------+ 5\n /| /|\n / | / |\n 6 +------+ 7|\n | | | |\n |0 +---|--+ 1 --- dim 2 (width)\n | / | /\n |/ |/\n 2 +------+ 3\n /\n /\n dim 1 (height)\n\n Example with a 3D data set:\n\n >>> vertices, normals, indices = MarchingCubes(data, isolevel=1.)\n\n Example of code for processing a list of images:\n\n >>> mc = MarchingCubes(isolevel=1.) # Create object with iso-level=1\n >>> previous_image = images[0]\n >>> for image in images[1:]:\n ... mc.process_image(previous_image, image) # Process one slice\n ... previous_image = image\n\n >>> vertices = mc.get_vertices() # Array of vertex positions\n >>> normals = mc.get_normals() # Array of normals\n >>> triangle_indices = mc.get_indices() # Array of indices of vertices\n\n :param data: 3D dataset of float32 or None\n :type data: numpy.ndarray of float32 of dimension 3\n :param float isolevel: The value for which to generate the isosurface\n :param bool invert_normals:\n True (default) for normals oriented in direction of gradient descent\n :param sampling: Sampling along each dimension (depth, height, width)\n ", /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_4silx_4math_13marchingcubes_MarchingCubes, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_4silx_4math_13marchingcubes_MarchingCubes, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_4silx_4math_13marchingcubes_MarchingCubes, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_array __pyx_vtable_array; static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_array_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_array_obj *)o); p->__pyx_vtab = __pyx_vtabptr_array; p->mode = ((PyObject*)Py_None); Py_INCREF(Py_None); p->_format = ((PyObject*)Py_None); Py_INCREF(Py_None); if (unlikely(__pyx_array___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_array(PyObject *o) { struct __pyx_array_obj *p = (struct __pyx_array_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_array___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->mode); Py_CLEAR(p->_format); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_array(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_array(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_array___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_tp_getattro_array(PyObject *o, PyObject *n) { PyObject *v = PyObject_GenericGetAttr(o, n); if (!v && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Clear(); v = __pyx_array___getattr__(o, n); } return v; } static PyObject *__pyx_getprop___pyx_array_memview(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_5array_7memview_1__get__(o); } static PyMethodDef __pyx_methods_array[] = { {"__getattr__", (PyCFunction)__pyx_array___getattr__, METH_O|METH_COEXIST, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_array[] = { {(char *)"memview", __pyx_getprop___pyx_array_memview, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_array = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_array, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_array = { 0, /*mp_length*/ __pyx_array___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.math.marchingcubes.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.marchingcubes.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* 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if (PyDict_SetItem(__pyx_memoryview_type->tp_dict, __pyx_n_s_pyx_getbuffer, __pyx_t_1) < 0) __PYX_ERR(2, 535, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; PyType_Modified(__pyx_memoryview_type); /* "View.MemoryView":981 * return self.from_object * * __pyx_getbuffer = capsule( &__pyx_memoryview_getbuffer, "getbuffer(obj, view, flags)") # <<<<<<<<<<<<<< * * */ __pyx_t_1 = __pyx_capsule_create(((void *)(&__pyx_memoryview_getbuffer)), ((char *)"getbuffer(obj, view, flags)")); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 981, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); if (PyDict_SetItem(__pyx_memoryviewslice_type->tp_dict, __pyx_n_s_pyx_getbuffer, __pyx_t_1) < 0) __PYX_ERR(2, 981, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; PyType_Modified(__pyx_memoryviewslice_type); /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /*--- Wrapped vars code ---*/ goto __pyx_L0; __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); if (__pyx_m) { if (__pyx_d) { __Pyx_AddTraceback("init silx.math.marchingcubes", __pyx_clineno, __pyx_lineno, __pyx_filename); } Py_DECREF(__pyx_m); __pyx_m = 0; } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_ImportError, "init silx.math.marchingcubes"); } __pyx_L0:; __Pyx_RefNannyFinishContext(); #if PY_MAJOR_VERSION < 3 return; #else return __pyx_m; #endif } /* --- Runtime support code --- */ /* Refnanny */ #if CYTHON_REFNANNY static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { PyObject *m = NULL, *p = NULL; void *r = NULL; m = PyImport_ImportModule((char *)modname); if (!m) goto end; p = PyObject_GetAttrString(m, (char *)"RefNannyAPI"); if (!p) goto end; r = PyLong_AsVoidPtr(p); end: Py_XDECREF(p); Py_XDECREF(m); return (__Pyx_RefNannyAPIStruct *)r; } #endif /* GetBuiltinName */ static PyObject *__Pyx_GetBuiltinName(PyObject *name) { PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); if (unlikely(!result)) { PyErr_Format(PyExc_NameError, #if PY_MAJOR_VERSION >= 3 "name '%U' is not defined", name); #else "name '%.200s' is not defined", PyString_AS_STRING(name)); #endif } return result; } /* RaiseDoubleKeywords */ static void __Pyx_RaiseDoubleKeywordsError( const char* func_name, PyObject* kw_name) { PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION >= 3 "%s() got multiple values for keyword argument '%U'", func_name, kw_name); #else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* RaiseArgTupleInvalid */ static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found) { Py_ssize_t num_expected; const char *more_or_less; if (num_found < num_min) { num_expected = num_min; more_or_less = "at least"; } else { num_expected = num_max; more_or_less = "at most"; 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"" : "s", num_found); } /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { if (op1 == op2) { Py_RETURN_TRUE; } #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long a = PyInt_AS_LONG(op1); if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a; const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15 default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ); #else default: Py_RETURN_FALSE; #endif } } if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); if ((double)a == (double)b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } return PyObject_RichCompare(op1, op2, Py_EQ); } #endif /* PyObjectCallNoArg */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, NULL, 0); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* BufferIndexError */ static void __Pyx_RaiseBufferIndexError(int axis) { PyErr_Format(PyExc_IndexError, "Out of bounds on buffer access (axis %d)", axis); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) return __pyx_pw_5numpy_7ndarray_1__getbuffer__(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) { __pyx_pw_5numpy_7ndarray_3__releasebuffer__(obj, view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value) { const unsigned int neg_one = (unsigned int) -1, const_zero = (unsigned int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(unsigned int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned int), little, !is_unsigned); } } /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return ::std::complex< float >(x, y); } #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return x + y*(__pyx_t_float_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { __pyx_t_float_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabsf(b.real) >= fabsf(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { float r = b.imag / b.real; float s = 1.0 / (b.real + b.imag * r); return __pyx_t_float_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { float r = b.real / b.imag; float s = 1.0 / (b.imag + b.real * r); return __pyx_t_float_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else { float denom = b.real * b.real + b.imag * b.imag; return __pyx_t_float_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrtf(z.real*z.real + z.imag*z.imag); #else return hypotf(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; float r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { float denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(a, a); case 3: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, a); case 4: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = powf(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2f(0, -1); } } else { r = __Pyx_c_abs_float(a); theta = atan2f(a.imag, a.real); } lnr = logf(r); z_r = expf(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cosf(z_theta); z.imag = z_r * sinf(z_theta); return z; } #endif #endif /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return ::std::complex< double >(x, y); } #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return x + y*(__pyx_t_double_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { __pyx_t_double_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabs(b.real) >= fabs(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { double r = b.imag / b.real; double s = 1.0 / (b.real + b.imag * r); return __pyx_t_double_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { double r = b.real / b.imag; double s = 1.0 / (b.imag + b.real * r); return __pyx_t_double_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else { double denom = b.real * b.real + b.imag * b.imag; return __pyx_t_double_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrt(z.real*z.real + z.imag*z.imag); #else return hypot(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; double r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { double denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(a, a); case 3: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, a); case 4: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = pow(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2(0, -1); } } else { r = __Pyx_c_abs_double(a); theta = atan2(a.imag, a.real); } lnr = log(r); z_r = exp(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cos(z_theta); z.imag = z_r * sin(z_theta); return z; } #endif #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value) { const enum NPY_TYPES neg_one = (enum NPY_TYPES) -1, const_zero = (enum NPY_TYPES) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(enum NPY_TYPES) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(enum NPY_TYPES) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(enum NPY_TYPES), little, !is_unsigned); } } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *x) { const unsigned int neg_one = (unsigned int) -1, const_zero = (unsigned int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (unsigned int) 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned int, digit, digits[0]) case 2: if (8 * sizeof(unsigned int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) >= 2 * PyLong_SHIFT) { return (unsigned int) (((((unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])); } } break; case 3: if (8 * sizeof(unsigned int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) >= 3 * PyLong_SHIFT) { return (unsigned int) (((((((unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])); } } break; case 4: if (8 * sizeof(unsigned int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) >= 4 * PyLong_SHIFT) { return (unsigned int) (((((((((unsigned int)digits[3]) << PyLong_SHIFT) | (unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (unsigned int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(unsigned int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (unsigned int) 0; case -1: __PYX_VERIFY_RETURN_INT(unsigned int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(unsigned int, digit, +digits[0]) case -2: if (8 * sizeof(unsigned int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) - 1 > 2 * PyLong_SHIFT) { return (unsigned int) (((unsigned int)-1)*(((((unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]))); } } break; case 2: if (8 * sizeof(unsigned int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) - 1 > 2 * PyLong_SHIFT) { return (unsigned int) ((((((unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]))); } } break; case -3: if (8 * sizeof(unsigned int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) - 1 > 3 * PyLong_SHIFT) { return (unsigned int) (((unsigned int)-1)*(((((((unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]))); } } break; case 3: if (8 * sizeof(unsigned int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) - 1 > 3 * PyLong_SHIFT) { return (unsigned int) ((((((((unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]))); } } break; case -4: if (8 * sizeof(unsigned int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) - 1 > 4 * PyLong_SHIFT) { return (unsigned int) (((unsigned int)-1)*(((((((((unsigned int)digits[3]) << PyLong_SHIFT) | (unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]))); } } break; case 4: if (8 * sizeof(unsigned int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned int) - 1 > 4 * PyLong_SHIFT) { return (unsigned int) ((((((((((unsigned int)digits[3]) << PyLong_SHIFT) | (unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]))); } } break; } #endif if (sizeof(unsigned int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned int) -1; } } else { unsigned int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (unsigned int) -1; val = __Pyx_PyInt_As_unsigned_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned int"); return (unsigned int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned int"); return (unsigned int) -1; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *x) { const size_t neg_one = (size_t) -1, const_zero = (size_t) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(size_t) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(size_t, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (size_t) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (size_t) 0; case 1: __PYX_VERIFY_RETURN_INT(size_t, digit, digits[0]) case 2: if (8 * sizeof(size_t) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) >= 2 * PyLong_SHIFT) { return (size_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } } break; case 3: if (8 * sizeof(size_t) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) >= 3 * PyLong_SHIFT) { return (size_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } } break; case 4: if (8 * sizeof(size_t) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) >= 4 * PyLong_SHIFT) { return (size_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (size_t) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(size_t) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(size_t) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (size_t) 0; case -1: __PYX_VERIFY_RETURN_INT(size_t, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(size_t, digit, +digits[0]) case -2: if (8 * sizeof(size_t) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) { return (size_t) (((size_t)-1)*(((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case 2: if (8 * sizeof(size_t) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) { return (size_t) ((((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case -3: if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) { return (size_t) (((size_t)-1)*(((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case 3: if (8 * sizeof(size_t) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) { return (size_t) ((((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case -4: if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 4 * PyLong_SHIFT) { return (size_t) (((size_t)-1)*(((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case 4: if (8 * sizeof(size_t) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 4 * PyLong_SHIFT) { return (size_t) ((((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; } #endif if (sizeof(size_t) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(size_t) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else size_t val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (size_t) -1; } } else { size_t val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (size_t) -1; val = __Pyx_PyInt_As_size_t(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to size_t"); return (size_t) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to size_t"); return (size_t) -1; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* ModuleImport */ #ifndef __PYX_HAVE_RT_ImportModule #define __PYX_HAVE_RT_ImportModule static PyObject *__Pyx_ImportModule(const char *name) { PyObject *py_name = 0; PyObject *py_module = 0; py_name = __Pyx_PyIdentifier_FromString(name); if (!py_name) goto bad; py_module = PyImport_Import(py_name); Py_DECREF(py_name); return py_module; bad: Py_XDECREF(py_name); return 0; } #endif /* TypeImport */ #ifndef __PYX_HAVE_RT_ImportType #define __PYX_HAVE_RT_ImportType static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict) { PyObject *py_module = 0; PyObject *result = 0; PyObject *py_name = 0; char warning[200]; Py_ssize_t basicsize; #ifdef Py_LIMITED_API PyObject *py_basicsize; #endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; py_name = __Pyx_PyIdentifier_FromString(class_name); if (!py_name) goto bad; result = PyObject_GetAttr(py_module, py_name); Py_DECREF(py_name); py_name = 0; Py_DECREF(py_module); py_module = 0; if (!result) goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } #ifndef Py_LIMITED_API basicsize = ((PyTypeObject *)result)->tp_basicsize; #else py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); if (!py_basicsize) goto bad; basicsize = PyLong_AsSsize_t(py_basicsize); Py_DECREF(py_basicsize); py_basicsize = 0; if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) goto bad; #endif if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd", module_name, class_name, basicsize, size); if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; } else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd", module_name, class_name, basicsize, size); goto bad; } return (PyTypeObject *)result; bad: Py_XDECREF(py_module); Py_XDECREF(result); return NULL; } #endif /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/fit/0000755023630100076410000000000013202537043015632 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/test/0000755023630100076410000000000013202537043016611 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/test/test_fit.py0000644023630100076410000004045613202530432021010 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Nominal tests of the leastsq function. """ import unittest import numpy import sys from silx.test import utils from silx.math.fit.leastsq import _logger as fitlogger class Test_leastsq(unittest.TestCase): """ Unit tests of the leastsq function. """ ndims = None def setUp(self): try: from silx.math.fit import leastsq self.instance = leastsq except ImportError: self.instance = None def myexp(x): # put a (bad) filter to avoid over/underflows # with no python looping return numpy.exp(x*numpy.less(abs(x), 250)) - \ 1.0 * numpy.greater_equal(abs(x), 250) self.my_exp = myexp def gauss(x, *params): params = numpy.array(params, copy=False, dtype=numpy.float) result = params[0] + params[1] * x for i in range(2, len(params), 3): p = params[i:(i+3)] dummy = 2.3548200450309493*(x - p[1])/p[2] result += p[0] * self.my_exp(-0.5 * dummy * dummy) return result self.gauss = gauss def gauss_derivative(x, params, idx): if idx == 0: return numpy.ones(len(x), numpy.float) if idx == 1: return x gaussian_peak = (idx - 2) // 3 gaussian_parameter = (idx - 2) % 3 actual_idx = 2 + 3 * gaussian_peak p = params[actual_idx:(actual_idx+3)] if gaussian_parameter == 0: return self.gauss(x, *[0, 0, 1.0, p[1], p[2]]) if gaussian_parameter == 1: tmp = self.gauss(x, *[0, 0, p[0], p[1], p[2]]) tmp *= 2.3548200450309493*(x - p[1])/p[2] return tmp * 2.3548200450309493/p[2] if gaussian_parameter == 2: tmp = self.gauss(x, *[0, 0, p[0], p[1], p[2]]) tmp *= 2.3548200450309493*(x - p[1])/p[2] return tmp * 2.3548200450309493*(x - p[1])/(p[2]*p[2]) self.gauss_derivative = gauss_derivative def tearDown(self): self.instance = None self.gauss = None self.gauss_derivative = None self.my_exp = None self.model_function = None self.model_derivative = None def testImport(self): self.assertTrue(self.instance is not None, "Cannot import leastsq from silx.math.fit") def testUnconstrainedFitNoWeight(self): parameters_actual = [10.5, 2, 1000.0, 20., 15] x = numpy.arange(10000.) y = self.gauss(x, *parameters_actual) parameters_estimate = [0.0, 1.0, 900.0, 25., 10] model_function = self.gauss fittedpar, cov = self.instance(model_function, x, y, parameters_estimate) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) def testUnconstrainedFitWeight(self): parameters_actual = [10.5,2,1000.0,20.,15] x = numpy.arange(10000.) y = self.gauss(x, *parameters_actual) sigma = numpy.sqrt(y) parameters_estimate = [0.0, 1.0, 900.0, 25., 10] model_function = self.gauss fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) def testDerivativeFunction(self): parameters_actual = [10.5, 2, 10000.0, 20., 150, 5000, 900., 300] x = numpy.arange(10000.) y = self.gauss(x, *parameters_actual) delta = numpy.sqrt(numpy.finfo(numpy.float).eps) for i in range(len(parameters_actual)): p = parameters_actual * 1 if p[i] == 0: delta_par = delta else: delta_par = p[i] * delta if i > 2: p[0] = 0.0 p[1] = 0.0 p[i] += delta_par yPlus = self.gauss(x, *p) p[i] = parameters_actual[i] - delta_par yMinus = self.gauss(x, *p) numerical_derivative = (yPlus - yMinus) / (2 * delta_par) #numerical_derivative = (self.gauss(x, *p) - y) / delta_par p[i] = parameters_actual[i] derivative = self.gauss_derivative(x, p, i) diff = numerical_derivative - derivative test_condition = numpy.allclose(numerical_derivative, derivative, atol=5.0e-6) if not test_condition: msg = "Error calculating derivative of parameter %d." % i msg += "\n diff min = %g diff max = %g" % (diff.min(), diff.max()) self.assertTrue(test_condition, msg) def testConstrainedFit(self): CFREE = 0 CPOSITIVE = 1 CQUOTED = 2 CFIXED = 3 CFACTOR = 4 CDELTA = 5 CSUM = 6 parameters_actual = [10.5, 2, 10000.0, 20., 150, 5000, 900., 300] x = numpy.arange(10000.) y = self.gauss(x, *parameters_actual) parameters_estimate = [0.0, 1.0, 900.0, 25., 10, 400, 850, 200] model_function = self.gauss model_deriv = self.gauss_derivative constraints_all_free = [[0, 0, 0]] * len(parameters_actual) constraints_all_positive = [[1, 0, 0]] * len(parameters_actual) constraints_delta_position = [[0, 0, 0]] * len(parameters_actual) constraints_delta_position[6] = [CDELTA, 3, 880] constraints_sum_position = constraints_all_positive * 1 constraints_sum_position[6] = [CSUM, 3, 920] constraints_factor = constraints_delta_position * 1 constraints_factor[2] = [CFACTOR, 5, 2] constraints_list = [None, constraints_all_free, constraints_all_positive, constraints_delta_position, constraints_sum_position] # for better code coverage, the warning recommending to set full_output # to True when using constraints should be shown at least once full_output = True for index, constraints in enumerate(constraints_list): if index == 2: full_output = None elif index == 3: full_output = 0 for model_deriv in [None, self.gauss_derivative]: for sigma in [None, numpy.sqrt(y)]: fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma, constraints=constraints, model_deriv=model_deriv, full_output=full_output)[:2] full_output = True test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) def testUnconstrainedFitAnalyticalDerivative(self): parameters_actual = [10.5, 2, 1000.0, 20., 15] x = numpy.arange(10000.) y = self.gauss(x, *parameters_actual) sigma = numpy.sqrt(y) parameters_estimate = [0.0, 1.0, 900.0, 25., 10] model_function = self.gauss model_deriv = self.gauss_derivative fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma, model_deriv=model_deriv) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) @utils.test_logging(fitlogger.name, warning=2) def testBadlyShapedData(self): parameters_actual = [10.5, 2, 1000.0, 20., 15] x = numpy.arange(10000.).reshape(1000, 10) y = self.gauss(x, *parameters_actual) sigma = numpy.sqrt(y) parameters_estimate = [0.0, 1.0, 900.0, 25., 10] model_function = self.gauss for check_finite in [True, False]: fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma, check_finite=check_finite) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) @utils.test_logging(fitlogger.name, warning=3) def testDataWithNaN(self): parameters_actual = [10.5, 2, 1000.0, 20., 15] x = numpy.arange(10000.).reshape(1000, 10) y = self.gauss(x, *parameters_actual) sigma = numpy.sqrt(y) parameters_estimate = [0.0, 1.0, 900.0, 25., 10] model_function = self.gauss x[500] = numpy.inf # check default behavior try: self.instance(model_function, x, y, parameters_estimate, sigma=sigma) except ValueError: info = "%s" % sys.exc_info()[1] self.assertTrue("array must not contain inf" in info) # check requested behavior try: self.instance(model_function, x, y, parameters_estimate, sigma=sigma, check_finite=True) except ValueError: info = "%s" % sys.exc_info()[1] self.assertTrue("array must not contain inf" in info) fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma, check_finite=False) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) # testing now with ydata containing NaN x = numpy.arange(10000.).reshape(1000, 10) y[500] = numpy.nan fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma, check_finite=False) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) # testing now with sigma containing NaN sigma[300] = numpy.nan fittedpar, cov = self.instance(model_function, x, y, parameters_estimate, sigma=sigma, check_finite=False) test_condition = numpy.allclose(parameters_actual, fittedpar) if not test_condition: msg = "Unsuccessfull fit\n" for i in range(len(fittedpar)): msg += "Expected %g obtained %g\n" % (parameters_actual[i], fittedpar[i]) self.assertTrue(test_condition, msg) def testUncertainties(self): """Test for validity of uncertainties in returned full-output dictionary. This is a non-regression test for pull request #197""" parameters_actual = [10.5, 2, 1000.0, 20., 15, 2001.0, 30.1, 16] x = numpy.arange(10000.) y = self.gauss(x, *parameters_actual) parameters_estimate = [0.0, 1.0, 900.0, 25., 10., 1500., 20., 2.0] # test that uncertainties are not 0. fittedpar, cov, infodict = self.instance(self.gauss, x, y, parameters_estimate, full_output=True) uncertainties = infodict["uncertainties"] self.assertEqual(len(uncertainties), len(parameters_actual)) self.assertEqual(len(uncertainties), len(fittedpar)) for uncertainty in uncertainties: self.assertNotAlmostEqual(uncertainty, 0.) # set constraint FIXED for half the parameters. # This should cause leastsq to return 100% uncertainty. parameters_estimate = [10.6, 2.1, 1000.1, 20.1, 15.1, 2001.1, 30.2, 16.1] CFIXED = 3 CFREE = 0 constraints = [] for i in range(len(parameters_estimate)): if i % 2: constraints.append([CFIXED, 0, 0]) else: constraints.append([CFREE, 0, 0]) fittedpar, cov, infodict = self.instance(self.gauss, x, y, parameters_estimate, constraints=constraints, full_output=True) uncertainties = infodict["uncertainties"] for i in range(len(parameters_estimate)): if i % 2: # test that all FIXED parameters have 100% uncertainty self.assertAlmostEqual(uncertainties[i], parameters_estimate[i]) test_cases = (Test_leastsq,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/fit/test/test_peaks.py0000644023630100076410000001424513202530306021326 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Tests for peaks module """ import unittest import numpy import math from silx.math.fit import functions from silx.math.fit import peaks class Test_peak_search(unittest.TestCase): """ Unit tests of peak_search on various types of multi-peak functions. """ def setUp(self): self.x = numpy.arange(5000) # (height1, center1, fwhm1, ...) self.h_c_fwhm = (50, 500, 100, 50, 600, 80, 20, 2000, 100, 50, 2250, 110, 40, 3000, 99, 23, 4980, 80) # (height1, center1, fwhm1, eta1 ...) self.h_c_fwhm_eta = (50, 500, 100, 0.4, 50, 600, 80, 0.5, 20, 2000, 100, 0.6, 50, 2250, 110, 0.7, 40, 3000, 99, 0.8, 23, 4980, 80, 0.3,) # (height1, center1, fwhm11, fwhm21, ...) self.h_c_fwhm_fwhm = (50, 500, 100, 85, 50, 600, 80, 110, 20, 2000, 100, 100, 50, 2250, 110, 99, 40, 3000, 99, 110, 23, 4980, 80, 80,) # (height1, center1, fwhm11, fwhm21, eta1 ...) self.h_c_fwhm_fwhm_eta = (50, 500, 100, 85, 0.4, 50, 600, 80, 110, 0.5, 20, 2000, 100, 100, 0.6, 50, 2250, 110, 99, 0.7, 40, 3000, 99, 110, 0.8, 23, 4980, 80, 80, 0.3,) # (area1, center1, fwhm1, ...) self.a_c_fwhm = (2550, 500, 100, 2000, 600, 80, 500, 2000, 100, 4000, 2250, 110, 2300, 3000, 99, 3333, 4980, 80) # (area1, center1, fwhm1, eta1 ...) self.a_c_fwhm_eta = (500, 500, 100, 0.4, 500, 600, 80, 0.5, 200, 2000, 100, 0.6, 500, 2250, 110, 0.7, 400, 3000, 99, 0.8, 230, 4980, 80, 0.3,) # (area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r) self.hypermet_params = (1000, 500, 200, 0.2, 100, 0.3, 100, 0.05, 1000, 1000, 200, 0.2, 100, 0.3, 100, 0.05, 1000, 2000, 200, 0.2, 100, 0.3, 100, 0.05, 1000, 2350, 200, 0.2, 100, 0.3, 100, 0.05, 1000, 3000, 200, 0.2, 100, 0.3, 100, 0.05, 1000, 4900, 200, 0.2, 100, 0.3, 100, 0.05,) def tearDown(self): pass def get_peaks(self, function, params): """ :param function: Multi-peak function :param params: Parameter for this function :return: list of (peak, relevance) tuples """ y = function(self.x, *params) return peaks.peak_search(y=y, fwhm=100, relevance_info=True) def testPeakSearch_various_functions(self): """Run peak search on a variety of synthetic functions, and check that result falls within +-25 samples of the actual peak (reasonable delta considering a fwhm of ~100 samples) and effects of overlapping peaks).""" f_p = ((functions.sum_gauss, self.h_c_fwhm ), (functions.sum_lorentz, self.h_c_fwhm), (functions.sum_pvoigt, self.h_c_fwhm_eta), (functions.sum_splitgauss, self.h_c_fwhm_fwhm), (functions.sum_splitlorentz, self.h_c_fwhm_fwhm), (functions.sum_splitpvoigt, self.h_c_fwhm_fwhm_eta), (functions.sum_agauss, self.a_c_fwhm), (functions.sum_fastagauss, self.a_c_fwhm), (functions.sum_alorentz, self.a_c_fwhm), (functions.sum_apvoigt, self.a_c_fwhm_eta), (functions.sum_ahypermet, self.hypermet_params), (functions.sum_fastahypermet, self.hypermet_params),) for function, params in f_p: peaks = self.get_peaks(function, params) self.assertEqual(len(peaks), 6, "Wrong number of peaks detected") for i in range(6): theoretical_peak_index = params[i*(len(params)//6) + 1] found_peak_index = peaks[i][0] self.assertLess(abs(found_peak_index - theoretical_peak_index), 25) test_cases = (Test_peak_search,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/fit/test/test_filters.py0000644023630100076410000001162513202530306021672 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ import numpy import unittest from silx.math.fit import filters from silx.math.fit import functions from silx.test.utils import add_relative_noise class TestSmooth(unittest.TestCase): """ Unit tests of smoothing functions. Test that the difference between a synthetic curve with 5% added random noise and the result of smoothing that signal is less than 5%. We compare the sum of all samples in each curve. """ def setUp(self): x = numpy.arange(5000) # (height1, center1, fwhm1, beamfwhm...) slit_params = (50, 500, 200, 100, 50, 600, 80, 30, 20, 2000, 150, 150, 50, 2250, 110, 100, 40, 3000, 50, 10, 23, 4980, 250, 20) self.y1 = functions.sum_slit(x, *slit_params) # 5% noise self.y1 = add_relative_noise(self.y1, 5.) # (height1, center1, fwhm1...) step_params = (50, 500, 200, 50, 600, 80, 20, 2000, 150, 50, 2250, 110, 40, 3000, 50, 23, 4980, 250,) self.y2 = functions.sum_stepup(x, *step_params) # 5% noise self.y2 = add_relative_noise(self.y2, 5.) self.y3 = functions.sum_stepdown(x, *step_params) # 5% noise self.y3 = add_relative_noise(self.y3, 5.) def tearDown(self): pass def testSavitskyGolay(self): npts = 25 for y in [self.y1, self.y2, self.y3]: smoothed_y = filters.savitsky_golay(y, npoints=npts) # we added +-5% of random noise. The difference must be much lower # than 5%. diff = abs(sum(smoothed_y) - sum(y)) / sum(y) self.assertLess(diff, 0.05, "Difference between data with 5%% noise and " + "smoothed data is > 5%% (%f %%)" % (diff * 100)) # Try various smoothing levels npts += 25 def testSmooth1d(self): """Test the 1D smoothing against the formula ys[i] = (y[i-1] + 2 * y[i] + y[i+1]) / 4 (for 1 < i < n-1)""" smoothed_y = filters.smooth1d(self.y1) for i in range(1, len(self.y1) - 1): self.assertAlmostEqual(4 * smoothed_y[i], self.y1[i-1] + 2 * self.y1[i] + self.y1[i+1]) def testSmooth2d(self): """Test that a 2D smoothing is the same as two successive and orthogonal 1D smoothings""" x = numpy.arange(10000) noise = 2 * numpy.random.random(10000) - 1 noise *= 0.05 y = x * (1 + noise) y.shape = (100, 100) smoothed_y = filters.smooth2d(y) intermediate_smooth = numpy.zeros_like(y) expected_smooth = numpy.zeros_like(y) # smooth along first dimension for i in range(0, y.shape[0]): intermediate_smooth[i, :] = filters.smooth1d(y[i, :]) # smooth along second dimension for j in range(0, y.shape[1]): expected_smooth[:, j] = filters.smooth1d(intermediate_smooth[:, j]) for i in range(0, y.shape[0]): for j in range(0, y.shape[1]): self.assertAlmostEqual(smoothed_y[i, j], expected_smooth[i, j]) test_cases = (TestSmooth,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/fit/test/test_bgtheories.py0000644023630100076410000001540213202530306022352 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ import copy import unittest import numpy import random from silx.math.fit import bgtheories from silx.math.fit.functions import sum_gauss class TestBgTheories(unittest.TestCase): """ """ def setUp(self): self.x = numpy.arange(100) self.y = 10 + 0.05 * self.x + sum_gauss(self.x, 10., 45., 15.) # add a very narrow high amplitude peak to test strip and snip self.y += sum_gauss(self.x, 100., 75., 2.) self.narrow_peak_index = list(self.x).index(75) random.seed() def tearDown(self): pass def testTheoriesAttrs(self): for theory_name in bgtheories.THEORY: self.assertIsInstance(theory_name, str) self.assertTrue(hasattr(bgtheories.THEORY[theory_name], "function")) self.assertTrue(hasattr(bgtheories.THEORY[theory_name].function, "__call__")) # Ensure legacy functions are not renamed accidentally self.assertTrue( {"No Background", "Constant", "Linear", "Strip", "Snip"}.issubset( set(bgtheories.THEORY))) def testNoBg(self): nobgfun = bgtheories.THEORY["No Background"].function self.assertTrue(numpy.array_equal(nobgfun(self.x, self.y), numpy.zeros_like(self.x))) # default estimate self.assertEqual(bgtheories.THEORY["No Background"].estimate(self.x, self.y), ([], [])) def testConstant(self): consfun = bgtheories.THEORY["Constant"].function c = random.random() * 100 self.assertTrue(numpy.array_equal(consfun(self.x, self.y, c), c * numpy.ones_like(self.x))) # default estimate esti_par, cons = bgtheories.THEORY["Constant"].estimate(self.x, self.y) self.assertEqual(cons, [[0, 0, 0]]) self.assertAlmostEqual(esti_par, min(self.y)) def testLinear(self): linfun = bgtheories.THEORY["Linear"].function a = random.random() * 100 b = random.random() * 100 self.assertTrue(numpy.array_equal(linfun(self.x, self.y, a, b), a + b * self.x)) # default estimate esti_par, cons = bgtheories.THEORY["Linear"].estimate(self.x, self.y) self.assertEqual(cons, [[0, 0, 0], [0, 0, 0]]) self.assertAlmostEqual(esti_par[0], 10, places=3) self.assertAlmostEqual(esti_par[1], 0.05, places=3) def testStrip(self): stripfun = bgtheories.THEORY["Strip"].function anchors = sorted(random.sample(list(self.x), 4)) anchors_indices = [list(self.x).index(a) for a in anchors] # we really want to strip away the narrow peak anchors_indices_copy = copy.deepcopy(anchors_indices) for idx in anchors_indices_copy: if abs(idx - self.narrow_peak_index) < 5: anchors_indices.remove(idx) anchors.remove(self.x[idx]) width = 2 niter = 1000 bgtheories.THEORY["Strip"].configure(AnchorsList=anchors, AnchorsFlag=True) bg = stripfun(self.x, self.y, width, niter) # assert peak amplitude has been decreased self.assertLess(bg[self.narrow_peak_index], self.y[self.narrow_peak_index]) # default estimate for i in anchors_indices: self.assertEqual(bg[i], self.y[i]) # estimated parameters are equal to the default ones in the config dict bgtheories.THEORY["Strip"].configure(StripWidth=7, StripIterations=8) esti_par, cons = bgtheories.THEORY["Strip"].estimate(self.x, self.y) self.assertTrue(numpy.array_equal(cons, [[3, 0, 0], [3, 0, 0]])) self.assertEqual(esti_par, [7, 8]) def testSnip(self): snipfun = bgtheories.THEORY["Snip"].function anchors = sorted(random.sample(list(self.x), 4)) anchors_indices = [list(self.x).index(a) for a in anchors] # we want to strip away the narrow peak, so remove nearby anchors anchors_indices_copy = copy.deepcopy(anchors_indices) for idx in anchors_indices_copy: if abs(idx - self.narrow_peak_index) < 5: anchors_indices.remove(idx) anchors.remove(self.x[idx]) width = 16 bgtheories.THEORY["Snip"].configure(AnchorsList=anchors, AnchorsFlag=True) bg = snipfun(self.x, self.y, width) # assert peak amplitude has been decreased self.assertLess(bg[self.narrow_peak_index], self.y[self.narrow_peak_index], "Snip didn't decrease the peak amplitude.") # anchored data must remain fixed for i in anchors_indices: self.assertEqual(bg[i], self.y[i]) # estimated parameters are equal to the default ones in the config dict bgtheories.THEORY["Snip"].configure(SnipWidth=7) esti_par, cons = bgtheories.THEORY["Snip"].estimate(self.x, self.y) self.assertTrue(numpy.array_equal(cons, [[3, 0, 0]])) self.assertEqual(esti_par, [7]) test_cases = (TestBgTheories,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/fit/test/test_fitmanager.py0000644023630100076410000004116313202530306022337 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Tests for fitmanager module """ import unittest import numpy import os.path from silx.math.fit import fitmanager from silx.math.fit import fittheories from silx.math.fit import bgtheories from silx.math.fit.fittheory import FitTheory from silx.math.fit.functions import sum_gauss, sum_stepdown, sum_stepup from silx.test.utils import temp_dir custom_function_definition = """ import copy from silx.math.fit.fittheory import FitTheory CONFIG = {'d': 1.} def myfun(x, a, b, c): "Model function" return (a * x**2 + b * x + c) / CONFIG['d'] def myesti(x, y): "Initial parameters for iterative fit (a, b, c) = (1, 1, 1)" return (1., 1., 1.), ((0, 0, 0), (0, 0, 0), (0, 0, 0)) def myconfig(d=1., **kw): "This function can modify CONFIG" CONFIG["d"] = d return CONFIG def myderiv(x, parameters, index): "Custom derivative (does not work, causes singular matrix)" pars_plus = copy.copy(parameters) pars_plus[index] *= 1.0001 pars_minus = parameters pars_minus[index] *= copy.copy(0.9999) delta_fun = myfun(x, *pars_plus) - myfun(x, *pars_minus) delta_par = parameters[index] * 0.0001 * 2 return delta_fun / delta_par THEORY = { 'my fit theory': FitTheory(function=myfun, parameters=('A', 'B', 'C'), estimate=myesti, configure=myconfig, derivative=myderiv) } """ old_custom_function_definition = """ CONFIG = {'d': 1.0} def myfun(x, a, b, c): "Model function" return (a * x**2 + b * x + c) / CONFIG['d'] def myesti(x, y, bg, xscalinq, yscaling): "Initial parameters for iterative fit (a, b, c) = (1, 1, 1)" return (1., 1., 1.), ((0, 0, 0), (0, 0, 0), (0, 0, 0)) def myconfig(**kw): "Update or complete CONFIG dictionary" for key in kw: CONFIG[key] = kw[key] return CONFIG THEORY = ['my fit theory'] PARAMETERS = [('A', 'B', 'C')] FUNCTION = [myfun] ESTIMATE = [myesti] CONFIGURE = [myconfig] """ def _order_of_magnitude(x): return numpy.log10(x).round() class TestFitmanager(unittest.TestCase): """ Unit tests of multi-peak functions. """ def setUp(self): pass def tearDown(self): pass def testFitManager(self): """Test fit manager on synthetic data using a gaussian function and a linear background""" # Create synthetic data with a sum of gaussian functions x = numpy.arange(1000).astype(numpy.float) p = [1000, 100., 250, 255, 650., 45, 1500, 800.5, 95] linear_bg = 2.65 * x + 13 y = linear_bg + sum_gauss(x, *p) # Fitting fit = fitmanager.FitManager() fit.setdata(x=x, y=y) fit.loadtheories(fittheories) # Use one of the default fit functions fit.settheory('Gaussians') fit.setbackground('Linear') fit.estimate() fit.runfit() # fit.fit_results[] # first 2 parameters are related to the linear background self.assertEqual(fit.fit_results[0]["name"], "Constant") self.assertAlmostEqual(fit.fit_results[0]["fitresult"], 13) self.assertEqual(fit.fit_results[1]["name"], "Slope") self.assertAlmostEqual(fit.fit_results[1]["fitresult"], 2.65) for i, param in enumerate(fit.fit_results[2:]): param_number = i // 3 + 1 if i % 3 == 0: self.assertEqual(param["name"], "Height%d" % param_number) elif i % 3 == 1: self.assertEqual(param["name"], "Position%d" % param_number) elif i % 3 == 2: self.assertEqual(param["name"], "FWHM%d" % param_number) self.assertAlmostEqual(param["fitresult"], p[i]) self.assertAlmostEqual(_order_of_magnitude(param["estimation"]), _order_of_magnitude(p[i])) def testLoadCustomFitFunction(self): """Test FitManager using a custom fit function defined in an external file and imported with FitManager.loadtheories""" # Create synthetic data with a sum of gaussian functions x = numpy.arange(100).astype(numpy.float) # a, b, c are the fit parameters # d is a known scaling parameter that is set using configure() a, b, c, d = 1.5, 2.5, 3.5, 4.5 y = (a * x**2 + b * x + c) / d # Fitting fit = fitmanager.FitManager() fit.setdata(x=x, y=y) # Create a temporary function definition file, and import it with temp_dir() as tmpDir: tmpfile = os.path.join(tmpDir, 'customfun.py') # custom_function_definition fd = open(tmpfile, "w") fd.write(custom_function_definition) fd.close() fit.loadtheories(tmpfile) tmpfile_pyc = os.path.join(tmpDir, 'customfun.pyc') if os.path.exists(tmpfile_pyc): os.unlink(tmpfile_pyc) os.unlink(tmpfile) fit.settheory('my fit theory') # Test configure fit.configure(d=4.5) fit.estimate() fit.runfit() self.assertEqual(fit.fit_results[0]["name"], "A1") self.assertAlmostEqual(fit.fit_results[0]["fitresult"], 1.5) self.assertEqual(fit.fit_results[1]["name"], "B1") self.assertAlmostEqual(fit.fit_results[1]["fitresult"], 2.5) self.assertEqual(fit.fit_results[2]["name"], "C1") self.assertAlmostEqual(fit.fit_results[2]["fitresult"], 3.5) def testLoadOldCustomFitFunction(self): """Test FitManager using a custom fit function defined in an external file and imported with FitManager.loadtheories (legacy PyMca format)""" # Create synthetic data with a sum of gaussian functions x = numpy.arange(100).astype(numpy.float) # a, b, c are the fit parameters # d is a known scaling parameter that is set using configure() a, b, c, d = 1.5, 2.5, 3.5, 4.5 y = (a * x**2 + b * x + c) / d # Fitting fit = fitmanager.FitManager() fit.setdata(x=x, y=y) # Create a temporary function definition file, and import it with temp_dir() as tmpDir: tmpfile = os.path.join(tmpDir, 'oldcustomfun.py') # custom_function_definition fd = open(tmpfile, "w") fd.write(old_custom_function_definition) fd.close() fit.loadtheories(tmpfile) tmpfile_pyc = os.path.join(tmpDir, 'oldcustomfun.pyc') if os.path.exists(tmpfile_pyc): os.unlink(tmpfile_pyc) os.unlink(tmpfile) fit.settheory('my fit theory') fit.configure(d=4.5) fit.estimate() fit.runfit() self.assertEqual(fit.fit_results[0]["name"], "A1") self.assertAlmostEqual(fit.fit_results[0]["fitresult"], 1.5) self.assertEqual(fit.fit_results[1]["name"], "B1") self.assertAlmostEqual(fit.fit_results[1]["fitresult"], 2.5) self.assertEqual(fit.fit_results[2]["name"], "C1") self.assertAlmostEqual(fit.fit_results[2]["fitresult"], 3.5) def testAddTheory(self, estimate=True): """Test FitManager using a custom fit function imported with FitManager.addtheory""" # Create synthetic data with a sum of gaussian functions x = numpy.arange(100).astype(numpy.float) # a, b, c are the fit parameters # d is a known scaling parameter that is set using configure() a, b, c, d = -3.14, 1234.5, 10000, 4.5 y = (a * x**2 + b * x + c) / d # Fitting fit = fitmanager.FitManager() fit.setdata(x=x, y=y) # Define and add the fit theory CONFIG = {'d': 1.} def myfun(x_, a_, b_, c_): """"Model function""" return (a_ * x_**2 + b_ * x_ + c_) / CONFIG['d'] def myesti(x_, y_): """"Initial parameters for iterative fit: (a, b, c) = (1, 1, 1) Constraints all set to 0 (FREE)""" return (1., 1., 1.), ((0, 0, 0), (0, 0, 0), (0, 0, 0)) def myconfig(d_=1., **kw): """This function can modify CONFIG""" CONFIG["d"] = d_ return CONFIG def myderiv(x_, parameters, index): """Custom derivative""" pars_plus = numpy.array(parameters, copy=True) pars_plus[index] *= 1.001 pars_minus = numpy.array(parameters, copy=True) pars_minus[index] *= 0.999 delta_fun = myfun(x_, *pars_plus) - myfun(x_, *pars_minus) delta_par = parameters[index] * 0.001 * 2 return delta_fun / delta_par fit.addtheory("polynomial", FitTheory(function=myfun, parameters=["A", "B", "C"], estimate=myesti if estimate else None, configure=myconfig, derivative=myderiv)) fit.settheory('polynomial') fit.configure(d_=4.5) fit.estimate() params1, sigmas, infodict = fit.runfit() self.assertEqual(fit.fit_results[0]["name"], "A1") self.assertAlmostEqual(fit.fit_results[0]["fitresult"], -3.14) self.assertEqual(fit.fit_results[1]["name"], "B1") # params1[1] is the same as fit.fit_results[1]["fitresult"] self.assertAlmostEqual(params1[1], 1234.5) self.assertEqual(fit.fit_results[2]["name"], "C1") self.assertAlmostEqual(params1[2], 10000) # change configuration scaling factor and check that the fit returns # different values fit.configure(d_=5.) fit.estimate() params2, sigmas, infodict = fit.runfit() for p1, p2 in zip(params1, params2): self.assertFalse(numpy.array_equal(p1, p2), "Fit parameters are equal even though the " + "configuration has been changed") def testNoEstimate(self): """Ensure that the in the absence of the estimation function, the default estimation function :meth:`FitTheory.default_estimate` is used.""" self.testAddTheory(estimate=False) def testStep(self): """Test fit manager on a step function with a more complex estimate function than the gaussian (convolution filter)""" for theory_name, theory_fun in (('Step Down', sum_stepdown), ('Step Up', sum_stepup)): # Create synthetic data with a sum of gaussian functions x = numpy.arange(1000).astype(numpy.float) # ('Height', 'Position', 'FWHM') p = [1000, 439, 250] constantbg = 13 y = theory_fun(x, *p) + constantbg # Fitting fit = fitmanager.FitManager() fit.setdata(x=x, y=y) fit.loadtheories(fittheories) fit.settheory(theory_name) fit.setbackground('Constant') fit.estimate() params, sigmas, infodict = fit.runfit() # first parameter is the constant background self.assertAlmostEqual(params[0], 13, places=5) for i, param in enumerate(params[1:]): self.assertAlmostEqual(param, p[i], places=5) self.assertAlmostEqual(_order_of_magnitude(fit.fit_results[i+1]["estimation"]), _order_of_magnitude(p[i])) def quadratic(x, a, b, c): return a * x**2 + b * x + c def cubic(x, a, b, c, d): return a * x**3 + b * x**2 + c * x + d class TestPolynomials(unittest.TestCase): """Test polynomial fit theories and fit background""" def setUp(self): self.x = numpy.arange(100).astype(numpy.float) def testQuadraticBg(self): gaussian_params = [100, 45, 8] poly_params = [0.05, -2, 3] p = numpy.poly1d(poly_params) y = p(self.x) + sum_gauss(self.x, *gaussian_params) fm = fitmanager.FitManager(self.x, y) fm.loadbgtheories(bgtheories) fm.loadtheories(fittheories) fm.settheory("Gaussians") fm.setbackground("Degree 2 Polynomial") esti_params = fm.estimate() fit_params = fm.runfit()[0] for p, pfit in zip(poly_params + gaussian_params, fit_params): self.assertAlmostEqual(p, pfit) def testCubicBg(self): gaussian_params = [1000, 45, 8] poly_params = [0.0005, -0.05, 3, -4] p = numpy.poly1d(poly_params) y = p(self.x) + sum_gauss(self.x, *gaussian_params) fm = fitmanager.FitManager(self.x, y) fm.loadtheories(fittheories) fm.settheory("Gaussians") fm.setbackground("Degree 3 Polynomial") esti_params = fm.estimate() fit_params = fm.runfit()[0] for p, pfit in zip(poly_params + gaussian_params, fit_params): self.assertAlmostEqual(p, pfit) def testQuarticcBg(self): gaussian_params = [10000, 69, 25] poly_params = [5e-10, 0.0005, 0.005, 2, 4] p = numpy.poly1d(poly_params) y = p(self.x) + sum_gauss(self.x, *gaussian_params) fm = fitmanager.FitManager(self.x, y) fm.loadtheories(fittheories) fm.settheory("Gaussians") fm.setbackground("Degree 4 Polynomial") esti_params = fm.estimate() fit_params = fm.runfit()[0] for p, pfit in zip(poly_params + gaussian_params, fit_params): self.assertAlmostEqual(p, pfit, places=5) def _testPoly(self, poly_params, theory, places=5): p = numpy.poly1d(poly_params) y = p(self.x) fm = fitmanager.FitManager(self.x, y) fm.loadbgtheories(bgtheories) fm.loadtheories(fittheories) fm.settheory(theory) esti_params = fm.estimate() fit_params = fm.runfit()[0] for p, pfit in zip(poly_params, fit_params): self.assertAlmostEqual(p, pfit, places=places) def testQuadratic(self): self._testPoly([0.05, -2, 3], "Degree 2 Polynomial") def testCubic(self): self._testPoly([0.0005, -0.05, 3, -4], "Degree 3 Polynomial") def testQuartic(self): self._testPoly([1, -2, 3, -4, -5], "Degree 4 Polynomial") def testQuintic(self): self._testPoly([1, -2, 3, -4, -5, 6], "Degree 5 Polynomial", places=4) test_cases = (TestFitmanager, TestPolynomials) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/fit/test/__init__.py0000644023630100076410000000372313202530306020722 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "22/06/2016" import unittest from .test_fit import suite as test_curve_fit from .test_functions import suite as test_fitfuns from .test_filters import suite as test_fitfilters from .test_peaks import suite as test_peaks from .test_fitmanager import suite as test_fitmanager from .test_bgtheories import suite as test_bgtheories def suite(): test_suite = unittest.TestSuite() test_suite.addTest(test_curve_fit()) test_suite.addTest(test_fitfuns()) test_suite.addTest(test_fitfilters()) test_suite.addTest(test_peaks()) test_suite.addTest(test_fitmanager()) test_suite.addTest(test_bgtheories()) return test_suite silx-0.6.1/silx/math/fit/test/test_functions.py0000644023630100076410000002351413202530306022232 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Tests for functions module """ import unittest import numpy import math from silx.math.fit import functions __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "21/07/2016" class Test_functions(unittest.TestCase): """ Unit tests of multi-peak functions. """ def setUp(self): self.x = numpy.arange(11) # height, center, sigma1, sigma2 (h, c, s1, s2) = (7., 5., 3., 2.1) self.g_params = { "height": h, "center": c, #"sigma": s, "fwhm1": 2 * math.sqrt(2 * math.log(2)) * s1, "fwhm2": 2 * math.sqrt(2 * math.log(2)) * s2, "area1": h * s1 * math.sqrt(2 * math.pi) } # result of `7 * scipy.signal.gaussian(11, 3)` self.scipy_gaussian = numpy.array( [1.74546546, 2.87778603, 4.24571462, 5.60516182, 6.62171628, 7., 6.62171628, 5.60516182, 4.24571462, 2.87778603, 1.74546546] ) # result of: # numpy.concatenate((7 * scipy.signal.gaussian(11, 3)[0:5], # 7 * scipy.signal.gaussian(11, 2.1)[5:11])) self.scipy_asym_gaussian = numpy.array( [1.74546546, 2.87778603, 4.24571462, 5.60516182, 6.62171628, 7., 6.24968751, 4.44773692, 2.52313452, 1.14093853, 0.41124877] ) def tearDown(self): pass def testGauss(self): """Compare sum_gauss with scipy.signals.gaussian""" y = functions.sum_gauss(self.x, self.g_params["height"], self.g_params["center"], self.g_params["fwhm1"]) for i in range(11): self.assertAlmostEqual(y[i], self.scipy_gaussian[i]) def testAGauss(self): """Compare sum_agauss with scipy.signals.gaussian""" y = functions.sum_agauss(self.x, self.g_params["area1"], self.g_params["center"], self.g_params["fwhm1"]) for i in range(11): self.assertAlmostEqual(y[i], self.scipy_gaussian[i]) def testFastAGauss(self): """Compare sum_fastagauss with scipy.signals.gaussian Limit precision to 3 decimal places.""" y = functions.sum_fastagauss(self.x, self.g_params["area1"], self.g_params["center"], self.g_params["fwhm1"]) for i in range(11): self.assertAlmostEqual(y[i], self.scipy_gaussian[i], 3) def testSplitGauss(self): """Compare sum_splitgauss with scipy.signals.gaussian""" y = functions.sum_splitgauss(self.x, self.g_params["height"], self.g_params["center"], self.g_params["fwhm1"], self.g_params["fwhm2"]) for i in range(11): self.assertAlmostEqual(y[i], self.scipy_asym_gaussian[i]) def testErf(self): """Compare erf with math.erf""" # scalars self.assertAlmostEqual(functions.erf(0.14), math.erf(0.14), places=5) self.assertAlmostEqual(functions.erf(0), math.erf(0), places=5) self.assertAlmostEqual(functions.erf(-0.74), math.erf(-0.74), places=5) # lists x = [-5, -2, -1.5, -0.6, 0, 0.1, 2, 3] erfx = functions.erf(x) for i in range(len(x)): self.assertAlmostEqual(erfx[i], math.erf(x[i]), places=5) # ndarray x = numpy.array([[0.1, 0.2, 0.3], [0.4, 0.5, 0.6]]) erfx = functions.erf(x) for i in range(x.shape[0]): for j in range(x.shape[1]): self.assertAlmostEqual(erfx[i, j], math.erf(x[i, j]), places=5) def testErfc(self): """Compare erf with math.erf""" # scalars self.assertAlmostEqual(functions.erfc(0.14), math.erfc(0.14), places=5) self.assertAlmostEqual(functions.erfc(0), math.erfc(0), places=5) self.assertAlmostEqual(functions.erfc(-0.74), math.erfc(-0.74), places=5) # lists x = [-5, -2, -1.5, -0.6, 0, 0.1, 2, 3] erfcx = functions.erfc(x) for i in range(len(x)): self.assertAlmostEqual(erfcx[i], math.erfc(x[i]), places=5) # ndarray x = numpy.array([[0.1, 0.2, 0.3], [0.4, 0.5, 0.6]]) erfcx = functions.erfc(x) for i in range(x.shape[0]): for j in range(x.shape[1]): self.assertAlmostEqual(erfcx[i, j], math.erfc(x[i, j]), places=5) def testAtanStepUp(self): """Compare atan_stepup with math.atan atan_stepup(x, a, b, c) = a * (0.5 + (arctan((x - b) / c) / pi))""" x0 = numpy.arange(100) / 6.33 y0 = functions.atan_stepup(x0, 11.1, 22.2, 3.33) for x, y in zip(x0, y0): self.assertAlmostEqual( 11.1 * (0.5 + math.atan((x - 22.2) / 3.33) / math.pi), y ) def testStepUp(self): """sanity check for step up: - derivative must be largest around the step center - max value must be close to height parameter """ x0 = numpy.arange(1000) center = 444 height = 1234 fwhm = 210 y0 = functions.sum_stepup(x0, height, center, fwhm) self.assertLess(max(y0), height) self.assertAlmostEqual(max(y0), height, places=1) self.assertAlmostEqual(min(y0), 0, places=1) deriv0 = _numerical_derivative(functions.sum_stepup, x0, [height, center, fwhm]) # Test center position within +- 1 sample of max derivative index_max_deriv = numpy.argmax(deriv0) self.assertLess(abs(index_max_deriv - center), 1) def testStepDown(self): """sanity check for step down: - absolute value of derivative must be largest around the step center - max value must be close to height parameter """ x0 = numpy.arange(1000) center = 444 height = 1234 fwhm = 210 y0 = functions.sum_stepdown(x0, height, center, fwhm) self.assertLess(max(y0), height) self.assertAlmostEqual(max(y0), height, places=1) self.assertAlmostEqual(min(y0), 0, places=1) deriv0 = _numerical_derivative(functions.sum_stepdown, x0, [height, center, fwhm]) # Test center position within +- 1 sample of max derivative index_min_deriv = numpy.argmax(-deriv0) self.assertLess(abs(index_min_deriv - center), 1) def testSlit(self): """sanity check for slit: - absolute value of derivative must be largest around the step center - max value must be close to height parameter """ x0 = numpy.arange(1000) center = 444 height = 1234 fwhm = 210 beamfwhm = 30 y0 = functions.sum_slit(x0, height, center, fwhm, beamfwhm) self.assertAlmostEqual(max(y0), height, places=1) self.assertAlmostEqual(min(y0), 0, places=1) deriv0 = _numerical_derivative(functions.sum_slit, x0, [height, center, fwhm, beamfwhm]) # Test step up center position (center - fwhm/2) within +- 1 sample of max derivative index_max_deriv = numpy.argmax(deriv0) self.assertLess(abs(index_max_deriv - (center - fwhm/2)), 1) # Test step down center position (center + fwhm/2) within +- 1 sample of min derivative index_min_deriv = numpy.argmin(deriv0) self.assertLess(abs(index_min_deriv - (center + fwhm/2)), 1) def _numerical_derivative(f, x, params=[], delta_factor=0.0001): """Compute the numerical derivative of ``f`` for all values of ``x``. :param f: function :param x: Array of evenly spaced abscissa values :param params: list of additional parameters :return: Array of derivative values """ deltax = (x[1] - x[0]) * delta_factor y_plus = f(x + deltax, *params) y_minus = f(x - deltax, *params) return (y_plus - y_minus) / (2 * deltax) test_cases = (Test_functions,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/fit/functions/0000755023630100076410000000000013202537043017642 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/functions/include/0000755023630100076410000000000013202537043021265 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/functions/include/functions.h0000644023630100076410000000663413202530306023452 0ustar knobelusers00000000000000/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ #ifndef FITFUNCTIONS_H #define FITFUNCTIONS_H /* Helper functions */ int test_params(int len_params, int len_params_one_function, char* fun_name, char* param_names); double myerfc(double x); double myerf(double x); int erfc_array(double* x, int len_x, double* y); int erf_array(double* x, int len_x, double* y); /* Background functions */ void snip1d(double *data, int size, int width); //void snip1d_multiple(double *data, int n_channels, int snip_width, int n_spectra); void snip2d(double *data, int nrows, int ncolumns, int width); void snip3d(double *data, int nx, int ny, int nz, int width); int strip(double* input, long len_input, double c, long niter, int deltai, long* anchors, long len_anchors, double* output); /* Smoothing functions */ int SavitskyGolay(double* input, long len_input, int npoints, double* output); /* Fit functions */ int sum_gauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y); int sum_agauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y); int sum_fastagauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y); int sum_splitgauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y); int sum_apvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y); int sum_pvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y); int sum_splitpvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y); int sum_lorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y); int sum_alorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y); int sum_splitlorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y); int sum_stepdown(double* x, int len_x, double* pdstep, int len_pdstep, double* y); int sum_stepup(double* x, int len_x, double* pustep, int len_pustep, double* y); int sum_slit(double* x, int len_x, double* pslit, int len_pslit, double* y); int sum_ahypermet(double* x, int len_x, double* phypermet, int len_phypermet, double* y, int tail_flags); int sum_fastahypermet(double* x, int len_x, double* phypermet, int len_phypermet, double* y, int tail_flags); #endif /* #define FITFUNCTIONS_H */ silx-0.6.1/silx/math/fit/functions/src/0000755023630100076410000000000013202537043020431 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/functions/src/funs.c0000644023630100076410000011666513202530306021562 0ustar knobelusers00000000000000#/*########################################################################## # Copyright (c) 2004-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ /* This file provides fit functions. It is adapted from PyMca source file "SpecFitFuns.c". The main difference with the original code is that this code does not handle the python wrapping, which is done elsewhere using cython. Authors: V.A. Sole, P. Knobel License: MIT Last modified: 17/06/2016 */ #include #include #include #include "functions.h" #ifndef M_PI #define M_PI 3.1415926535 #endif #define MIN(x, y) (((x) < (y)) ? (x) : (y)) #define MAX(x, y) (((x) > (y)) ? (x) : (y)) #if defined(_WIN32) #define erf myerf #define erfc myerfc #endif #define LOG2 0.69314718055994529 int test_params(int len_params, int len_params_one_function, char* fun_name, char* param_names) { if (len_params % len_params_one_function) { printf("[%s]Error: Number of parameters must be a multiple of %d.", fun_name, len_params_one_function); printf("\nParameters expected for %s: %s\n", fun_name, param_names); return(1); } if (len_params == 0) { printf("[%s]Error: No parameters specified.", fun_name); printf("\nParameters expected for %s: %s\n", fun_name, param_names); return(1); } return(0); } /* Complementary error function for a single value*/ double myerfc(double x) { double z; double t; double r; z=fabs(x); t=1.0/(1.0+0.5*z); r=t * exp(-z * z - 1.26551223 + t * (1.00002368 + t * (0.3740916 + t * (0.09678418 + t * (-0.18628806 + t * (0.27886807 + t * (-1.13520398 + t * (1.48851587 + t * (-0.82215223+t*0.17087277))))))))); if (x<0) r=2.0-r; return (r); } /* Gauss error function for a single value*/ double myerf(double x) { return (1.0 - myerfc(x)); } /* Gauss error function for an array y[i]=erf(x[i]) returns status code 0 */ int erf_array(double* x, int len_x, double* y) { int j; for (j=0; j centroid) Parameters: ----------- - x: Independant variable where the gaussians are calculated. - len_x: Number of elements in the x array. - pgauss: Array of gaussian parameters: (height1, centroid1, fwhm11, fwhm21, height2, centroid2, fwhm12, fwhm22,...) - len_pgauss: Number of elements in the pgauss array. Must be a multiple of 4. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). Adapted from PyMca module SpecFitFuns */ int sum_splitgauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y) { int i, j; double dhelp, inv_two_sqrt_two_log2, sigma1, sigma2; double fwhm1, fwhm2, centroid, height; if (test_params(len_pgauss, 4, "sum_splitgauss", "height, centroid, fwhm1, fwhm2")) { return(1); } /* Initialize output array */ for (j=0; j 0) { /* Use fwhm2 when x > centroid */ dhelp = dhelp / sigma2; } else { /* Use fwhm1 when x < centroid */ dhelp = dhelp / sigma1; } if (dhelp <= 20) { y[j] += height * exp (-0.5 * dhelp * dhelp); } } } return(0); } /* sum_apvoigt Sum of pseudo-Voigt functions, defined by (area, centroid, fwhm, eta). The pseudo-Voigt profile PV(x) is an approximation of the Voigt profile using a linear combination of a Gaussian curve G(x) and a Lorentzian curve L(x) instead of their convolution. *area* is the area underneath both G(x) and L(x) *centroid* is the peak x-coordinate for both functions *fwhm* is the full-width at half maximum of both functions *eta* is the Lorentz factor: PV(x) = eta * L(x) + (1 - eta) * G(x) Parameters: ----------- - x: Independant variable where the gaussians are calculated. - len_x: Number of elements in the x array. - pvoigt: Array of Voigt function parameters: (area1, centroid1, fwhm1, eta1, area2, centroid2, fwhm2, eta2,...) - len_voigt: Number of elements in the pvoigt array. Must be a multiple of 4. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). Adapted from PyMca module SpecFitFuns */ int sum_apvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y) { int i, j; double dhelp, inv_two_sqrt_two_log2, sqrt2PI, sigma, height; double area, centroid, fwhm, eta; if (test_params(len_pvoigt, 4, "sum_apvoigt", "area, centroid, fwhm, eta")) { return(1); } /* Initialize output array */ for (j=0; j centroid *eta* is the Lorentz factor: PV(x) = eta * L(x) + (1 - eta) * G(x) Parameters: ----------- - x: Independant variable where the gaussians are calculated. - len_x: Number of elements in the x array. - pvoigt: Array of Voigt function parameters: (height1, centroid1, fwhm11, fwhm21, eta1, ...) - len_voigt: Number of elements in the pvoigt array. Must be a multiple of 5. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). Adapted from PyMca module SpecFitFuns */ int sum_splitpvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y) { int i, j; double dhelp, inv_two_sqrt_two_log2, x_minus_centroid, sigma1, sigma2; double height, centroid, fwhm1, fwhm2, eta; if (test_params(len_pvoigt, 5, "sum_splitpvoigt", "height, centroid, fwhm1, fwhm2, eta")) { return(1); } /* Initialize output array */ for (j=0; j centroid */ if (x_minus_centroid > 0) { /* Lorentzian term */ dhelp = x_minus_centroid / (0.5 * fwhm2); dhelp = 1.0 + (dhelp * dhelp); y[j] += eta * height / dhelp; /* Gaussian term */ dhelp = x_minus_centroid / sigma2; if (dhelp <= 35) { y[j] += (1.0 - eta) * height * exp (-0.5 * dhelp * dhelp); } } /* Use fwhm1 when x < centroid */ else { /* Lorentzian term */ dhelp = x_minus_centroid / (0.5 * fwhm1); dhelp = 1.0 + (dhelp * dhelp); y[j] += eta * height / dhelp; /* Gaussian term */ dhelp = x_minus_centroid / sigma1; if (dhelp <= 35) { y[j] += (1.0 - eta) * height * exp (-0.5 * dhelp * dhelp); } } } } return(0); } /* sum_lorentz Sum of Lorentz functions, defined by (height, centroid, fwhm). *height* is the peak amplitude *centroid* is the peak's x-coordinate *fwhm* is the full-width at half maximum Parameters: ----------- - x: Independant variable where the Lorentzians are calculated. - len_x: Number of elements in the x array. - plorentz: Array of lorentz function parameters: (height1, centroid1, fwhm1, ...) - len_lorentz: Number of elements in the plorentz array. Must be a multiple of 3. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). Adapted from PyMca module SpecFitFuns */ int sum_lorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y) { int i, j; double dhelp; double height, centroid, fwhm; if (test_params(len_plorentz, 3, "sum_lorentz", "height, centroid, fwhm")) { return(1); } /* Initialize output array */ for (j=0; j centroid Parameters: ----------- - x: Independant variable where the Lorentzians are calculated. - len_x: Number of elements in the x array. - plorentz: Array of lorentz function parameters: (height1, centroid1, fwhm11, fwhm21 ...) - len_lorentz: Number of elements in the plorentz array. Must be a multiple of 4. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). Adapted from PyMca module SpecFitFuns */ int sum_splitlorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y) { int i, j; double dhelp; double height, centroid, fwhm1, fwhm2; if (test_params(len_plorentz, 4, "sum_splitlorentz", "height, centroid, fwhm1, fwhm2")) { return(1); } /* Initialize output array */ for (j=0; j0) { dhelp = dhelp / (0.5 * fwhm2); } else { dhelp = dhelp / (0.5 * fwhm1); } dhelp = 1.0 + (dhelp * dhelp); y[j] += height / dhelp; } } return(0); } /* sum_stepdown Sum of stepdown functions, defined by (height, centroid, fwhm). *height* is the step amplitude *centroid* is the step's x-coordinate *fwhm* is the full-width at half maximum of the derivative Parameters: ----------- - x: Independant variable where the stepdown functions are calculated. - len_x: Number of elements in the x array. - pdstep: Array of downstpe function parameters: (height1, centroid1, fwhm1, ...) - len_pdstep: Number of elements in the pdstep array. Must be a multiple of 3. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). Adapted from PyMca module SpecFitFuns */ int sum_stepdown(double* x, int len_x, double* pdstep, int len_pdstep, double* y) { int i, j; double dhelp, sqrt2_inv_2_sqrt_two_log2 ; double height, centroid, fwhm; if (test_params(len_pdstep, 3, "sum_stepdown", "height, centroid, fwhm")) { return(1); } /* Initialize output array */ for (j=0; j>1) & 1; lt_term_flag = (tail_flags>>2) & 1; step_term_flag = (tail_flags>>3) & 1; /* Initialize output array */ for (j=0; j epsilon) { c1 = st_area_r * 0.5 * \ erfc((x_minus_position/sigma_sqrt2) + 0.5 * sigma_sqrt2 / st_slope_r); y[j] += ((area * c1) / st_slope_r) * \ exp(0.5 * (sigma / st_slope_r) * (sigma / st_slope_r) + \ (x_minus_position / st_slope_r)); } } /* lt term */ if (lt_term_flag) { if (fabs(lt_slope_r) > epsilon) { c1 = lt_area_r * \ 0.5 * erfc((x_minus_position/sigma_sqrt2) + 0.5 * sigma_sqrt2 / lt_slope_r); y[j] += ((area * c1) / lt_slope_r) * \ exp(0.5 * (sigma / lt_slope_r) * (sigma / lt_slope_r) + \ (x_minus_position / lt_slope_r)); } } /* step term flag */ if (step_term_flag) { y[j] += step_height_r * (area / (sigma * sqrt2PI)) * \ 0.5 * erfc(x_minus_position / sigma_sqrt2); } } } return(0); } /* sum_fastahypermet Sum of hypermet functions, defined by (area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r). - *area* is the area underneath the gaussian peak - *position* is the center of the various peaks and the position of the step down - *fwhm* is the full-width at half maximum of the terms - *st_area_r* is factor between the gaussian area and the area of the short tail term - *st_slope_r* is a parameter related to the slope of the short tail in the low ``x`` values (the lower, the steeper) - *lt_area_r* is factor between the gaussian area and the area of the long tail term - *lt_slope_r* is a parameter related to the slope of the long tail in the low ``x`` values (the lower, the steeper) - *step_height_r* is the factor between the height of the step down and the gaussian height Parameters: ----------- - x: Independant variable where the functions are calculated. - len_x: Number of elements in the x array. - phypermet: Array of hypermet function parameters: *(area1, position1, fwhm1, st_area_r1, st_slope_r1, lt_area_r1, lt_slope_r1, step_height_r1, ...)* - len_phypermet: Number of elements in the phypermet array. Must be a multiple of 8. - y: Output array. Must have memory allocated for the same number of elements as x (len_x). - tail_flags: sum of binary flags to activate the various terms of the function: - 1 (b0001): Gaussian term - 2 (b0010): st term - 4 (b0100): lt term - 8 (b1000): step term E.g., to activate all termsof the hypermet, use ``tail_flags = 1 + 2 + 4 + 8 = 15`` Adapted from PyMca module SpecFitFuns */ int sum_fastahypermet(double* x, int len_x, double* phypermet, int len_phypermet, double* y, int tail_flags) { int i, j; int g_term_flag, st_term_flag, lt_term_flag, step_term_flag; double c1, c2, sigma, height, sigma_sqrt2, sqrt2PI, inv_2_sqrt_2_log2, x_minus_position, epsilon; double area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r; if (test_params(len_phypermet, 8, "sum_hypermet", "height, centroid, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r")) { return(1); } g_term_flag = tail_flags & 1; st_term_flag = (tail_flags>>1) & 1; lt_term_flag = (tail_flags>>2) & 1; step_term_flag = (tail_flags>>3) & 1; /* Initialize output array */ for (j=0; j epsilon) && (x_minus_position / st_slope_r) <= 612) { c1 = st_area_r * 0.5 * \ erfc((x_minus_position/sigma_sqrt2) + 0.5 * sigma_sqrt2 / st_slope_r); y[j] += ((area * c1) / st_slope_r) * \ fastexp(0.5 * (sigma / st_slope_r) * (sigma / st_slope_r) +\ (x_minus_position / st_slope_r)); } /* lt term */ if (lt_term_flag && (fabs(lt_slope_r) > epsilon) && (x_minus_position / lt_slope_r) <= 612) { c1 = lt_area_r * \ 0.5 * erfc((x_minus_position/sigma_sqrt2) + 0.5 * sigma_sqrt2 / lt_slope_r); y[j] += ((area * c1) / lt_slope_r) * \ fastexp(0.5 * (sigma / lt_slope_r) * (sigma / lt_slope_r) +\ (x_minus_position / lt_slope_r)); } /* step term flag */ if (step_term_flag) { y[j] += step_height_r * (area / (sigma * sqrt2PI)) *\ 0.5 * erfc(x_minus_position / sigma_sqrt2); } } } return(0); } void pileup(double* x, long len_x, double* ret, int input2, double zero, double gain) { //int input2=0; //double zero=0.0; //double gain=1.0; int i, j, k; double *px, *pret, *pall; /* the pointer to the starting position of par data */ px = x; pret = ret; *pret = 0; k = (int )(zero/gain); for (i=input2; i= 0) { pret = (double *) ret+(i+k); for (j=0; j #include #include #include "peaks.h" #define MIN(x, y) (((x) < (y)) ? (x) : (y)) #define MAX(x, y) (((x) > (y)) ? (x) : (y)) /* Peak search function, adapted from PyMca SpecFitFuns This uses a convolution with the second-derivative of a gaussian curve, to smooth the data. Arguments: - begin_index: First index of the region of interest in the input data array - end_index: Last index of the region of interest in the input data array - nsamples: Number of samples in the input array - fwhm: Full width at half maximum for the gaussian used for smoothing. - sensitivity: - debug_info: If different from 0, print debugging messages - data: input array of 1D data - peaks: pointer to output array of peak indices - relevances: pointer to output array of peak relevances */ long seek(long begin_index, long end_index, long nsamples, double fwhm, double sensitivity, double debug_info, double *data, double **peaks, double **relevances) { /* local variables */ double *peaks0, *relevances0; double *realloc_peaks, *realloc_relevances; double sigma, sigma2, sigma4; long max_gfactor = 100; double gfactor[100]; long nr_factor; double lowthreshold; double data2[2]; double nom; double den2; long channel1; long lld; long cch; long cfac, cfac2, max_cfac; long ihelp1, ihelp2; long i; long max_npeaks = 100; long n_peaks = 0; double peakstarted = 0; peaks0 = malloc(100 * sizeof(double)); relevances0 = malloc(100 * sizeof(double)); if (peaks0 == NULL || relevances0 == NULL) { printf("Error: failed to allocate memory for peaks array."); return(-123456); } /* Make sure the peaks matrix is filled with zeros */ for (i=0;i<100;i++){ peaks0[i] = 0.0; relevances0[i] = 0.0; } /* Output pointers */ *peaks = peaks0; *relevances = relevances0; /* prepare the calculation of the Gaussian scaling factors */ sigma = fwhm / 2.35482; sigma2 = sigma * sigma; sigma4 = sigma2 * sigma2; lowthreshold = 0.01 / sigma2; /* calculate the factors until lower threshold reached */ nr_factor = 0; max_cfac = MIN(max_gfactor, ((end_index - begin_index - 2) / 2) - 1); for (cfac=0; cfac < max_cfac; cfac++) { nr_factor++; cfac2 = (cfac+1) * (cfac+1); gfactor[cfac] = (sigma2 - cfac2) * exp(-cfac2/(sigma2*2.0)) / sigma4; if ((gfactor[cfac] < lowthreshold) && (gfactor[cfac] > (-lowthreshold))){ break; } } /* What comes now is specific to MCA spectra ... */ lld = 0; while (data[lld] == 0) { lld++; } lld = lld + (int) (0.5 * fwhm); channel1 = begin_index - nr_factor - 1; channel1 = MAX (channel1, lld); if(debug_info){ printf("nrfactor = %ld\n", nr_factor); } /* calculates smoothed value and variance at begincalc */ cch = MAX(begin_index, 0); nom = data[cch] / sigma2; den2 = data[cch] / sigma4; for (cfac = 0; cfac < nr_factor; cfac++){ ihelp1 = cch-cfac; if (ihelp1 < 0){ ihelp1 = 0; } ihelp2 = cch+cfac; if (ihelp2 >= nsamples){ ihelp2 = nsamples-1; } nom += gfactor[cfac] * (data[ihelp2] + data[ihelp1]); den2 += gfactor[cfac] * gfactor[cfac] * (data[ihelp2] + data[ihelp1]); } /* now normalize the smoothed value to the standard deviation */ if (den2 <= 0.0) { data2[1] = 0.0; }else{ data2[1] = nom / sqrt(den2); } data[0] = data[1]; while (cch <= MIN(end_index,nsamples-2)){ /* calculate gaussian smoothed values */ data2[0] = data2[1]; cch++; nom = data[cch]/sigma2; den2 = data[cch] / sigma4; for (cfac = 1; cfac < nr_factor; cfac++){ ihelp1 = cch-cfac; if (ihelp1 < 0){ ihelp1 = 0; } ihelp2 = cch+cfac; if (ihelp2 >= nsamples){ ihelp2 = nsamples-1; } nom += gfactor[cfac-1] * (data[ihelp2] + data[ihelp1]); den2 += gfactor[cfac-1] * gfactor[cfac-1] * (data[ihelp2] + data[ihelp1]); } /* now normalize the smoothed value to the standard deviation */ if (den2 <= 0) { data2[1] = 0; }else{ data2[1] = nom / sqrt(den2); } /* look if the current point falls in a peak */ if (data2[1] > sensitivity) { if(peakstarted == 0){ if (data2[1] > data2[0]){ /* this second test is to prevent a peak from outside the region from being detected at the beginning of the search */ peakstarted=1; } } /* there is a peak */ if (debug_info){ printf("At cch = %ld y[cch] = %g\n", cch, data[cch]); printf("data2[0] = %g\n", data2[0]); printf("data2[1] = %g\n", data2[1]); printf("sensitivity = %g\n", sensitivity); } if(peakstarted == 1){ /* look for the top of the peak */ if (data2[1] < data2[0]) { /* we are close to the top of the peak */ if (debug_info){ printf("we are close to the top of the peak\n"); } if (n_peaks == max_npeaks) { max_npeaks = max_npeaks + 100; realloc_peaks = realloc(peaks0, max_npeaks * sizeof(double)); realloc_relevances = realloc(relevances0, max_npeaks * sizeof(double)); if (realloc_peaks == NULL || realloc_relevances == NULL) { printf("Error: failed to extend memory for peaks array."); *peaks = peaks0; *relevances = relevances0; return(-n_peaks); } else { peaks0 = realloc_peaks; relevances0 = realloc_relevances; } } peaks0[n_peaks] = cch-1; relevances0[n_peaks] = data2[0]; n_peaks++; peakstarted=2; } } /* Doublet case */ if(peakstarted == 2){ if ((cch-peaks0[n_peaks-1]) > 0.6 * fwhm) { if (data2[1] > data2[0]){ if(debug_info){ printf("We may have a doublet\n"); } peakstarted=1; } } } }else{ if (peakstarted==1){ /* We were on a peak but we did not find the top */ if(debug_info){ printf("We were on a peak but we did not find the top\n"); } } peakstarted=0; } } if(debug_info){ for (i=0;i< n_peaks;i++){ printf("Peak %ld found at ",i+1); printf("index %g with y = %g\n", peaks0[i],data[(long ) peaks0[i]]); } } *peaks = peaks0; *relevances = relevances0; return (n_peaks); } silx-0.6.1/silx/math/fit/peaks.c0000644023630100076410000263421513202530432017111 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [ "silx/math/fit/peaks/include/peaks.h" ], "include_dirs": [ "silx/math/fit/peaks/include", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c" }, "module_name": "silx.math.fit.peaks" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #elif !defined(CYTHON_USE_PYLONG_INTERNALS) #define CYTHON_USE_PYLONG_INTERNALS 1 #endif #ifndef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 1 #endif #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #if PY_VERSION_HEX < 0x030300F0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #elif !defined(CYTHON_USE_UNICODE_WRITER) #define CYTHON_USE_UNICODE_WRITER 1 #endif #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #ifndef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 1 #endif #ifndef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 1 #endif #endif #if !defined(CYTHON_FAST_PYCCALL) #define CYTHON_FAST_PYCCALL (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1) #endif #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #undef SHIFT #undef BASE #undef MASK #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 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__Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? 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default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; 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/* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* PyObjectCall.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_SubtractObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_SubtractObjC(op1, op2, intval, inplace)\ (inplace ? 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(PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) :\ __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, int wraparound, int boundscheck); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? 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/*proto*/ /* GetAttr.proto */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); 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static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_double(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_double(const char *itemp, PyObject *obj); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'libc.string' */ /* Module declarations from 'libc.stdlib' */ /* Module declarations from 'silx.math.fit.peaks_wrapper' */ /* Module declarations from 'silx.math.fit.peaks' */ static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; #define __Pyx_MODULE_NAME "silx.math.fit.peaks" int __pyx_module_is_main_silx__math__fit__peaks = 0; /* Implementation of 'silx.math.fit.peaks' */ static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_zip; static PyObject *__pyx_builtin_max; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_C[] = "C"; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_i[] = "i"; static const char __pyx_k_w[] = "w"; static const char __pyx_k_y[] = "y"; static const char __pyx_k__2[] = ""; static const char __pyx_k_id[] = "id"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_idx[] = "idx"; static const char __pyx_k_max[] = "max"; static const char __pyx_k_msg[] = "msg"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_y_c[] = "y_c"; static const char __pyx_k_zip[] = "zip"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_copy[] = "copy"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_fwhm[] = "fwhm"; static const char __pyx_k_imax[] = "imax"; static const char __pyx_k_imin[] = "imin"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_yfit[] = "yfit"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_debug[] = "debug"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_empty[] = "empty"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_order[] = "order"; static const char __pyx_k_peaks[] = "peaks"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_strip[] = "strip"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_height[] = "height"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_logger[] = "_logger"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_filters[] = "filters"; static const char __pyx_k_float64[] = "float64"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_logging[] = "logging"; static const char __pyx_k_maximum[] = "maximum"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_n_peaks[] = "n_peaks"; static const char __pyx_k_nonzero[] = "nonzero"; static const char __pyx_k_peaks_c[] = "peaks_c"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_P_Knobel[] = "P. Knobel"; static const char __pyx_k_fwhm_min[] = "fwhm_min"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_posindex[] = "posindex"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_end_index[] = "end_index"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_getLogger[] = "getLogger"; static const char __pyx_k_15_05_2017[] = "15/05/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_background[] = "background"; static const char __pyx_k_guess_fwhm[] = "guess_fwhm"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_relevances[] = "relevances"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_begin_index[] = "begin_index"; static const char __pyx_k_niterations[] = "niterations"; static const char __pyx_k_peak_search[] = "peak_search"; static const char __pyx_k_relevance_f[] = "relevance %f\n"; static const char __pyx_k_sensitivity[] = "sensitivity"; static const char __pyx_k_peak_index_f[] = "peak index %f, "; static const char __pyx_k_relevances_c[] = "relevances_c"; static const char __pyx_k_output_arrays[] = "output arrays"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_silx_math_fit[] = "silx.math.fit"; static const char __pyx_k_relevance_info[] = "relevance_info"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_we_found_d_peaks[] = "we found %d peaks.\n"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_silx_math_fit_peaks[] = "silx.math.fit.peaks"; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_Failed_to_reallocate_memory_for[] = "Failed to reallocate memory for output arrays"; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/math/fit/peaks.pyx"; static const char __pyx_k_Before_memory_allocation_error_h[] = "Before memory allocation error happened, "; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Failed_to_allocate_initial_memor[] = "Failed to allocate initial memory for "; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_This_module_provides_a_peak_sear[] = "This module provides a peak search function and tools related to peak\nanalysis.\n"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static PyObject *__pyx_kp_s_15_05_2017; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Before_memory_allocation_error_h; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_n_s_C; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_kp_s_Failed_to_allocate_initial_memor; static PyObject *__pyx_kp_s_Failed_to_reallocate_memory_for; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_P_Knobel; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_kp_s__2; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_background; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_begin_index; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_class; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_copy; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_debug; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_empty; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_end_index; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_filters; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float64; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_n_s_fwhm; static PyObject *__pyx_n_s_fwhm_min; static PyObject *__pyx_n_s_getLogger; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_guess_fwhm; static PyObject *__pyx_n_s_height; static PyObject *__pyx_n_s_i; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_idx; static PyObject *__pyx_n_s_imax; static PyObject *__pyx_n_s_imin; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_logger; static PyObject *__pyx_n_s_logging; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_max; static PyObject *__pyx_n_s_maximum; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_msg; static PyObject *__pyx_n_s_n_peaks; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_niterations; static PyObject *__pyx_n_s_nonzero; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_order; static PyObject *__pyx_kp_s_output_arrays; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_kp_s_peak_index_f; static PyObject *__pyx_n_s_peak_search; static PyObject *__pyx_n_s_peaks; static PyObject *__pyx_n_s_peaks_c; static PyObject *__pyx_n_s_posindex; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_kp_s_relevance_f; static PyObject *__pyx_n_s_relevance_info; static PyObject *__pyx_n_s_relevances; static PyObject *__pyx_n_s_relevances_c; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_sensitivity; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_silx_math_fit; static PyObject *__pyx_n_s_silx_math_fit_peaks; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_strip; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_test; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_n_s_unpack; static PyObject *__pyx_kp_s_users_kieffer_workspace_400_rel; static PyObject *__pyx_n_s_w; static PyObject *__pyx_kp_s_we_found_d_peaks; static PyObject *__pyx_n_s_y; static PyObject *__pyx_n_s_y_c; static PyObject *__pyx_n_s_yfit; static PyObject *__pyx_n_s_zip; static PyObject *__pyx_pf_4silx_4math_3fit_5peaks_peak_search(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_y, PyObject *__pyx_v_fwhm, PyObject *__pyx_v_sensitivity, PyObject *__pyx_v_begin_index, PyObject *__pyx_v_end_index, PyObject *__pyx_v_debug, PyObject *__pyx_v_relevance_info); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_5peaks_2guess_fwhm(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_y); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array___cinit__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_shape, Py_ssize_t __pyx_v_itemsize, PyObject *__pyx_v_format, PyObject *__pyx_v_mode, int __pyx_v_allocate_buffer); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_2__getbuffer__(struct __pyx_array_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_array___pyx_pf_15View_dot_MemoryView_5array_4__dealloc__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_5array_7memview___get__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_6__getattr__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_attr); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_8__getitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item); 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/* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ static Py_ssize_t abs_py_ssize_t(Py_ssize_t __pyx_v_arg) { Py_ssize_t __pyx_r; int __pyx_t_1; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1094 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ } /* "View.MemoryView":1096 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ /*else*/ { __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1104 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1105 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1107 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, Py_ssize_t __pyx_v_stride, int __pyx_v_ndim, char __pyx_v_order) { int __pyx_v_idx; Py_ssize_t __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ __pyx_t_1 = ((__pyx_v_order == 'F') != 0); if (__pyx_t_1) { /* "View.MemoryView":1181 * * if order == 'F': * for idx in range(ndim): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_idx = 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_slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef 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Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ goto __pyx_L3; } /* "View.MemoryView":1403 * data += stride * else: * for i in range(extent): # <<<<<<<<<<<<<< * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) */ /*else*/ { __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1404 * else: * for i in range(extent): * _slice_assign_scalar(data, shape + 1, strides + 1, # <<<<<<<<<<<<<< * ndim - 1, itemsize, item) * data += stride */ __pyx_memoryview__slice_assign_scalar(__pyx_v_data, (__pyx_v_shape + 1), (__pyx_v_strides + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1406 * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) * data += stride # <<<<<<<<<<<<<< * * */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } } __pyx_L3:; /* 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__pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.peaks.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.peaks.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4base_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_5shape_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_strides(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_7strides_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_suboffsets(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_10suboffsets_1__get__(o); } static PyObject 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/*tp_as_async*/ #endif __pyx_memoryview___repr__, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_memoryview, /*tp_as_sequence*/ &__pyx_tp_as_mapping_memoryview, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ __pyx_memoryview___str__, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_memoryview, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_memoryview, /*tp_traverse*/ __pyx_tp_clear_memoryview, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_memoryview, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_memoryview, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_memoryview, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct__memoryviewslice __pyx_vtable__memoryviewslice; static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryviewslice_obj *p; PyObject *o = __pyx_tp_new_memoryview(t, a, k); if (unlikely(!o)) return 0; p = ((struct __pyx_memoryviewslice_obj *)o); p->__pyx_base.__pyx_vtab = (struct __pyx_vtabstruct_memoryview*)__pyx_vtabptr__memoryviewslice; p->from_object = Py_None; Py_INCREF(Py_None); p->from_slice.memview = NULL; return o; } static void __pyx_tp_dealloc__memoryviewslice(PyObject *o) { struct __pyx_memoryviewslice_obj *p = (struct __pyx_memoryviewslice_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, 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"" : "s", num_found); } /* RaiseDoubleKeywords */ static void __Pyx_RaiseDoubleKeywordsError( const char* func_name, PyObject* kw_name) { PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION >= 3 "%s() got multiple values for keyword argument '%U'", func_name, kw_name); #else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_SubtractObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a - b); if (likely((x^a) >= 0 || (x^~b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_subtract(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_subtract(op1, op2); } } x = a - b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla - llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("subtract", return NULL) result = ((double)a) - (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceSubtract : PyNumber_Subtract)(op1, op2); } #endif /* BufferIndexError */ static void __Pyx_RaiseBufferIndexError(int axis) { PyErr_Format(PyExc_IndexError, "Out of bounds on buffer access (axis %d)", axis); } /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* SetItemInt */ static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { int r; if (!j) return -1; r = PyObject_SetItem(o, j, v); Py_DECREF(j); return r; } static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { PyObject* old = PyList_GET_ITEM(o, n); Py_INCREF(v); PyList_SET_ITEM(o, n, v); Py_DECREF(old); return 1; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_ass_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return -1; PyErr_Clear(); } } return m->sq_ass_item(o, i, v); } } #else #if CYTHON_COMPILING_IN_PYPY if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { #else if (is_list || PySequence_Check(o)) { #endif return PySequence_SetItem(o, i, v); } #endif return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); } /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* ImportFrom */ static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Format(PyExc_ImportError, #if PY_MAJOR_VERSION < 3 "cannot import name %.230s", PyString_AS_STRING(name)); #else "cannot import name %S", name); #endif } return value; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_double(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(double *) itemp); } static CYTHON_INLINE int __pyx_memview_set_double(const char *itemp, PyObject *obj) { double value = __pyx_PyFloat_AsDouble(obj); if ((value == (double)-1) && PyErr_Occurred()) return 0; *(double *) itemp = value; return 1; } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value) { const unsigned long neg_one = (unsigned long) -1, const_zero = (unsigned long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(unsigned long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned long), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; 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} #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/fit/fittheories.py0000644023630100076410000015607213202530432020537 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # ########################################################################### */ """This modules provides a set of fit functions and associated estimation functions in a format that can be imported into a :class:`silx.math.fit.FitManager` instance. These functions are well suited for fitting multiple gaussian shaped peaks typically found in spectroscopy data. The estimation functions are designed to detect how many peaks are present in the data, and provide an initial estimate for their height, their center location and their full-width at half maximum (fwhm). The limitation of these estimation algorithms is that only gaussians having a similar fwhm can be detected by the peak search algorithm. This *search fwhm* can be defined by the user, if he knows the characteristics of his data, or can be automatically estimated based on the fwhm of the largest peak in the data. The source code of this module can serve as template for defining your own fit functions. The functions to be imported by :meth:`FitManager.loadtheories` are defined by a dictionary :const:`THEORY`: with the following structure:: from silx.math.fit.fittheory import FitTheory THEORY = { 'theory_name_1': FitTheory( description='Description of theory 1', function=fitfunction1, parameters=('param name 1', 'param name 2', …), estimate=estimation_function1, configure=configuration_function1, derivative=derivative_function1), 'theory_name_2': FitTheory(…), } .. note:: Consider using an OrderedDict instead of a regular dictionary, when defining your own theory dictionary, if the order matters to you. This will likely be the case if you intend to load a selection of functions in a GUI such as :class:`silx.gui.fit.FitManager`. Theory names can be customized (e.g. ``gauss, lorentz, splitgauss``…). The mandatory parameters for :class:`FitTheory` are ``function`` and ``parameters``. You can also define an ``INIT`` function that will be executed by :meth:`FitManager.loadtheories`. See the documentation of :class:`silx.math.fit.fittheory.FitTheory` for more information. Module members: --------------- """ import numpy from collections import OrderedDict import logging from silx.math.fit import functions from silx.math.fit.peaks import peak_search, guess_fwhm from silx.math.fit.filters import strip, savitsky_golay from silx.math.fit.leastsq import leastsq from silx.math.fit.fittheory import FitTheory _logger = logging.getLogger(__name__) __authors__ = ["V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "15/05/2017" DEFAULT_CONFIG = { 'NoConstraintsFlag': False, 'PositiveFwhmFlag': True, 'PositiveHeightAreaFlag': True, 'SameFwhmFlag': False, 'QuotedPositionFlag': False, # peak not outside data range 'QuotedEtaFlag': False, # force 0 < eta < 1 # Peak detection 'AutoScaling': False, 'Yscaling': 1.0, 'FwhmPoints': 8, 'AutoFwhm': True, 'Sensitivity': 2.5, 'ForcePeakPresence': True, # Hypermet 'HypermetTails': 15, 'QuotedFwhmFlag': 0, 'MaxFwhm2InputRatio': 1.5, 'MinFwhm2InputRatio': 0.4, # short tail parameters 'MinGaussArea4ShortTail': 50000., 'InitialShortTailAreaRatio': 0.050, 'MaxShortTailAreaRatio': 0.100, 'MinShortTailAreaRatio': 0.0010, 'InitialShortTailSlopeRatio': 0.70, 'MaxShortTailSlopeRatio': 2.00, 'MinShortTailSlopeRatio': 0.50, # long tail parameters 'MinGaussArea4LongTail': 1000.0, 'InitialLongTailAreaRatio': 0.050, 'MaxLongTailAreaRatio': 0.300, 'MinLongTailAreaRatio': 0.010, 'InitialLongTailSlopeRatio': 20.0, 'MaxLongTailSlopeRatio': 50.0, 'MinLongTailSlopeRatio': 5.0, # step tail 'MinGaussHeight4StepTail': 5000., 'InitialStepTailHeightRatio': 0.002, 'MaxStepTailHeightRatio': 0.0100, 'MinStepTailHeightRatio': 0.0001, # Hypermet constraints # position in range [estimated position +- estimated fwhm/2] 'HypermetQuotedPositionFlag': True, 'DeltaPositionFwhmUnits': 0.5, 'SameSlopeRatioFlag': 1, 'SameAreaRatioFlag': 1, # Strip bg removal 'StripBackgroundFlag': True, 'SmoothingFlag': True, 'SmoothingWidth': 5, 'StripWidth': 2, 'StripIterations': 5000, 'StripThresholdFactor': 1.0} """This dictionary defines default configuration parameters that have effects on fit functions and estimation functions, mainly on fit constraints. This dictionary is accessible as attribute :attr:`FitTheories.config`, which can be modified by configuration functions defined in :const:`CONFIGURE`. """ CFREE = 0 CPOSITIVE = 1 CQUOTED = 2 CFIXED = 3 CFACTOR = 4 CDELTA = 5 CSUM = 6 CIGNORED = 7 class FitTheories(object): """Class wrapping functions from :class:`silx.math.fit.functions` and providing estimate functions for all of these fit functions.""" def __init__(self, config=None): if config is None: self.config = DEFAULT_CONFIG else: self.config = config def ahypermet(self, x, *pars): """ Wrapping of :func:`silx.math.fit.functions.sum_ahypermet` without the tail flags in the function signature. Depending on the value of `self.config['HypermetTails']`, one can activate or deactivate the various terms of the hypermet function. `self.config['HypermetTails']` must be an integer between 0 and 15. It is a set of 4 binary flags, one for activating each one of the hypermet terms: *gaussian function, short tail, long tail, step*. For example, 15 can be expressed as ``1111`` in base 2, so a flag of 15 means all terms are active. """ g_term = self.config['HypermetTails'] & 1 st_term = (self.config['HypermetTails'] >> 1) & 1 lt_term = (self.config['HypermetTails'] >> 2) & 1 step_term = (self.config['HypermetTails'] >> 3) & 1 return functions.sum_ahypermet(x, *pars, gaussian_term=g_term, st_term=st_term, lt_term=lt_term, step_term=step_term) def poly(self, x, *pars): """Order n polynomial. The order of the polynomial is defined by the number of coefficients (``*pars``). """ p = numpy.poly1d(pars) return p(x) @staticmethod def estimate_poly(x, y, n=2): """Estimate polynomial coefficients for a degree n polynomial. """ pcoeffs = numpy.polyfit(x, y, n) constraints = numpy.zeros((n + 1, 3), numpy.float) return pcoeffs, constraints def estimate_quadratic(self, x, y): """Estimate quadratic coefficients """ return self.estimate_poly(x, y, n=2) def estimate_cubic(self, x, y): """Estimate coefficients for a degree 3 polynomial """ return self.estimate_poly(x, y, n=3) def estimate_quartic(self, x, y): """Estimate coefficients for a degree 4 polynomial """ return self.estimate_poly(x, y, n=4) def estimate_quintic(self, x, y): """Estimate coefficients for a degree 5 polynomial """ return self.estimate_poly(x, y, n=5) def strip_bg(self, y): """Return the strip background of y, using parameters from :attr:`config` dictionary (*StripBackgroundFlag, StripWidth, StripIterations, StripThresholdFactor*)""" remove_strip_bg = self.config.get('StripBackgroundFlag', False) if remove_strip_bg: if self.config['SmoothingFlag']: y = savitsky_golay(y, self.config['SmoothingWidth']) strip_width = self.config['StripWidth'] strip_niterations = self.config['StripIterations'] strip_thr_factor = self.config['StripThresholdFactor'] return strip(y, w=strip_width, niterations=strip_niterations, factor=strip_thr_factor) else: return numpy.zeros_like(y) def guess_yscaling(self, y): """Estimate scaling for y prior to peak search. A smoothing filter is applied to y to estimate the noise level (chi-squared) :param y: Data array :return: Scaling factor """ # ensure y is an array yy = numpy.array(y, copy=False) # smooth convolution_kernel = numpy.ones(shape=(3,)) / 3. ysmooth = numpy.convolve(y, convolution_kernel, mode="same") # remove zeros idx_array = numpy.fabs(y) > 0.0 yy = yy[idx_array] ysmooth = ysmooth[idx_array] # compute scaling factor chisq = numpy.mean((yy - ysmooth)**2 / numpy.fabs(yy)) if chisq > 0: return 1. / chisq else: return 1.0 def peak_search(self, y, fwhm, sensitivity): """Search for peaks in y array, after padding the array and multiplying its value by a scaling factor. :param y: 1-D data array :param int fwhm: Typical full width at half maximum for peaks, in number of points. This parameter is used for to discriminate between true peaks and background fluctuations. :param float sensitivity: Sensitivity parameter. This is a threshold factor for peak detection. Only peaks larger than the standard deviation of the noise multiplied by this sensitivity parameter are detected. :return: List of peak indices """ # add padding ysearch = numpy.ones((len(y) + 2 * fwhm,), numpy.float) ysearch[0:fwhm] = y[0] ysearch[-1:-fwhm - 1:-1] = y[len(y)-1] ysearch[fwhm:fwhm + len(y)] = y[:] scaling = self.guess_yscaling(y) if self.config["AutoScaling"] else self.config["Yscaling"] if len(ysearch) > 1.5 * fwhm: peaks = peak_search(scaling * ysearch, fwhm=fwhm, sensitivity=sensitivity) return [peak_index - fwhm for peak_index in peaks if 0 <= peak_index - fwhm < len(y)] else: return [] def estimate_height_position_fwhm(self, x, y): """Estimation of *Height, Position, FWHM* of peaks, for gaussian-like curves. This functions finds how many parameters are needed, based on the number of peaks detected. Then it estimates the fit parameters with a few iterations of fitting gaussian functions. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Height, Position, FWHM*. Fit constraints depend on :attr:`config`. """ fittedpar = [] bg = self.strip_bg(y) if self.config['AutoFwhm']: search_fwhm = guess_fwhm(y) else: search_fwhm = int(float(self.config['FwhmPoints'])) search_sens = float(self.config['Sensitivity']) if search_fwhm < 3: _logger.warning("Setting peak fwhm to 3 (lower limit)") search_fwhm = 3 self.config['FwhmPoints'] = 3 if search_sens < 1: _logger.warning("Setting peak search sensitivity to 1. " + "(lower limit to filter out noise peaks)") search_sens = 1 self.config['Sensitivity'] = 1 npoints = len(y) # Find indices of peaks in data array peaks = self.peak_search(y, fwhm=search_fwhm, sensitivity=search_sens) if not len(peaks): forcepeak = int(float(self.config.get('ForcePeakPresence', 0))) if forcepeak: delta = y - bg # get index of global maximum # (first one if several samples are equal to this value) peaks = [numpy.nonzero(delta == delta.max())[0][0]] # Find index of largest peak in peaks array index_largest_peak = 0 if len(peaks) > 0: # estimate fwhm as 5 * sampling interval sig = 5 * abs(x[npoints - 1] - x[0]) / npoints peakpos = x[int(peaks[0])] if abs(peakpos) < 1.0e-16: peakpos = 0.0 param = numpy.array( [y[int(peaks[0])] - bg[int(peaks[0])], peakpos, sig]) height_largest_peak = param[0] peak_index = 1 for i in peaks[1:]: param2 = numpy.array( [y[int(i)] - bg[int(i)], x[int(i)], sig]) param = numpy.concatenate((param, param2)) if param2[0] > height_largest_peak: height_largest_peak = param2[0] index_largest_peak = peak_index peak_index += 1 # Subtract background xw = x yw = y - bg cons = numpy.zeros((len(param), 3), numpy.float) # peak height must be positive cons[0:len(param):3, 0] = CPOSITIVE # force peaks to stay around their position cons[1:len(param):3, 0] = CQUOTED # set possible peak range to estimated peak +- guessed fwhm if len(xw) > search_fwhm: fwhmx = numpy.fabs(xw[int(search_fwhm)] - xw[0]) cons[1:len(param):3, 1] = param[1:len(param):3] - 0.5 * fwhmx cons[1:len(param):3, 2] = param[1:len(param):3] + 0.5 * fwhmx else: cons[1:len(param):3, 1] = min(xw) * numpy.ones( (param[1:len(param):3]), numpy.float) cons[1:len(param):3, 2] = max(xw) * numpy.ones( (param[1:len(param):3]), numpy.float) # ensure fwhm is positive cons[2:len(param):3, 0] = CPOSITIVE # run a quick iterative fit (4 iterations) to improve # estimations fittedpar, _, _ = leastsq(functions.sum_gauss, xw, yw, param, max_iter=4, constraints=cons.tolist(), full_output=True) # set final constraints based on config parameters cons = numpy.zeros((len(fittedpar), 3), numpy.float) peak_index = 0 for i in range(len(peaks)): # Setup height area constrains if not self.config['NoConstraintsFlag']: if self.config['PositiveHeightAreaFlag']: cons[peak_index, 0] = CPOSITIVE cons[peak_index, 1] = 0 cons[peak_index, 2] = 0 peak_index += 1 # Setup position constrains if not self.config['NoConstraintsFlag']: if self.config['QuotedPositionFlag']: cons[peak_index, 0] = CQUOTED cons[peak_index, 1] = min(x) cons[peak_index, 2] = max(x) peak_index += 1 # Setup positive FWHM constrains if not self.config['NoConstraintsFlag']: if self.config['PositiveFwhmFlag']: cons[peak_index, 0] = CPOSITIVE cons[peak_index, 1] = 0 cons[peak_index, 2] = 0 if self.config['SameFwhmFlag']: if i != index_largest_peak: cons[peak_index, 0] = CFACTOR cons[peak_index, 1] = 3 * index_largest_peak + 2 cons[peak_index, 2] = 1.0 peak_index += 1 return fittedpar, cons def estimate_agauss(self, x, y): """Estimation of *Area, Position, FWHM* of peaks, for gaussian-like curves. This functions uses :meth:`estimate_height_position_fwhm`, then converts the height parameters to area under the curve with the formula ``area = sqrt(2*pi) * height * fwhm / (2 * sqrt(2 * log(2))`` :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Area, Position, FWHM*. Fit constraints depend on :attr:`config`. """ fittedpar, cons = self.estimate_height_position_fwhm(x, y) # get the number of found peaks npeaks = len(fittedpar) // 3 for i in range(npeaks): height = fittedpar[3 * i] fwhm = fittedpar[3 * i + 2] # Replace height with area in fittedpar fittedpar[3 * i] = numpy.sqrt(2 * numpy.pi) * height * fwhm / ( 2.0 * numpy.sqrt(2 * numpy.log(2))) return fittedpar, cons def estimate_alorentz(self, x, y): """Estimation of *Area, Position, FWHM* of peaks, for Lorentzian curves. This functions uses :meth:`estimate_height_position_fwhm`, then converts the height parameters to area under the curve with the formula ``area = height * fwhm * 0.5 * pi`` :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Area, Position, FWHM*. Fit constraints depend on :attr:`config`. """ fittedpar, cons = self.estimate_height_position_fwhm(x, y) # get the number of found peaks npeaks = len(fittedpar) // 3 for i in range(npeaks): height = fittedpar[3 * i] fwhm = fittedpar[3 * i + 2] # Replace height with area in fittedpar fittedpar[3 * i] = (height * fwhm * 0.5 * numpy.pi) return fittedpar, cons def estimate_splitgauss(self, x, y): """Estimation of *Height, Position, FWHM1, FWHM2* of peaks, for asymmetric gaussian-like curves. This functions uses :meth:`estimate_height_position_fwhm`, then adds a second (identical) estimation of FWHM to the fit parameters for each peak, and the corresponding constraint. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Height, Position, FWHM1, FWHM2*. Fit constraints depend on :attr:`config`. """ fittedpar, cons = self.estimate_height_position_fwhm(x, y) # get the number of found peaks npeaks = len(fittedpar) // 3 estimated_parameters = [] estimated_constraints = numpy.zeros((4 * npeaks, 3), numpy.float) for i in range(npeaks): for j in range(3): estimated_parameters.append(fittedpar[3 * i + j]) # fwhm2 estimate = fwhm1 estimated_parameters.append(fittedpar[3 * i + 2]) # height estimated_constraints[4 * i, 0] = cons[3 * i, 0] estimated_constraints[4 * i, 1] = cons[3 * i, 1] estimated_constraints[4 * i, 2] = cons[3 * i, 2] # position estimated_constraints[4 * i + 1, 0] = cons[3 * i + 1, 0] estimated_constraints[4 * i + 1, 1] = cons[3 * i + 1, 1] estimated_constraints[4 * i + 1, 2] = cons[3 * i + 1, 2] # fwhm1 estimated_constraints[4 * i + 2, 0] = cons[3 * i + 2, 0] estimated_constraints[4 * i + 2, 1] = cons[3 * i + 2, 1] estimated_constraints[4 * i + 2, 2] = cons[3 * i + 2, 2] # fwhm2 estimated_constraints[4 * i + 3, 0] = cons[3 * i + 2, 0] estimated_constraints[4 * i + 3, 1] = cons[3 * i + 2, 1] estimated_constraints[4 * i + 3, 2] = cons[3 * i + 2, 2] if cons[3 * i + 2, 0] == CFACTOR: # convert indices of related parameters # (this happens if SameFwhmFlag == True) estimated_constraints[4 * i + 2, 1] = \ int(cons[3 * i + 2, 1] / 3) * 4 + 2 estimated_constraints[4 * i + 3, 1] = \ int(cons[3 * i + 2, 1] / 3) * 4 + 3 return estimated_parameters, estimated_constraints def estimate_pvoigt(self, x, y): """Estimation of *Height, Position, FWHM, eta* of peaks, for pseudo-Voigt curves. Pseudo-Voigt are a sum of a gaussian curve *G(x)* and a lorentzian curve *L(x)* with the same height, center, fwhm parameters: ``y(x) = eta * G(x) + (1-eta) * L(x)`` This functions uses :meth:`estimate_height_position_fwhm`, then adds a constant estimation of *eta* (0.5) to the fit parameters for each peak, and the corresponding constraint. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Height, Position, FWHM, eta*. Constraint for the eta parameter can be set to QUOTED (0.--1.) by setting :attr:`config`['QuotedEtaFlag'] to ``True``. If this is not the case, the constraint code is set to FREE. """ fittedpar, cons = self.estimate_height_position_fwhm(x, y) npeaks = len(fittedpar) // 3 newpar = [] newcons = numpy.zeros((4 * npeaks, 3), numpy.float) # find out related parameters proper index if not self.config['NoConstraintsFlag']: if self.config['SameFwhmFlag']: j = 0 # get the index of the free FWHM for i in range(npeaks): if cons[3 * i + 2, 0] != 4: j = i for i in range(npeaks): if i != j: cons[3 * i + 2, 1] = 4 * j + 2 for i in range(npeaks): newpar.append(fittedpar[3 * i]) newpar.append(fittedpar[3 * i + 1]) newpar.append(fittedpar[3 * i + 2]) newpar.append(0.5) # height newcons[4 * i, 0] = cons[3 * i, 0] newcons[4 * i, 1] = cons[3 * i, 1] newcons[4 * i, 2] = cons[3 * i, 2] # position newcons[4 * i + 1, 0] = cons[3 * i + 1, 0] newcons[4 * i + 1, 1] = cons[3 * i + 1, 1] newcons[4 * i + 1, 2] = cons[3 * i + 1, 2] # fwhm newcons[4 * i + 2, 0] = cons[3 * i + 2, 0] newcons[4 * i + 2, 1] = cons[3 * i + 2, 1] newcons[4 * i + 2, 2] = cons[3 * i + 2, 2] # Eta constrains newcons[4 * i + 3, 0] = CFREE newcons[4 * i + 3, 1] = 0 newcons[4 * i + 3, 2] = 0 if self.config['QuotedEtaFlag']: newcons[4 * i + 3, 0] = CQUOTED newcons[4 * i + 3, 1] = 0.0 newcons[4 * i + 3, 2] = 1.0 return newpar, newcons def estimate_splitpvoigt(self, x, y): """Estimation of *Height, Position, FWHM1, FWHM2, eta* of peaks, for asymmetric pseudo-Voigt curves. This functions uses :meth:`estimate_height_position_fwhm`, then adds an identical FWHM2 parameter and a constant estimation of *eta* (0.5) to the fit parameters for each peak, and the corresponding constraints. Constraint for the eta parameter can be set to QUOTED (0.--1.) by setting :attr:`config`['QuotedEtaFlag'] to ``True``. If this is not the case, the constraint code is set to FREE. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Height, Position, FWHM1, FWHM2, eta*. """ fittedpar, cons = self.estimate_height_position_fwhm(x, y) npeaks = len(fittedpar) // 3 newpar = [] newcons = numpy.zeros((5 * npeaks, 3), numpy.float) # find out related parameters proper index if not self.config['NoConstraintsFlag']: if self.config['SameFwhmFlag']: j = 0 # get the index of the free FWHM for i in range(npeaks): if cons[3 * i + 2, 0] != 4: j = i for i in range(npeaks): if i != j: cons[3 * i + 2, 1] = 4 * j + 2 for i in range(npeaks): # height newpar.append(fittedpar[3 * i]) # position newpar.append(fittedpar[3 * i + 1]) # fwhm1 newpar.append(fittedpar[3 * i + 2]) # fwhm2 estimate equal to fwhm1 newpar.append(fittedpar[3 * i + 2]) # eta newpar.append(0.5) # constraint codes # ---------------- # height newcons[5 * i, 0] = cons[3 * i, 0] # position newcons[5 * i + 1, 0] = cons[3 * i + 1, 0] # fwhm1 newcons[5 * i + 2, 0] = cons[3 * i + 2, 0] # fwhm2 newcons[5 * i + 3, 0] = cons[3 * i + 2, 0] # cons 1 # ------ newcons[5 * i, 1] = cons[3 * i, 1] newcons[5 * i + 1, 1] = cons[3 * i + 1, 1] newcons[5 * i + 2, 1] = cons[3 * i + 2, 1] newcons[5 * i + 3, 1] = cons[3 * i + 2, 1] # cons 2 # ------ newcons[5 * i, 2] = cons[3 * i, 2] newcons[5 * i + 1, 2] = cons[3 * i + 1, 2] newcons[5 * i + 2, 2] = cons[3 * i + 2, 2] newcons[5 * i + 3, 2] = cons[3 * i + 2, 2] if cons[3 * i + 2, 0] == CFACTOR: # fwhm2 connstraint depends on fwhm1 newcons[5 * i + 3, 1] = newcons[5 * i + 2, 1] + 1 # eta constraints newcons[5 * i + 4, 0] = CFREE newcons[5 * i + 4, 1] = 0 newcons[5 * i + 4, 2] = 0 if self.config['QuotedEtaFlag']: newcons[5 * i + 4, 0] = CQUOTED newcons[5 * i + 4, 1] = 0.0 newcons[5 * i + 4, 2] = 1.0 return newpar, newcons def estimate_apvoigt(self, x, y): """Estimation of *Area, Position, FWHM1, eta* of peaks, for pseudo-Voigt curves. This functions uses :meth:`estimate_pvoigt`, then converts the height parameter to area. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *Area, Position, FWHM, eta*. """ fittedpar, cons = self.estimate_pvoigt(x, y) npeaks = len(fittedpar) // 4 # Assume 50% of the area is determined by the gaussian and 50% by # the Lorentzian. for i in range(npeaks): height = fittedpar[4 * i] fwhm = fittedpar[4 * i + 2] fittedpar[4 * i] = 0.5 * (height * fwhm * 0.5 * numpy.pi) +\ 0.5 * (height * fwhm / (2.0 * numpy.sqrt(2 * numpy.log(2))) ) * numpy.sqrt(2 * numpy.pi) return fittedpar, cons def estimate_ahypermet(self, x, y): """Estimation of *area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r* of peaks, for hypermet curves. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each peak are: *area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r* . """ yscaling = self.config.get('Yscaling', 1.0) if yscaling == 0: yscaling = 1.0 fittedpar, cons = self.estimate_height_position_fwhm(x, y) npeaks = len(fittedpar) // 3 newpar = [] newcons = numpy.zeros((8 * npeaks, 3), numpy.float) main_peak = 0 # find out related parameters proper index if not self.config['NoConstraintsFlag']: if self.config['SameFwhmFlag']: j = 0 # get the index of the free FWHM for i in range(npeaks): if cons[3 * i + 2, 0] != 4: j = i for i in range(npeaks): if i != j: cons[3 * i + 2, 1] = 8 * j + 2 main_peak = j for i in range(npeaks): if fittedpar[3 * i] > fittedpar[3 * main_peak]: main_peak = i for i in range(npeaks): height = fittedpar[3 * i] position = fittedpar[3 * i + 1] fwhm = fittedpar[3 * i + 2] area = (height * fwhm / (2.0 * numpy.sqrt(2 * numpy.log(2))) ) * numpy.sqrt(2 * numpy.pi) # the gaussian parameters newpar.append(area) newpar.append(position) newpar.append(fwhm) # print "area, pos , fwhm = ",area,position,fwhm # Avoid zero derivatives because of not calculating contribution g_term = 1 st_term = 1 lt_term = 1 step_term = 1 if self.config['HypermetTails'] != 0: g_term = self.config['HypermetTails'] & 1 st_term = (self.config['HypermetTails'] >> 1) & 1 lt_term = (self.config['HypermetTails'] >> 2) & 1 step_term = (self.config['HypermetTails'] >> 3) & 1 if g_term == 0: # fix the gaussian parameters newcons[8 * i, 0] = CFIXED newcons[8 * i + 1, 0] = CFIXED newcons[8 * i + 2, 0] = CFIXED # the short tail parameters if ((area * yscaling) < self.config['MinGaussArea4ShortTail']) | \ (st_term == 0): newpar.append(0.0) newpar.append(0.0) newcons[8 * i + 3, 0] = CFIXED newcons[8 * i + 3, 1] = 0.0 newcons[8 * i + 3, 2] = 0.0 newcons[8 * i + 4, 0] = CFIXED newcons[8 * i + 4, 1] = 0.0 newcons[8 * i + 4, 2] = 0.0 else: newpar.append(self.config['InitialShortTailAreaRatio']) newpar.append(self.config['InitialShortTailSlopeRatio']) newcons[8 * i + 3, 0] = CQUOTED newcons[8 * i + 3, 1] = self.config['MinShortTailAreaRatio'] newcons[8 * i + 3, 2] = self.config['MaxShortTailAreaRatio'] newcons[8 * i + 4, 0] = CQUOTED newcons[8 * i + 4, 1] = self.config['MinShortTailSlopeRatio'] newcons[8 * i + 4, 2] = self.config['MaxShortTailSlopeRatio'] # the long tail parameters if ((area * yscaling) < self.config['MinGaussArea4LongTail']) | \ (lt_term == 0): newpar.append(0.0) newpar.append(0.0) newcons[8 * i + 5, 0] = CFIXED newcons[8 * i + 5, 1] = 0.0 newcons[8 * i + 5, 2] = 0.0 newcons[8 * i + 6, 0] = CFIXED newcons[8 * i + 6, 1] = 0.0 newcons[8 * i + 6, 2] = 0.0 else: newpar.append(self.config['InitialLongTailAreaRatio']) newpar.append(self.config['InitialLongTailSlopeRatio']) newcons[8 * i + 5, 0] = CQUOTED newcons[8 * i + 5, 1] = self.config['MinLongTailAreaRatio'] newcons[8 * i + 5, 2] = self.config['MaxLongTailAreaRatio'] newcons[8 * i + 6, 0] = CQUOTED newcons[8 * i + 6, 1] = self.config['MinLongTailSlopeRatio'] newcons[8 * i + 6, 2] = self.config['MaxLongTailSlopeRatio'] # the step parameters if ((height * yscaling) < self.config['MinGaussHeight4StepTail']) | \ (step_term == 0): newpar.append(0.0) newcons[8 * i + 7, 0] = CFIXED newcons[8 * i + 7, 1] = 0.0 newcons[8 * i + 7, 2] = 0.0 else: newpar.append(self.config['InitialStepTailHeightRatio']) newcons[8 * i + 7, 0] = CQUOTED newcons[8 * i + 7, 1] = self.config['MinStepTailHeightRatio'] newcons[8 * i + 7, 2] = self.config['MaxStepTailHeightRatio'] # if self.config['NoConstraintsFlag'] == 1: # newcons=numpy.zeros((8*npeaks, 3),numpy.float) if npeaks > 0: if g_term: if self.config['PositiveHeightAreaFlag']: for i in range(npeaks): newcons[8 * i, 0] = CPOSITIVE if self.config['PositiveFwhmFlag']: for i in range(npeaks): newcons[8 * i + 2, 0] = CPOSITIVE if self.config['SameFwhmFlag']: for i in range(npeaks): if i != main_peak: newcons[8 * i + 2, 0] = CFACTOR newcons[8 * i + 2, 1] = 8 * main_peak + 2 newcons[8 * i + 2, 2] = 1.0 if self.config['HypermetQuotedPositionFlag']: for i in range(npeaks): delta = self.config['DeltaPositionFwhmUnits'] * fwhm newcons[8 * i + 1, 0] = CQUOTED newcons[8 * i + 1, 1] = newpar[8 * i + 1] - delta newcons[8 * i + 1, 2] = newpar[8 * i + 1] + delta if self.config['SameSlopeRatioFlag']: for i in range(npeaks): if i != main_peak: newcons[8 * i + 4, 0] = CFACTOR newcons[8 * i + 4, 1] = 8 * main_peak + 4 newcons[8 * i + 4, 2] = 1.0 newcons[8 * i + 6, 0] = CFACTOR newcons[8 * i + 6, 1] = 8 * main_peak + 6 newcons[8 * i + 6, 2] = 1.0 if self.config['SameAreaRatioFlag']: for i in range(npeaks): if i != main_peak: newcons[8 * i + 3, 0] = CFACTOR newcons[8 * i + 3, 1] = 8 * main_peak + 3 newcons[8 * i + 3, 2] = 1.0 newcons[8 * i + 5, 0] = CFACTOR newcons[8 * i + 5, 1] = 8 * main_peak + 5 newcons[8 * i + 5, 2] = 1.0 return newpar, newcons def estimate_stepdown(self, x, y): """Estimation of parameters for stepdown curves. The functions estimates gaussian parameters for the derivative of the data, takes the largest gaussian peak and uses its estimated parameters to define the center of the step and its fwhm. The estimated amplitude returned is simply ``max(y) - min(y)``. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit newconstraints. Parameters to be estimated for each stepdown are: *height, centroid, fwhm* . """ crappyfilter = [-0.25, -0.75, 0.0, 0.75, 0.25] cutoff = len(crappyfilter) // 2 y_deriv = numpy.convolve(y, crappyfilter, mode="valid") # make the derivative's peak have the same amplitude as the step if max(y_deriv) > 0: y_deriv = y_deriv * max(y) / max(y_deriv) fittedpar, newcons = self.estimate_height_position_fwhm( x[cutoff:-cutoff], y_deriv) data_amplitude = max(y) - min(y) # use parameters from largest gaussian found if len(fittedpar): npeaks = len(fittedpar) // 3 largest_index = 0 largest = [data_amplitude, fittedpar[3 * largest_index + 1], fittedpar[3 * largest_index + 2]] for i in range(npeaks): if fittedpar[3 * i] > largest[0]: largest_index = i largest = [data_amplitude, fittedpar[3 * largest_index + 1], fittedpar[3 * largest_index + 2]] else: # no peak was found largest = [data_amplitude, # height x[len(x)//2], # center: middle of x range self.config["FwhmPoints"] * (x[1] - x[0])] # fwhm: default value # Setup constrains newcons = numpy.zeros((3, 3), numpy.float) if not self.config['NoConstraintsFlag']: # Setup height constrains if self.config['PositiveHeightAreaFlag']: newcons[0, 0] = CPOSITIVE newcons[0, 1] = 0 newcons[0, 2] = 0 # Setup position constrains if self.config['QuotedPositionFlag']: newcons[1, 0] = CQUOTED newcons[1, 1] = min(x) newcons[1, 2] = max(x) # Setup positive FWHM constrains if self.config['PositiveFwhmFlag']: newcons[2, 0] = CPOSITIVE newcons[2, 1] = 0 newcons[2, 2] = 0 return largest, newcons def estimate_slit(self, x, y): """Estimation of parameters for slit curves. The functions estimates stepup and stepdown parameters for the largest steps, and uses them for calculating the center (middle between stepup and stepdown), the height (maximum amplitude in data), the fwhm (distance between the up- and down-step centers) and the beamfwhm (average of FWHM for up- and down-step). :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each slit are: *height, position, fwhm, beamfwhm* . """ largestup, cons = self.estimate_stepup(x, y) largestdown, cons = self.estimate_stepdown(x, y) fwhm = numpy.fabs(largestdown[1] - largestup[1]) beamfwhm = 0.5 * (largestup[2] + largestdown[1]) beamfwhm = min(beamfwhm, fwhm / 10.0) beamfwhm = max(beamfwhm, (max(x) - min(x)) * 3.0 / len(x)) y_minus_bg = y - self.strip_bg(y) height = max(y_minus_bg) i1 = numpy.nonzero(y_minus_bg >= 0.5 * height)[0] xx = numpy.take(x, i1) position = (xx[0] + xx[-1]) / 2.0 fwhm = xx[-1] - xx[0] largest = [height, position, fwhm, beamfwhm] cons = numpy.zeros((4, 3), numpy.float) # Setup constrains if not self.config['NoConstraintsFlag']: # Setup height constrains if self.config['PositiveHeightAreaFlag']: cons[0, 0] = CPOSITIVE cons[0, 1] = 0 cons[0, 2] = 0 # Setup position constrains if self.config['QuotedPositionFlag']: cons[1, 0] = CQUOTED cons[1, 1] = min(x) cons[1, 2] = max(x) # Setup positive FWHM constrains if self.config['PositiveFwhmFlag']: cons[2, 0] = CPOSITIVE cons[2, 1] = 0 cons[2, 2] = 0 # Setup positive FWHM constrains if self.config['PositiveFwhmFlag']: cons[3, 0] = CPOSITIVE cons[3, 1] = 0 cons[3, 2] = 0 return largest, cons def estimate_stepup(self, x, y): """Estimation of parameters for a single step up curve. The functions estimates gaussian parameters for the derivative of the data, takes the largest gaussian peak and uses its estimated parameters to define the center of the step and its fwhm. The estimated amplitude returned is simply ``max(y) - min(y)``. :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. Parameters to be estimated for each stepup are: *height, centroid, fwhm* . """ crappyfilter = [0.25, 0.75, 0.0, -0.75, -0.25] cutoff = len(crappyfilter) // 2 y_deriv = numpy.convolve(y, crappyfilter, mode="valid") if max(y_deriv) > 0: y_deriv = y_deriv * max(y) / max(y_deriv) fittedpar, cons = self.estimate_height_position_fwhm( x[cutoff:-cutoff], y_deriv) # for height, use the data amplitude after removing the background data_amplitude = max(y) - min(y) # find params of the largest gaussian found if len(fittedpar): npeaks = len(fittedpar) // 3 largest_index = 0 largest = [data_amplitude, fittedpar[3 * largest_index + 1], fittedpar[3 * largest_index + 2]] for i in range(npeaks): if fittedpar[3 * i] > largest[0]: largest_index = i largest = [fittedpar[3 * largest_index], fittedpar[3 * largest_index + 1], fittedpar[3 * largest_index + 2]] else: # no peak was found largest = [data_amplitude, # height x[len(x)//2], # center: middle of x range self.config["FwhmPoints"] * (x[1] - x[0])] # fwhm: default value newcons = numpy.zeros((3, 3), numpy.float) # Setup constrains if not self.config['NoConstraintsFlag']: # Setup height constraints if self.config['PositiveHeightAreaFlag']: newcons[0, 0] = CPOSITIVE newcons[0, 1] = 0 newcons[0, 2] = 0 # Setup position constraints if self.config['QuotedPositionFlag']: newcons[1, 0] = CQUOTED newcons[1, 1] = min(x) newcons[1, 2] = max(x) # Setup positive FWHM constraints if self.config['PositiveFwhmFlag']: newcons[2, 0] = CPOSITIVE newcons[2, 1] = 0 newcons[2, 2] = 0 return largest, newcons def estimate_periodic_gauss(self, x, y): """Estimation of parameters for periodic gaussian curves: *number of peaks, distance between peaks, height, position of the first peak, fwhm* The functions detects all peaks, then computes the parameters the following way: - *distance*: average of distances between detected peaks - *height*: average height of detected peaks - *fwhm*: fwhm of the highest peak (in number of samples) if field ``'AutoFwhm'`` in :attr:`config` is ``True``, else take the default value (field ``'FwhmPoints'`` in :attr:`config`) :param x: Array of abscissa values :param y: Array of ordinate values (``y = f(x)``) :return: Tuple of estimated fit parameters and fit constraints. """ yscaling = self.config.get('Yscaling', 1.0) if yscaling == 0: yscaling = 1.0 bg = self.strip_bg(y) if self.config['AutoFwhm']: search_fwhm = guess_fwhm(y) else: search_fwhm = int(float(self.config['FwhmPoints'])) search_sens = float(self.config['Sensitivity']) if search_fwhm < 3: search_fwhm = 3 if search_sens < 1: search_sens = 1 if len(y) > 1.5 * search_fwhm: peaks = peak_search(yscaling * y, fwhm=search_fwhm, sensitivity=search_sens) else: peaks = [] npeaks = len(peaks) if not npeaks: fittedpar = [] cons = numpy.zeros((len(fittedpar), 3), numpy.float) return fittedpar, cons fittedpar = [0.0, 0.0, 0.0, 0.0, 0.0] # The number of peaks fittedpar[0] = npeaks # The separation between peaks in x units delta = 0.0 height = 0.0 for i in range(npeaks): height += y[int(peaks[i])] - bg[int(peaks[i])] if i != npeaks - 1: delta += (x[int(peaks[i + 1])] - x[int(peaks[i])]) # delta between peaks if npeaks > 1: fittedpar[1] = delta / (npeaks - 1) # starting height fittedpar[2] = height / npeaks # position of the first peak fittedpar[3] = x[int(peaks[0])] # Estimate the fwhm fittedpar[4] = search_fwhm # setup constraints cons = numpy.zeros((5, 3), numpy.float) cons[0, 0] = CFIXED # the number of gaussians if npeaks == 1: cons[1, 0] = CFIXED # the delta between peaks else: cons[1, 0] = CFREE j = 2 # Setup height area constrains if not self.config['NoConstraintsFlag']: if self.config['PositiveHeightAreaFlag']: # POSITIVE = 1 cons[j, 0] = CPOSITIVE cons[j, 1] = 0 cons[j, 2] = 0 j += 1 # Setup position constrains if not self.config['NoConstraintsFlag']: if self.config['QuotedPositionFlag']: # QUOTED = 2 cons[j, 0] = CQUOTED cons[j, 1] = min(x) cons[j, 2] = max(x) j += 1 # Setup positive FWHM constrains if not self.config['NoConstraintsFlag']: if self.config['PositiveFwhmFlag']: # POSITIVE=1 cons[j, 0] = CPOSITIVE cons[j, 1] = 0 cons[j, 2] = 0 j += 1 return fittedpar, cons def configure(self, **kw): """Add new / unknown keyword arguments to :attr:`config`, update entries in :attr:`config` if the parameter name is a existing key. :param kw: Dictionary of keyword arguments. :return: Configuration dictionary :attr:`config` """ if not kw.keys(): return self.config for key in kw.keys(): notdone = 1 # take care of lower / upper case problems ... for config_key in self.config.keys(): if config_key.lower() == key.lower(): self.config[config_key] = kw[key] notdone = 0 if notdone: self.config[key] = kw[key] return self.config fitfuns = FitTheories() THEORY = OrderedDict(( ('Gaussians', FitTheory(description='Gaussian functions', function=functions.sum_gauss, parameters=('Height', 'Position', 'FWHM'), estimate=fitfuns.estimate_height_position_fwhm, configure=fitfuns.configure)), ('Lorentz', FitTheory(description='Lorentzian functions', function=functions.sum_lorentz, parameters=('Height', 'Position', 'FWHM'), estimate=fitfuns.estimate_height_position_fwhm, configure=fitfuns.configure)), ('Area Gaussians', FitTheory(description='Gaussian functions (area)', function=functions.sum_agauss, parameters=('Area', 'Position', 'FWHM'), estimate=fitfuns.estimate_agauss, configure=fitfuns.configure)), ('Area Lorentz', FitTheory(description='Lorentzian functions (area)', function=functions.sum_alorentz, parameters=('Area', 'Position', 'FWHM'), estimate=fitfuns.estimate_alorentz, configure=fitfuns.configure)), ('Pseudo-Voigt Line', FitTheory(description='Pseudo-Voigt functions', function=functions.sum_pvoigt, parameters=('Height', 'Position', 'FWHM', 'Eta'), estimate=fitfuns.estimate_pvoigt, configure=fitfuns.configure)), ('Area Pseudo-Voigt', FitTheory(description='Pseudo-Voigt functions (area)', function=functions.sum_apvoigt, parameters=('Area', 'Position', 'FWHM', 'Eta'), estimate=fitfuns.estimate_apvoigt, configure=fitfuns.configure)), ('Split Gaussian', FitTheory(description='Asymmetric gaussian functions', function=functions.sum_splitgauss, parameters=('Height', 'Position', 'LowFWHM', 'HighFWHM'), estimate=fitfuns.estimate_splitgauss, configure=fitfuns.configure)), ('Split Lorentz', FitTheory(description='Asymmetric lorentzian functions', function=functions.sum_splitlorentz, parameters=('Height', 'Position', 'LowFWHM', 'HighFWHM'), estimate=fitfuns.estimate_splitgauss, configure=fitfuns.configure)), ('Split Pseudo-Voigt', FitTheory(description='Asymmetric pseudo-Voigt functions', function=functions.sum_splitpvoigt, parameters=('Height', 'Position', 'LowFWHM', 'HighFWHM', 'Eta'), estimate=fitfuns.estimate_splitpvoigt, configure=fitfuns.configure)), ('Step Down', FitTheory(description='Step down function', function=functions.sum_stepdown, parameters=('Height', 'Position', 'FWHM'), estimate=fitfuns.estimate_stepdown, configure=fitfuns.configure)), ('Step Up', FitTheory(description='Step up function', function=functions.sum_stepup, parameters=('Height', 'Position', 'FWHM'), estimate=fitfuns.estimate_stepup, configure=fitfuns.configure)), ('Slit', FitTheory(description='Slit function', function=functions.sum_slit, parameters=('Height', 'Position', 'FWHM', 'BeamFWHM'), estimate=fitfuns.estimate_slit, configure=fitfuns.configure)), ('Atan', FitTheory(description='Arctan step up function', function=functions.atan_stepup, parameters=('Height', 'Position', 'Width'), estimate=fitfuns.estimate_stepup, configure=fitfuns.configure)), ('Hypermet', FitTheory(description='Hypermet functions', function=fitfuns.ahypermet, # customized version of functions.sum_ahypermet parameters=('G_Area', 'Position', 'FWHM', 'ST_Area', 'ST_Slope', 'LT_Area', 'LT_Slope', 'Step_H'), estimate=fitfuns.estimate_ahypermet, configure=fitfuns.configure)), # ('Periodic Gaussians', # FitTheory(description='Periodic gaussian functions', # function=functions.periodic_gauss, # parameters=('N', 'Delta', 'Height', 'Position', 'FWHM'), # estimate=fitfuns.estimate_periodic_gauss, # configure=fitfuns.configure)) ('Degree 2 Polynomial', FitTheory(description='Degree 2 polynomial' '\ny = a*x^2 + b*x +c', function=fitfuns.poly, parameters=['a', 'b', 'c'], estimate=fitfuns.estimate_quadratic)), ('Degree 3 Polynomial', FitTheory(description='Degree 3 polynomial' '\ny = a*x^3 + b*x^2 + c*x + d', function=fitfuns.poly, parameters=['a', 'b', 'c', 'd'], estimate=fitfuns.estimate_cubic)), ('Degree 4 Polynomial', FitTheory(description='Degree 4 polynomial' '\ny = a*x^4 + b*x^3 + c*x^2 + d*x + e', function=fitfuns.poly, parameters=['a', 'b', 'c', 'd', 'e'], estimate=fitfuns.estimate_quartic)), ('Degree 5 Polynomial', FitTheory(description='Degree 5 polynomial' '\ny = a*x^5 + b*x^4 + c*x^3 + d*x^2 + e*x + f', function=fitfuns.poly, parameters=['a', 'b', 'c', 'd', 'e', 'f'], estimate=fitfuns.estimate_quintic)), )) """Dictionary of fit theories: fit functions and their associated estimation function, parameters list, configuration function and description. """ def test(a): from silx.math.fit import fitmanager x = numpy.arange(1000).astype(numpy.float) p = [1500, 100., 50.0, 1500, 700., 50.0] y_synthetic = functions.sum_gauss(x, *p) + 1 fit = fitmanager.FitManager(x, y_synthetic) fit.addtheory('Gaussians', functions.sum_gauss, ['Height', 'Position', 'FWHM'], a.estimate_height_position_fwhm) fit.settheory('Gaussians') fit.setbackground('Linear') fit.estimate() fit.runfit() y_fit = fit.gendata() print("Fit parameter names: %s" % str(fit.get_names())) print("Theoretical parameters: %s" % str(numpy.append([1, 0], p))) print("Fitted parameters: %s" % str(fit.get_fitted_parameters())) try: from silx.gui import qt from silx.gui.plot import plot1D app = qt.QApplication([]) # Offset of 1 to see the difference in log scale plot1D(x, (y_synthetic + 1, y_fit), "Input data + 1, Fit") app.exec_() except ImportError: _logger.warning("Unable to load qt binding, can't plot results.") if __name__ == "__main__": test(fitfuns) silx-0.6.1/silx/math/fit/fittheory.py0000644023630100076410000001711413202530306020220 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # # Copyright (c) 2004-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # ########################################################################### */ """ This module defines the :class:`FitTheory` object that is used by :class:`silx.math.fit.FitManager` to define fit functions and background models. """ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "09/08/2016" class FitTheory(object): """This class defines a fit theory, which consists of: - a model function, the actual function to be fitted - parameters names - an estimation function, that return the estimated initial parameters that serve as input for :func:`silx.math.fit.leastsq` - an optional configuration function, that can be used to modify configuration parameters to alter the behavior of the fit function and the estimation function - an optional derivative function, that replaces the default model derivative used in :func:`silx.math.fit.leastsq` """ def __init__(self, function, parameters, estimate=None, configure=None, derivative=None, description=None, pymca_legacy=False, is_background=False): """ :param function function: Actual function. See documentation for :attr:`function`. :param list[str] parameters: List of parameter names for the function. See documentation for :attr:`parameters`. :param function estimate: Optional estimation function. See documentation for :attr:`estimate` :param function configure: Optional configuration function. See documentation for :attr:`configure` :param function derivative: Optional custom derivative function. See documentation for :attr:`derivative` :param str description: Optional description string. See documentation for :attr:`description` :param bool pymca_legacy: Flag to indicate that the theory is a PyMca legacy theory. See documentation for :attr:`pymca_legacy` :param bool is_background: Flag to indicate that the theory is a background theory. This has implications regarding the function's signature, as explained in the documentation for :attr:`function`. """ self.function = function """Regular fit functions must have the signature *f(x, \*params) -> y*, where *x* is a 1D array of values for the independent variable, *params* are the parameters to be fitted and *y* is the output array that we want to have the best fit to a series of data points. Background functions used by :class:`FitManager` must have a slightly different signature: *f(x, y0, \*params) -> bg*, where *y0* is the array of original data points and *bg* is the background signal that we want to subtract from the data array prior to fitting the regular fit function. The number of parameters must be the same as in :attr:`parameters`, or a multiple of this number if the function is defined as a sum of a variable number of base functions and if :attr:`estimate` is designed to be able to estimate the number of needed base functions. """ self.parameters = parameters """List of parameters names. This list can contain the minimum number of parameters, if the function takes a variable number of parameters, and if the estimation function is responsible for finding the number of required parameters """ self.estimate = estimate """The estimation function should have the following signature:: f(x, y) -> (estimated_param, constraints) Parameters: - ``x`` is a sequence of values for the independent variable - ``y`` is a sequence of the same length as ``x`` containing the data to be fitted Return values: - ``estimated_param`` is a sequence of estimated fit parameters to be used as initial values for an iterative fit. - ``constraints`` is a sequence of shape *(n, 3)*, where *n* is the number of estimated parameters, containing the constraints for each parameter to be fitted. See :func:`silx.math.fit.leastsq` for more explanations about constraints.""" if estimate is None: self.estimate = self.default_estimate self.configure = configure """The optional configuration function must conform to the signature ``f(**kw) -> dict`` (i.e it must accept any named argument and return a dictionary). It can be used to modify configuration parameters to alter the behavior of the fit function and the estimation function.""" self.derivative = derivative """The optional derivative function must conform to the signature ``model_deriv(xdata, parameters, index)``, where parameters is a sequence with the current values of the fitting parameters, index is the fitting parameter index for which the the derivative has to be provided in the supplied array of xdata points.""" self.description = description """Optional description string for this particular fit theory.""" self.pymca_legacy = pymca_legacy """This attribute can be set to *True* to indicate that the theory is a PyMca legacy theory. This tells :mod:`silx.math.fit.fitmanager` that the signature of the estimate function is:: f(x, y, bg, xscaling, yscaling) -> (estimated_param, constraints) """ self.is_background = is_background """Flag to indicate that the theory is background theory. A background function is an secondary function that needs to be added to the main fit function to better fit the original data. If this flag is set to *True*, modules using this theory are informed that :attr:`function` has the signature *f(x, y0, \*params) -> bg*, instead of the usual fit function signature.""" def default_estimate(self, x=None, y=None, bg=None): """Default estimate function. Return an array of *ones* as the initial estimated parameters, and set all constraints to zero (FREE)""" estimated_parameters = [1. for _ in self.parameters] estimated_constraints = [[0, 0, 0] for _ in self.parameters] return estimated_parameters, estimated_constraints silx-0.6.1/silx/math/fit/peaks.pyx0000644023630100076410000001407713202530432017503 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ """This module provides a peak search function and tools related to peak analysis. """ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "15/05/2017" import logging import numpy from silx.math.fit import filters _logger = logging.getLogger(__name__) cimport cython from libc.stdlib cimport free cimport peaks_wrapper def peak_search(y, fwhm, sensitivity=3.5, begin_index=None, end_index=None, debug=False, relevance_info=False): """Find peaks in a curve. :param y: Data array :type y: numpy.ndarray :param fwhm: Estimated full width at half maximum of the typical peaks we are interested in (expressed in number of samples) :param sensitivity: Threshold factor used for peak detection. Only peaks with amplitudes higher than ``σ * sensitivity`` - where ``σ`` is the standard deviation of the noise - qualify as peaks. :param begin_index: Index of the first sample of the region of interest in the ``y`` array. If ``None``, start from the first sample. :param end_index: Index of the last sample of the region of interest in the ``y`` array. If ``None``, process until the last sample. :param debug: If ``True``, print debug messages. Default: ``False`` :param relevance_info: If ``True``, add a second dimension with relevance information to the output array. Default: ``False`` :return: 1D sequence with indices of peaks in the data if ``relevance_info`` is ``False``. Else, sequence of ``(peak_index, peak_relevance)`` tuples (one tuple per peak). :raise: ``IndexError`` if the number of peaks is too large to fit in the output array. """ cdef: int i double[::1] y_c double* peaks_c double* relevances_c y_c = numpy.array(y, copy=True, dtype=numpy.float64, order='C').reshape(-1) if debug: debug = 1 else: debug = 0 if begin_index is None: begin_index = 0 if end_index is None: end_index = y_c.size - 1 n_peaks = peaks_wrapper.seek(begin_index, end_index, y_c.size, fwhm, sensitivity, debug, &y_c[0], &peaks_c, &relevances_c) # A negative return value means that peaks were found but not enough # memory could be allocated for all if n_peaks < 0 and n_peaks != -123456: msg = "Before memory allocation error happened, " msg += "we found %d peaks.\n" % abs(n_peaks) _logger.debug(msg) msg = "" for i in range(abs(n_peaks)): msg += "peak index %f, " % peaks_c[i] msg += "relevance %f\n" % relevances_c[i] _logger.debug(msg) free(peaks_c) free(relevances_c) raise MemoryError("Failed to reallocate memory for output arrays") # Special value -123456 is returned if the initial memory allocation # fails, before any search could be performed elif n_peaks == -123456: raise MemoryError("Failed to allocate initial memory for " + "output arrays") peaks = numpy.empty(shape=(n_peaks,), dtype=numpy.float64) relevances = numpy.empty(shape=(n_peaks,), dtype=numpy.float64) for i in range(n_peaks): peaks[i] = peaks_c[i] relevances[i] = relevances_c[i] free(peaks_c) free(relevances_c) if not relevance_info: return peaks else: return list(zip(peaks, relevances)) def guess_fwhm(y): """Return the full-width at half maximum for the largest peak in the data array. The algorithm removes the background, then finds a global maximum and its corresponding FWHM. This value can be used as an initial fit parameter, used as input for an iterative fit function. :param y: Data to be used for guessing the fwhm. :return: Estimation of full-width at half maximum, based on fwhm of the global maximum. """ # set at a minimum value for the fwhm fwhm_min = 4 # remove data background (computed with a strip filter) background = filters.strip(y, w=1, niterations=1000) yfit = y - background # basic peak search: find the global maximum maximum = max(yfit) # find indices of all values == maximum idx = numpy.nonzero(yfit == maximum)[0] # take the last one (if any) if not len(idx): return 0 posindex = idx[-1] height = yfit[posindex] # now find the width of the peak at half maximum imin = posindex while yfit[imin] > 0.5 * height and imin > 0: imin -= 1 imax = posindex while yfit[imax] > 0.5 * height and imax < len(yfit) - 1: imax += 1 fwhm = max(imax - imin - 1, fwhm_min) return fwhm silx-0.6.1/silx/math/fit/bgtheories.py0000644023630100076410000003460613202530306020343 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # ########################################################################### */ """This modules defines a set of background model functions and associated estimation functions in a format that can be imported into a :class:`silx.math.fit.FitManager` object. A background function is a function that you want to add to a regular fit function prior to fitting the sum of both functions. This is useful, for instance, if you need to fit multiple gaussian peaks in an array of measured data points when the measurement is polluted by a background signal. The models include common background models such as a constant value or a linear background. It also includes background computation filters - *strip* and *snip* - that can extract a more complex low-curvature background signal from a signal with peaks having higher curvatures. The source code of this module can serve as a template for defining your own fit background theories. The minimal skeleton of such a theory definition file is:: from silx.math.fit.fittheory import FitTheory def bgfunction1(x, y0, …): bg_signal = … return bg_signal def estimation_function1(x, y): … estimated_params = … constraints = … return estimated_params, constraints THEORY = { 'bg_theory_name1': FitTheory( description='Description of theory 1', function=bgfunction1, parameters=('param name 1', 'param name 2', …), estimate=estimation_function1, configure=configuration_function1, derivative=derivative_function1, is_background=True), 'theory_name_2': …, } """ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "16/01/2017" from collections import OrderedDict import numpy from silx.math.fit.filters import strip, snip1d,\ savitsky_golay from silx.math.fit.fittheory import FitTheory CONFIG = { "SmoothingFlag": False, "SmoothingWidth": 5, "AnchorsFlag": False, "AnchorsList": [], "StripWidth": 2, "StripIterations": 5000, "StripThresholdFactor": 1.0, "SnipWidth": 16, "EstimatePolyOnStrip": True } # to avoid costly computations when parameters stay the same _BG_STRIP_OLDY = numpy.array([]) _BG_STRIP_OLDPARS = [0, 0] _BG_STRIP_OLDBG = numpy.array([]) _BG_SNIP_OLDY = numpy.array([]) _BG_SNIP_OLDWIDTH = None _BG_SNIP_OLDBG = numpy.array([]) _BG_OLD_ANCHORS = [] _BG_OLD_ANCHORS_FLAG = None _BG_SMOOTH_OLDWIDTH = None _BG_SMOOTH_OLDFLAG = None def _convert_anchors_to_indices(x): """Anchors stored in CONFIG["AnchorsList"] are abscissa. Convert then to indices (take first index where x >= anchor), then return the list of indices. :param x: Original array of abscissa :return: List of indices of anchors in x array. If CONFIG['AnchorsFlag'] is False or None, or if the list of indices is empty, return None. """ # convert anchor X abscissa to index if CONFIG['AnchorsFlag'] and CONFIG['AnchorsList'] is not None: anchors_indices = [] for anchor_x in CONFIG['AnchorsList']: if anchor_x <= x[0]: continue # take the first index where x > anchor_x indices = numpy.nonzero(x >= anchor_x)[0] if len(indices): anchors_indices.append(min(indices)) if not len(anchors_indices): anchors_indices = None else: anchors_indices = None return anchors_indices def strip_bg(x, y0, width, niter): """Extract and return the strip bg from y0. Use anchors coordinates in CONFIG["AnchorsList"] if flag CONFIG["AnchorsFlag"] is True. Convert anchors from x coordinate to array index prior to passing it to silx.math.fit.filters.strip :param x: Abscissa array :param x: Ordinate array (data values at x positions) :param width: strip width :param niter: strip niter """ global _BG_STRIP_OLDY global _BG_STRIP_OLDPARS global _BG_STRIP_OLDBG global _BG_SMOOTH_OLDWIDTH global _BG_SMOOTH_OLDFLAG global _BG_OLD_ANCHORS global _BG_OLD_ANCHORS_FLAG parameters_changed =\ _BG_STRIP_OLDPARS != [width, niter] or\ _BG_SMOOTH_OLDWIDTH != CONFIG["SmoothingWidth"] or\ _BG_SMOOTH_OLDFLAG != CONFIG["SmoothingFlag"] or\ _BG_OLD_ANCHORS_FLAG != CONFIG["AnchorsFlag"] or\ _BG_OLD_ANCHORS != CONFIG["AnchorsList"] # same parameters if not parameters_changed: # same data if numpy.sum(_BG_STRIP_OLDY == y0) == len(y0): # same result return _BG_STRIP_OLDBG _BG_STRIP_OLDY = y0 _BG_STRIP_OLDPARS = [width, niter] _BG_SMOOTH_OLDWIDTH = CONFIG["SmoothingWidth"] _BG_SMOOTH_OLDFLAG = CONFIG["SmoothingFlag"] _BG_OLD_ANCHORS = CONFIG["AnchorsList"] _BG_OLD_ANCHORS_FLAG = CONFIG["AnchorsFlag"] y1 = savitsky_golay(y0, CONFIG["SmoothingWidth"]) if CONFIG["SmoothingFlag"] else y0 anchors_indices = _convert_anchors_to_indices(x) background = strip(y1, w=width, niterations=niter, factor=CONFIG["StripThresholdFactor"], anchors=anchors_indices) _BG_STRIP_OLDBG = background return background def snip_bg(x, y0, width): """Compute the snip bg for y0""" global _BG_SNIP_OLDY global _BG_SNIP_OLDWIDTH global _BG_SNIP_OLDBG global _BG_SMOOTH_OLDWIDTH global _BG_SMOOTH_OLDFLAG global _BG_OLD_ANCHORS global _BG_OLD_ANCHORS_FLAG parameters_changed =\ _BG_SNIP_OLDWIDTH != width or\ _BG_SMOOTH_OLDWIDTH != CONFIG["SmoothingWidth"] or\ _BG_SMOOTH_OLDFLAG != CONFIG["SmoothingFlag"] or\ _BG_OLD_ANCHORS_FLAG != CONFIG["AnchorsFlag"] or\ _BG_OLD_ANCHORS != CONFIG["AnchorsList"] # same parameters if not parameters_changed: # same data if numpy.sum(_BG_SNIP_OLDY == y0) == len(y0): # same result return _BG_SNIP_OLDBG _BG_SNIP_OLDY = y0 _BG_SNIP_OLDWIDTH = width _BG_SMOOTH_OLDWIDTH = CONFIG["SmoothingWidth"] _BG_SMOOTH_OLDFLAG = CONFIG["SmoothingFlag"] _BG_OLD_ANCHORS = CONFIG["AnchorsList"] _BG_OLD_ANCHORS_FLAG = CONFIG["AnchorsFlag"] y1 = savitsky_golay(y0, CONFIG["SmoothingWidth"]) if CONFIG["SmoothingFlag"] else y0 anchors_indices = _convert_anchors_to_indices(x) if anchors_indices is None or not len(anchors_indices): anchors_indices = [0, len(y1) - 1] background = numpy.zeros_like(y1) previous_anchor = 0 for anchor_index in anchors_indices: if (anchor_index > previous_anchor) and (anchor_index < len(y1)): background[previous_anchor:anchor_index] =\ snip1d(y1[previous_anchor:anchor_index], width) previous_anchor = anchor_index if previous_anchor < len(y1): background[previous_anchor:] = snip1d(y1[previous_anchor:], width) _BG_SNIP_OLDBG = background return background def estimate_linear(x, y): """ Estimate the linear parameters (constant, slope) of a y signal. Strip peaks, then perform a linear regression. """ bg = strip_bg(x, y, width=CONFIG["StripWidth"], niter=CONFIG["StripIterations"]) n = float(len(bg)) Sy = numpy.sum(bg) Sx = float(numpy.sum(x)) Sxx = float(numpy.sum(x * x)) Sxy = float(numpy.sum(x * bg)) deno = n * Sxx - (Sx * Sx) if deno != 0: bg = (Sxx * Sy - Sx * Sxy) / deno slope = (n * Sxy - Sx * Sy) / deno else: bg = 0.0 slope = 0.0 estimated_par = [bg, slope] # code = 0: FREE constraints = [[0, 0, 0], [0, 0, 0]] return estimated_par, constraints def estimate_strip(x, y): """Estimation function for strip parameters. Return parameters as defined in CONFIG dict, set constraints to FIXED. """ estimated_par = [CONFIG["StripWidth"], CONFIG["StripIterations"]] constraints = numpy.zeros((len(estimated_par), 3), numpy.float) # code = 3: FIXED constraints[0][0] = 3 constraints[1][0] = 3 return estimated_par, constraints def estimate_snip(x, y): """Estimation function for snip parameters. Return parameters as defined in CONFIG dict, set constraints to FIXED. """ estimated_par = [CONFIG["SnipWidth"]] constraints = numpy.zeros((len(estimated_par), 3), numpy.float) # code = 3: FIXED constraints[0][0] = 3 return estimated_par, constraints def poly(x, y, *pars): """Order n polynomial. The order of the polynomial is defined by the number of coefficients (``*pars``). """ p = numpy.poly1d(pars) return p(x) def estimate_poly(x, y, deg=2): """Estimate polynomial coefficients. """ # extract bg signal with strip, to estimate polynomial on background if CONFIG["EstimatePolyOnStrip"]: y = strip_bg(x, y, CONFIG["StripWidth"], CONFIG["StripIterations"]) pcoeffs = numpy.polyfit(x, y, deg) cons = numpy.zeros((deg + 1, 3), numpy.float) return pcoeffs, cons def estimate_quadratic_poly(x, y): """Estimate quadratic polynomial coefficients. """ return estimate_poly(x, y, deg=2) def estimate_cubic_poly(x, y): """Estimate cubic polynomial coefficients. """ return estimate_poly(x, y, deg=3) def estimate_quartic_poly(x, y): """Estimate degree 4 polynomial coefficients. """ return estimate_poly(x, y, deg=4) def estimate_quintic_poly(x, y): """Estimate degree 5 polynomial coefficients. """ return estimate_poly(x, y, deg=5) def configure(**kw): """Update the CONFIG dict """ # inspect **kw to find known keys, update them in CONFIG for key in CONFIG: if key in kw: CONFIG[key] = kw[key] return CONFIG THEORY = OrderedDict( (('No Background', FitTheory( description="No background function", function=lambda x, y0: numpy.zeros_like(x), parameters=[], is_background=True)), ('Constant', FitTheory( description='Constant background', function=lambda x, y0, c: c * numpy.ones_like(x), parameters=['Constant', ], estimate=lambda x, y: ([min(y)], [[0, 0, 0]]), is_background=True)), ('Linear', FitTheory( description="Linear background, parameters 'Constant' and" " 'Slope'", function=lambda x, y0, a, b: a + b * x, parameters=['Constant', 'Slope'], estimate=estimate_linear, configure=configure, is_background=True)), ('Strip', FitTheory( description="Compute background using a strip filter\n" "Parameters 'StripWidth', 'StripIterations'", function=strip_bg, parameters=['StripWidth', 'StripIterations'], estimate=estimate_strip, configure=configure, is_background=True)), ('Snip', FitTheory( description="Compute background using a snip filter\n" "Parameter 'SnipWidth'", function=snip_bg, parameters=['SnipWidth'], estimate=estimate_snip, configure=configure, is_background=True)), ('Degree 2 Polynomial', FitTheory( description="Quadratic polynomial background, Parameters " "'a', 'b' and 'c'\ny = a*x^2 + b*x +c", function=poly, parameters=['a', 'b', 'c'], estimate=estimate_quadratic_poly, configure=configure, is_background=True)), ('Degree 3 Polynomial', FitTheory( description="Cubic polynomial background, Parameters " "'a', 'b', 'c' and 'd'\n" "y = a*x^3 + b*x^2 + c*x + d", function=poly, parameters=['a', 'b', 'c', 'd'], estimate=estimate_cubic_poly, configure=configure, is_background=True)), ('Degree 4 Polynomial', FitTheory( description="Quartic polynomial background\n" "y = a*x^4 + b*x^3 + c*x^2 + d*x + e", function=poly, parameters=['a', 'b', 'c', 'd', 'e'], estimate=estimate_quartic_poly, configure=configure, is_background=True)), ('Degree 5 Polynomial', FitTheory( description="Quaintic polynomial background\n" "y = a*x^5 + b*x^4 + c*x^3 + d*x^2 + e*x + f", function=poly, parameters=['a', 'b', 'c', 'd', 'e', 'f'], estimate=estimate_quintic_poly, configure=configure, is_background=True)))) silx-0.6.1/silx/math/fit/functions.c0000644023630100076410000453163513202530432020022 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [ "silx/math/fit/functions/include/functions.h" ], "include_dirs": [ "silx/math/fit/functions/include", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c" }, "module_name": "silx.math.fit.functions" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || 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CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef 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#else #define __Pyx_PyFunction_FastCallDict(func, args, nargs, kwargs) _PyFunction_FastCallDict(func, args, nargs, kwargs) #endif #endif /* PyObjectCall.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif /* PyObjectCallMethO.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg); #endif /* PyObjectCallOneArg.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\ PyObject_RichCompare(op1, op2, Py_EQ) #endif /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* RaiseException.proto */ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /* BufferIndexError.proto */ static void __Pyx_RaiseBufferIndexError(int axis); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* RaiseDoubleKeywords.proto */ static void __Pyx_RaiseDoubleKeywordsError(const char* func_name, PyObject* kw_name); /* ParseKeywords.proto */ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[],\ PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args,\ const char* function_name); /* RaiseArgTupleInvalid.proto */ static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* PyFloatBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyFloat_AddCObj(PyObject *op1, PyObject *op2, double floatval, int inplace); #else #define __Pyx_PyFloat_AddCObj(op1, op2, floatval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* ArgTypeTest.proto */ static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /* IncludeStringH.proto */ #include /* BytesEquals.proto */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals); /* UnicodeEquals.proto */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals); /* StrEquals.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Equals __Pyx_PyUnicode_Equals #else #define __Pyx_PyString_Equals __Pyx_PyBytes_Equals #endif /* None.proto */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t, Py_ssize_t); /* UnaryNegOverflows.proto */ #define UNARY_NEG_WOULD_OVERFLOW(x)\ (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *); /*proto*/ /* GetAttr.proto */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_double(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_double(const char *itemp, PyObject *obj); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'silx.math.fit.functions_wrapper' */ /* Module declarations from 'silx.math.fit.functions' */ static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; #define __Pyx_MODULE_NAME "silx.math.fit.functions" int __pyx_module_is_main_silx__math__fit__functions = 0; /* Implementation of 'silx.math.fit.functions' */ static PyObject *__pyx_builtin_IndexError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_id; static const char __pyx_k_C[] = "C"; static const char __pyx_k_O[] = "O"; static const char __pyx_k_a[] = "a"; static const char __pyx_k_b[] = "b"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_i[] = "i"; static const char __pyx_k_x[] = "x"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_pi[] = "pi"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_erf[] = "erf"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_x_c[] = "x_c"; static const char __pyx_k_y_c[] = "y_c"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_copy[] = "copy"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_erfc[] = "erfc"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_pars[] = "pars"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_empty[] = "empty"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_float[] = "float"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_order[] = "order"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_zeros[] = "zeros"; static const char __pyx_k_arctan[] = "arctan"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_logger[] = "_logger"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_params[] = "params"; static const char __pyx_k_status[] = "status"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_asarray[] = "asarray"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_float64[] = "float64"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_len_dim[] = "len_dim"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_logging[] = "logging"; static const char __pyx_k_lt_term[] = "lt_term"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_newpars[] = "newpars"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_st_term[] = "st_term"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_P_Knobel[] = "P. Knobel"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_params_c[] = "params_c"; static const char __pyx_k_sum_slit[] = "sum_slit"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_getLogger[] = "getLogger"; static const char __pyx_k_step_term[] = "step_term"; static const char __pyx_k_sum_gauss[] = "sum_gauss"; static const char __pyx_k_16_08_2017[] = "16/08/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_sum_agauss[] = "sum_agauss"; static const char __pyx_k_sum_pvoigt[] = "sum_pvoigt"; static const char __pyx_k_sum_stepup[] = "sum_stepup"; static const char __pyx_k_tail_flags[] = "tail_flags"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_atan_stepup[] = "atan_stepup"; static const char __pyx_k_sum_apvoigt[] = "sum_apvoigt"; static const char __pyx_k_sum_lorentz[] = "sum_lorentz"; static const char __pyx_k_sum_alorentz[] = "sum_alorentz"; static const char __pyx_k_sum_stepdown[] = "sum_stepdown"; static const char __pyx_k_gaussian_term[] = "gaussian_term"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_sum_ahypermet[] = "sum_ahypermet"; static const char __pyx_k_periodic_gauss[] = "periodic_gauss"; static const char __pyx_k_sum_fastagauss[] = "sum_fastagauss"; static const char __pyx_k_sum_splitgauss[] = "sum_splitgauss"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_sum_splitpvoigt[] = "sum_splitpvoigt"; static const char __pyx_k_sum_splitlorentz[] = "sum_splitlorentz"; static const char __pyx_k_sum_fastahypermet[] = "sum_fastahypermet"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_No_parameters_specified[] = "No parameters specified. "; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_silx_math_fit_functions[] = "silx.math.fit.functions"; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_Cannot_compute_erf_for_an_empty[] = "Cannot compute erf for an empty array"; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/math/fit/functions.pyx"; static const char __pyx_k_At_least_3_parameters_are_requir[] = "At least 3 parameters are required."; static const char __pyx_k_At_least_4_parameters_are_requir[] = "At least 4 parameters are required."; static const char __pyx_k_At_least_5_parameters_are_requir[] = "At least 5 parameters are required."; static const char __pyx_k_At_least_8_parameters_are_requir[] = "At least 8 parameters are required."; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Cannot_compute_erfc_for_an_empty[] = "Cannot compute erfc for an empty array"; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_No_gaussian_parameters_specified[] = "No gaussian parameters specified. "; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_This_module_provides_fit_functio[] = "This module provides fit functions.\n\nList of fit functions:\n-----------------------\n\n - :func:`sum_gauss`\n - :func:`sum_agauss`\n - :func:`sum_splitgauss`\n - :func:`sum_fastagauss`\n\n - :func:`sum_apvoigt`\n - :func:`sum_pvoigt`\n - :func:`sum_splitpvoigt`\n\n - :func:`sum_lorentz`\n - :func:`sum_alorentz`\n - :func:`sum_splitlorentz`\n\n - :func:`sum_stepdown`\n - :func:`sum_stepup`\n - :func:`sum_slit`\n\n - :func:`sum_ahypermet`\n - :func:`sum_fastahypermet`\n\nFull documentation:\n-------------------\n\n"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_Wrong_number_of_parameters_for_f[] = "Wrong number of parameters for function"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static PyObject *__pyx_kp_s_16_08_2017; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_At_least_3_parameters_are_requir; static PyObject *__pyx_kp_s_At_least_4_parameters_are_requir; static PyObject *__pyx_kp_s_At_least_5_parameters_are_requir; static PyObject *__pyx_kp_s_At_least_8_parameters_are_requir; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_n_s_C; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_compute_erf_for_an_empty; static PyObject *__pyx_kp_s_Cannot_compute_erfc_for_an_empty; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_kp_s_No_gaussian_parameters_specified; static PyObject *__pyx_kp_s_No_parameters_specified; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_P_Knobel; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_kp_s_Wrong_number_of_parameters_for_f; static PyObject *__pyx_n_s_a; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_arctan; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_asarray; static PyObject *__pyx_n_s_atan_stepup; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_b; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_class; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_copy; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_empty; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_erf; static PyObject *__pyx_n_s_erfc; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float; static PyObject *__pyx_n_s_float64; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_n_s_gaussian_term; static PyObject *__pyx_n_s_getLogger; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_i; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_len_dim; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_logger; static PyObject *__pyx_n_s_logging; static PyObject *__pyx_n_s_lt_term; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_newpars; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_order; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_params; static PyObject *__pyx_n_s_params_c; static PyObject *__pyx_n_s_pars; static PyObject *__pyx_n_s_periodic_gauss; static PyObject *__pyx_n_s_pi; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_silx_math_fit_functions; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_st_term; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_status; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_step_term; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_sum_agauss; static PyObject *__pyx_n_s_sum_ahypermet; static PyObject *__pyx_n_s_sum_alorentz; static PyObject *__pyx_n_s_sum_apvoigt; static PyObject *__pyx_n_s_sum_fastagauss; static PyObject *__pyx_n_s_sum_fastahypermet; static PyObject *__pyx_n_s_sum_gauss; static PyObject *__pyx_n_s_sum_lorentz; static PyObject *__pyx_n_s_sum_pvoigt; static PyObject *__pyx_n_s_sum_slit; static PyObject *__pyx_n_s_sum_splitgauss; static PyObject *__pyx_n_s_sum_splitlorentz; static PyObject *__pyx_n_s_sum_splitpvoigt; static PyObject *__pyx_n_s_sum_stepdown; 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/* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_8sum_fastagauss(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_10sum_splitgauss(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_12sum_apvoigt(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_14sum_pvoigt(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_16sum_splitpvoigt(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_18sum_lorentz(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_9functions_20sum_alorentz(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_params); 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"View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1094 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ } /* "View.MemoryView":1096 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ /*else*/ { __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1104 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1105 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1107 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t 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__pyx_memoryview_refcount_objects_in_slice(__pyx_v_data, __pyx_v_shape, __pyx_v_strides, __pyx_v_ndim, __pyx_v_inc); /* "View.MemoryView":1355 * * @cname('__pyx_memoryview_refcount_objects_in_slice_with_gil') * cdef void refcount_objects_in_slice_with_gil(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * bint inc) with gil: */ /* function exit code */ __Pyx_RefNannyFinishContext(); #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif } /* "View.MemoryView":1361 * * @cname('__pyx_memoryview_refcount_objects_in_slice') * cdef void refcount_objects_in_slice(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, bint inc): * cdef Py_ssize_t i */ static void __pyx_memoryview_refcount_objects_in_slice(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, int __pyx_v_inc) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; __Pyx_RefNannyDeclarations Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; 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__pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef Py_ssize_t extent = shape[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_extent = (__pyx_v_shape[0]); /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1399 * * if ndim == 1: * for i in range(extent): # <<<<<<<<<<<<<< * memcpy(data, item, itemsize) * data += stride */ __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1400 * if ndim == 1: * for i in range(extent): * memcpy(data, item, itemsize) # <<<<<<<<<<<<<< * data += stride * else: */ memcpy(__pyx_v_data, __pyx_v_item, __pyx_v_itemsize); /* "View.MemoryView":1401 * for i in range(extent): * memcpy(data, item, itemsize) * data += stride # <<<<<<<<<<<<<< * else: * for i in range(extent): */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, 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Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /* function exit code */ } static struct __pyx_vtabstruct_array __pyx_vtable_array; static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_array_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_array_obj *)o); p->__pyx_vtab = __pyx_vtabptr_array; p->mode = ((PyObject*)Py_None); Py_INCREF(Py_None); p->_format = ((PyObject*)Py_None); Py_INCREF(Py_None); if (unlikely(__pyx_array___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_array(PyObject *o) { struct __pyx_array_obj *p = (struct __pyx_array_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_array___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->mode); Py_CLEAR(p->_format); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_array(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_array(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_array___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_tp_getattro_array(PyObject *o, PyObject *n) { PyObject *v = PyObject_GenericGetAttr(o, n); if (!v && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Clear(); v = __pyx_array___getattr__(o, n); } return v; } static PyObject *__pyx_getprop___pyx_array_memview(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_5array_7memview_1__get__(o); } static PyMethodDef __pyx_methods_array[] = { {"__getattr__", (PyCFunction)__pyx_array___getattr__, METH_O|METH_COEXIST, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_array[] = { {(char *)"memview", __pyx_getprop___pyx_array_memview, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_array = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_array, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_array = { 0, /*mp_length*/ __pyx_array___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.functions.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.functions.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4base_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_5shape_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_strides(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_7strides_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_suboffsets(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_10suboffsets_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_ndim(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4ndim_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_itemsize(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_8itemsize_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_nbytes(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_6nbytes_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_size(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4size_1__get__(o); } static PyMethodDef __pyx_methods_memoryview[] = { {"is_c_contig", (PyCFunction)__pyx_memoryview_is_c_contig, METH_NOARGS, 0}, {"is_f_contig", (PyCFunction)__pyx_memoryview_is_f_contig, METH_NOARGS, 0}, {"copy", (PyCFunction)__pyx_memoryview_copy, METH_NOARGS, 0}, {"copy_fortran", (PyCFunction)__pyx_memoryview_copy_fortran, METH_NOARGS, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_memoryview[] = { {(char *)"T", __pyx_getprop___pyx_memoryview_T, 0, (char *)0, 0}, {(char *)"base", __pyx_getprop___pyx_memoryview_base, 0, (char *)0, 0}, {(char *)"shape", __pyx_getprop___pyx_memoryview_shape, 0, (char *)0, 0}, {(char *)"strides", __pyx_getprop___pyx_memoryview_strides, 0, (char *)0, 0}, {(char *)"suboffsets", __pyx_getprop___pyx_memoryview_suboffsets, 0, (char *)0, 0}, {(char *)"ndim", __pyx_getprop___pyx_memoryview_ndim, 0, (char *)0, 0}, {(char *)"itemsize", __pyx_getprop___pyx_memoryview_itemsize, 0, (char *)0, 0}, {(char *)"nbytes", __pyx_getprop___pyx_memoryview_nbytes, 0, (char *)0, 0}, {(char *)"size", __pyx_getprop___pyx_memoryview_size, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_memoryview = { __pyx_memoryview___len__, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_memoryview, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_memoryview = { __pyx_memoryview___len__, /*mp_length*/ __pyx_memoryview___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_memoryview, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_memoryview = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_memoryview_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_memoryview = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.functions.memoryview", /*tp_name*/ sizeof(struct __pyx_memoryview_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_memoryview, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_memoryview___repr__, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_memoryview, /*tp_as_sequence*/ &__pyx_tp_as_mapping_memoryview, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ __pyx_memoryview___str__, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_memoryview, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_memoryview, /*tp_traverse*/ __pyx_tp_clear_memoryview, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_memoryview, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_memoryview, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_memoryview, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct__memoryviewslice __pyx_vtable__memoryviewslice; static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryviewslice_obj *p; PyObject *o = __pyx_tp_new_memoryview(t, a, k); if (unlikely(!o)) return 0; p = ((struct __pyx_memoryviewslice_obj *)o); p->__pyx_base.__pyx_vtab = (struct __pyx_vtabstruct_memoryview*)__pyx_vtabptr__memoryviewslice; p->from_object = Py_None; Py_INCREF(Py_None); p->from_slice.memview = NULL; return o; } static void __pyx_tp_dealloc__memoryviewslice(PyObject *o) { struct __pyx_memoryviewslice_obj *p = (struct __pyx_memoryviewslice_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, 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result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; 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Py_DECREF(args); return result; } #endif /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { if (op1 == op2) { Py_RETURN_TRUE; } #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long a = PyInt_AS_LONG(op1); if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a; const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15 default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ); #else default: Py_RETURN_FALSE; #endif } } if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); if ((double)a == (double)b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } return PyObject_RichCompare(op1, op2, Py_EQ); } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* BufferIndexError */ static void __Pyx_RaiseBufferIndexError(int axis) { PyErr_Format(PyExc_IndexError, "Out of bounds on buffer access (axis %d)", axis); } /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* RaiseDoubleKeywords */ static void __Pyx_RaiseDoubleKeywordsError( const char* func_name, PyObject* kw_name) { PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION >= 3 "%s() got multiple values for keyword argument '%U'", func_name, kw_name); #else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* RaiseArgTupleInvalid */ static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found) { Py_ssize_t num_expected; const char *more_or_less; if (num_found < num_min) { num_expected = num_min; more_or_less = "at least"; } else { num_expected = num_max; more_or_less = "at most"; } if (exact) { more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* PyFloatBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyFloat_AddCObj(PyObject *op1, PyObject *op2, double floatval, CYTHON_UNUSED int inplace) { const double a = floatval; double b, result; if (likely(PyFloat_CheckExact(op2))) { b = PyFloat_AS_DOUBLE(op2); } else #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op2))) { b = (double) PyInt_AS_LONG(op2); } else #endif if (likely(PyLong_CheckExact(op2))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)op2)->ob_digit; const Py_ssize_t size = Py_SIZE(op2); switch (size) { case 0: b = 0.0; break; case -1: b = -(double) digits[0]; break; case 1: b = (double) digits[0]; break; case -2: case 2: if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT && ((8 * sizeof(unsigned long) < 53) || (1 * PyLong_SHIFT < 53))) { b = (double) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); if ((8 * sizeof(unsigned long) < 53) || (2 * PyLong_SHIFT < 53) || (b < (double) (1L<<53))) { if (size == -2) b = -b; break; } } case -3: case 3: if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT && ((8 * sizeof(unsigned long) < 53) || (2 * PyLong_SHIFT < 53))) { b = (double) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); if ((8 * sizeof(unsigned long) < 53) || (3 * PyLong_SHIFT < 53) || (b < (double) (1L<<53))) { if (size == -3) b = -b; break; } } case -4: case 4: if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT && ((8 * sizeof(unsigned long) < 53) || (3 * PyLong_SHIFT < 53))) { b = (double) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); if ((8 * sizeof(unsigned long) < 53) || (4 * PyLong_SHIFT < 53) || (b < (double) (1L<<53))) { if (size == -4) b = -b; break; } } default: #else { #endif b = PyLong_AsDouble(op2); if (unlikely(b == -1.0 && PyErr_Occurred())) return NULL; } } else { return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } PyFPE_START_PROTECT("add", return NULL) result = a + b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } #endif /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_double(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(double *) itemp); } static CYTHON_INLINE int __pyx_memview_set_double(const char *itemp, PyObject *obj) { double value = __pyx_PyFloat_AsDouble(obj); if ((value == (double)-1) && PyErr_Occurred()) return 0; *(double *) itemp = value; return 1; } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; 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"s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); 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} #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/fit/__init__.py0000644023630100076410000000320413202530306017735 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "22/06/2016" from .leastsq import leastsq, chisq_alpha_beta from .leastsq import \ CFREE, CPOSITIVE, CQUOTED, CFIXED, \ CFACTOR, CDELTA, CSUM from .functions import * from .filters import * from .peaks import peak_search, guess_fwhm from .fitmanager import FitManager from .fittheory import FitTheory silx-0.6.1/silx/math/fit/functions.pyx0000644023630100076410000010334113202530432020401 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ """This module provides fit functions. List of fit functions: ----------------------- - :func:`sum_gauss` - :func:`sum_agauss` - :func:`sum_splitgauss` - :func:`sum_fastagauss` - :func:`sum_apvoigt` - :func:`sum_pvoigt` - :func:`sum_splitpvoigt` - :func:`sum_lorentz` - :func:`sum_alorentz` - :func:`sum_splitlorentz` - :func:`sum_stepdown` - :func:`sum_stepup` - :func:`sum_slit` - :func:`sum_ahypermet` - :func:`sum_fastahypermet` Full documentation: ------------------- """ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "16/08/2017" import logging import numpy _logger = logging.getLogger(__name__) cimport cython cimport functions_wrapper def erf(x): """Return the gaussian error function :param x: Independent variable where the gaussian error function is calculated :type x: numpy.ndarray or scalar :return: Gaussian error function ``y=erf(x)`` :raise: IndexError if ``x`` is an empty array """ cdef: double[::1] x_c double[::1] y_c # force list into numpy array if not hasattr(x, "shape"): x = numpy.asarray(x) for len_dim in x.shape: if len_dim == 0: raise IndexError("Cannot compute erf for an empty array") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x_c.size,), dtype=numpy.float64) status = functions_wrapper.erf_array(&x_c[0], x_c.size, &y_c[0]) return numpy.asarray(y_c).reshape(x.shape) def erfc(x): """Return the gaussian complementary error function :param x: Independent variable where the gaussian complementary error function is calculated :type x: numpy.ndarray or scalar :return: Gaussian complementary error function ``y=erfc(x)`` :type rtype: numpy.ndarray :raise: IndexError if ``x`` is an empty array """ cdef: double[::1] x_c double[::1] y_c # force list into numpy array if not hasattr(x, "shape"): x = numpy.asarray(x) for len_dim in x.shape: if len_dim == 0: raise IndexError("Cannot compute erfc for an empty array") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x_c.size,), dtype=numpy.float64) status = functions_wrapper.erfc_array(&x_c[0], x_c.size, &y_c[0]) return numpy.asarray(y_c).reshape(x.shape) def sum_gauss(x, *params): """Return a sum of gaussian functions defined by *(height, centroid, fwhm)*, where: - *height* is the peak amplitude - *centroid* is the peak x-coordinate - *fwhm* is the full-width at half maximum :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of gaussian parameters (length must be a multiple of 3): *(height1, centroid1, fwhm1, height2, centroid2, fwhm2,...)* :return: Array of sum of gaussian functions at each ``x`` coordinate. """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No gaussian parameters specified. " + "At least 3 parameters are required.") # ensure float64 (double) type and 1D contiguous data layout in memory x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_gauss( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") # reshape y_c to match original, possibly unusual, data shape return numpy.asarray(y_c).reshape(x.shape) def sum_agauss(x, *params): """Return a sum of gaussian functions defined by *(area, centroid, fwhm)*, where: - *area* is the area underneath the peak - *centroid* is the peak x-coordinate - *fwhm* is the full-width at half maximum :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of gaussian parameters (length must be a multiple of 3): *(area1, centroid1, fwhm1, area2, centroid2, fwhm2,...)* :return: Array of sum of gaussian functions at each ``x`` coordinate. """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No gaussian parameters specified. " + "At least 3 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_agauss( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_fastagauss(x, *params): """Return a sum of gaussian functions defined by *(area, centroid, fwhm)*, where: - *area* is the area underneath the peak - *centroid* is the peak x-coordinate - *fwhm* is the full-width at half maximum This implementation differs from :func:`sum_agauss` by the usage of a lookup table with precalculated exponential values. This might speed up the computation for large numbers of individual gaussian functions. :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of gaussian parameters (length must be a multiple of 3): *(area1, centroid1, fwhm1, area2, centroid2, fwhm2,...)* :return: Array of sum of gaussian functions at each ``x`` coordinate. """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No gaussian parameters specified. " + "At least 3 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_fastagauss( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_splitgauss(x, *params): """Return a sum of gaussian functions defined by *(area, centroid, fwhm1, fwhm2)*, where: - *height* is the peak amplitude - *centroid* is the peak x-coordinate - *fwhm1* is the full-width at half maximum for the distribution when ``x < centroid`` - *fwhm2* is the full-width at half maximum for the distribution when ``x > centroid`` :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of gaussian parameters (length must be a multiple of 4): *(height1, centroid1, fwhm11, fwhm21, height2, centroid2, fwhm12, fwhm22,...)* :return: Array of sum of split gaussian functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No gaussian parameters specified. " + "At least 4 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_splitgauss( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_apvoigt(x, *params): """Return a sum of pseudo-Voigt functions, defined by *(area, centroid, fwhm, eta)*. The pseudo-Voigt profile ``PV(x)`` is an approximation of the Voigt profile using a linear combination of a Gaussian curve ``G(x)`` and a Lorentzian curve ``L(x)`` instead of their convolution. - *area* is the area underneath both G(x) and L(x) - *centroid* is the peak x-coordinate for both functions - *fwhm* is the full-width at half maximum of both functions - *eta* is the Lorentz factor: PV(x) = eta * L(x) + (1 - eta) * G(x) :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of pseudo-Voigt parameters (length must be a multiple of 4): *(area1, centroid1, fwhm1, eta1, area2, centroid2, fwhm2, eta2,...)* :return: Array of sum of pseudo-Voigt functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 4 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_apvoigt( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_pvoigt(x, *params): """Return a sum of pseudo-Voigt functions, defined by *(height, centroid, fwhm, eta)*. The pseudo-Voigt profile ``PV(x)`` is an approximation of the Voigt profile using a linear combination of a Gaussian curve ``G(x)`` and a Lorentzian curve ``L(x)`` instead of their convolution. - *height* is the peak amplitude of G(x) and L(x) - *centroid* is the peak x-coordinate for both functions - *fwhm* is the full-width at half maximum of both functions - *eta* is the Lorentz factor: PV(x) = eta * L(x) + (1 - eta) * G(x) :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of pseudo-Voigt parameters (length must be a multiple of 4): *(height1, centroid1, fwhm1, eta1, height2, centroid2, fwhm2, eta2,...)* :return: Array of sum of pseudo-Voigt functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 4 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_pvoigt( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_splitpvoigt(x, *params): """Return a sum of split pseudo-Voigt functions, defined by *(height, centroid, fwhm1, fwhm2, eta)*. The pseudo-Voigt profile ``PV(x)`` is an approximation of the Voigt profile using a linear combination of a Gaussian curve ``G(x)`` and a Lorentzian curve ``L(x)`` instead of their convolution. - *height* is the peak amplitudefor G(x) and L(x) - *centroid* is the peak x-coordinate for both functions - *fwhm1* is the full-width at half maximum of both functions when ``x < centroid`` - *fwhm2* is the full-width at half maximum of both functions when ``x > centroid`` - *eta* is the Lorentz factor: PV(x) = eta * L(x) + (1 - eta) * G(x) :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of pseudo-Voigt parameters (length must be a multiple of 5): *(height1, centroid1, fwhm11, fwhm21, eta1,...)* :return: Array of sum of split pseudo-Voigt functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 5 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_splitpvoigt( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_lorentz(x, *params): """Return a sum of Lorentz distributions, also known as Cauchy distribution, defined by *(height, centroid, fwhm)*. - *height* is the peak amplitude - *centroid* is the peak x-coordinate - *fwhm* is the full-width at half maximum :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of Lorentz parameters (length must be a multiple of 3): *(height1, centroid1, fwhm1,...)* :return: Array of sum Lorentz functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 3 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_lorentz( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_alorentz(x, *params): """Return a sum of Lorentz distributions, also known as Cauchy distribution, defined by *(area, centroid, fwhm)*. - *area* is the area underneath the peak - *centroid* is the peak x-coordinate for both functions - *fwhm* is the full-width at half maximum :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of Lorentz parameters (length must be a multiple of 3): *(area1, centroid1, fwhm1,...)* :return: Array of sum of Lorentz functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 3 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_alorentz( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_splitlorentz(x, *params): """Return a sum of split Lorentz distributions, defined by *(height, centroid, fwhm1, fwhm2)*. - *height* is the peak amplitude - *centroid* is the peak x-coordinate for both functions - *fwhm1* is the full-width at half maximum for ``x < centroid`` - *fwhm2* is the full-width at half maximum for ``x > centroid`` :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of Lorentz parameters (length must be a multiple of 4): *(height1, centroid1, fwhm11, fwhm21...)* :return: Array of sum of Lorentz functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 4 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_splitlorentz( &x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_stepdown(x, *params): """Return a sum of stepdown functions. defined by *(height, centroid, fwhm)*. - *height* is the step's amplitude - *centroid* is the step's x-coordinate - *fwhm* is the full-width at half maximum for the derivative, which is a measure of the *sharpness* of the step-down's edge :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of stepdown parameters (length must be a multiple of 3): *(height1, centroid1, fwhm1,...)* :return: Array of sum of stepdown functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 3 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_stepdown(&x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_stepup(x, *params): """Return a sum of stepup functions. defined by *(height, centroid, fwhm)*. - *height* is the step's amplitude - *centroid* is the step's x-coordinate - *fwhm* is the full-width at half maximum for the derivative, which is a measure of the *sharpness* of the step-up's edge :param x: Independent variable where the gaussians are calculated :type x: numpy.ndarray :param params: Array of stepup parameters (length must be a multiple of 3): *(height1, centroid1, fwhm1,...)* :return: Array of sum of stepup functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 3 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_stepup(&x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_slit(x, *params): """Return a sum of slit functions. defined by *(height, position, fwhm, beamfwhm)*. - *height* is the slit's amplitude - *position* is the center of the slit's x-coordinate - *fwhm* is the full-width at half maximum of the slit - *beamfwhm* is the full-width at half maximum of the derivative, which is a measure of the *sharpness* of the edges of the slit :param x: Independent variable where the slits are calculated :type x: numpy.ndarray :param params: Array of slit parameters (length must be a multiple of 4): *(height1, centroid1, fwhm1, beamfwhm1,...)* :return: Array of sum of slit functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 4 parameters are required.") x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_slit(&x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0]) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_ahypermet(x, *params, gaussian_term=True, st_term=True, lt_term=True, step_term=True): """Return a sum of ahypermet functions. defined by *(area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r)*. - *area* is the area underneath the gaussian peak - *position* is the center of the various peaks and the position of the step down - *fwhm* is the full-width at half maximum of the terms - *st_area_r* is factor between the gaussian area and the area of the short tail term - *st_slope_r* is a ratio related to the slope of the short tail in the low ``x`` values (the lower, the steeper) - *lt_area_r* is ratio between the gaussian area and the area of the long tail term - *lt_slope_r* is a ratio related to the slope of the long tail in the low ``x`` values (the lower, the steeper) - *step_height_r* is the ratio between the height of the step down and the gaussian height A hypermet function is a sum of four functions (terms): - a gaussian term - a long tail term - a short tail term - a step down term :param x: Independent variable where the hypermets are calculated :type x: numpy.ndarray :param params: Array of hypermet parameters (length must be a multiple of 8): *(area1, position1, fwhm1, st_area_r1, st_slope_r1, lt_area_r1, lt_slope_r1, step_height_r1...)* :param gaussian_term: If ``True``, enable gaussian term. Default ``True`` :param st_term: If ``True``, enable gaussian term. Default ``True`` :param lt_term: If ``True``, enable gaussian term. Default ``True`` :param step_term: If ``True``, enable gaussian term. Default ``True`` :return: Array of sum of hypermet functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 8 parameters are required.") # Sum binary flags to activate various terms of the equation tail_flags = 1 if gaussian_term else 0 if st_term: tail_flags += 2 if lt_term: tail_flags += 4 if step_term: tail_flags += 8 x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_ahypermet(&x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0], tail_flags) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def sum_fastahypermet(x, *params, gaussian_term=True, st_term=True, lt_term=True, step_term=True): """Return a sum of hypermet functions defined by *(area, position, fwhm, st_area_r, st_slope_r, lt_area_r, lt_slope_r, step_height_r)*. - *area* is the area underneath the gaussian peak - *position* is the center of the various peaks and the position of the step down - *fwhm* is the full-width at half maximum of the terms - *st_area_r* is factor between the gaussian area and the area of the short tail term - *st_slope_r* is a parameter related to the slope of the short tail in the low ``x`` values (the lower, the steeper) - *lt_area_r* is factor between the gaussian area and the area of the long tail term - *lt_slope_r* is a parameter related to the slope of the long tail in the low ``x`` values (the lower, the steeper) - *step_height_r* is the factor between the height of the step down and the gaussian height A hypermet function is a sum of four functions (terms): - a gaussian term - a long tail term - a short tail term - a step down term This function differs from :func:`sum_ahypermet` by the use of a lookup table for calculating exponentials. This offers better performance when calculating many functions for large ``x`` arrays. :param x: Independent variable where the hypermets are calculated :type x: numpy.ndarray :param params: Array of hypermet parameters (length must be a multiple of 8): *(area1, position1, fwhm1, st_area_r1, st_slope_r1, lt_area_r1, lt_slope_r1, step_height_r1...)* :param gaussian_term: If ``True``, enable gaussian term. Default ``True`` :param st_term: If ``True``, enable gaussian term. Default ``True`` :param lt_term: If ``True``, enable gaussian term. Default ``True`` :param step_term: If ``True``, enable gaussian term. Default ``True`` :return: Array of sum of hypermet functions at each ``x`` coordinate """ cdef: double[::1] x_c double[::1] params_c double[::1] y_c if not len(params): raise IndexError("No parameters specified. " + "At least 8 parameters are required.") # Sum binary flags to activate various terms of the equation tail_flags = 1 if gaussian_term else 0 if st_term: tail_flags += 2 if lt_term: tail_flags += 4 if step_term: tail_flags += 8 # TODO (maybe): # Set flags according to params, to move conditional # branches out of the C code. # E.g., set st_term = False if any of the st_slope_r params # (params[8*i + 4]) is 0, to prevent division by 0. Same thing for # lt_slope_r (params[8*i + 6]) and lt_term. x_c = numpy.array(x, copy=False, dtype=numpy.float64, order='C').reshape(-1) params_c = numpy.array(params, copy=False, dtype=numpy.float64, order='C').reshape(-1) y_c = numpy.empty(shape=(x.size,), dtype=numpy.float64) status = functions_wrapper.sum_fastahypermet(&x_c[0], x.size, ¶ms_c[0], params_c.size, &y_c[0], tail_flags) if status: raise IndexError("Wrong number of parameters for function") return numpy.asarray(y_c).reshape(x.shape) def atan_stepup(x, a, b, c): """ Step up function using an inverse tangent. :param x: Independent variable where the function is calculated :type x: numpy array :param a: Height of the step up :param b: Center of the step up :param c: Parameter related to the slope of the step. A lower ``c`` value yields a sharper step. :return: ``a * (0.5 + (arctan((x - b) / c) / pi))`` :rtype: numpy array """ if not hasattr(x, "shape"): x = numpy.array(x) return a * (0.5 + (numpy.arctan((1.0 * x - b) / c) / numpy.pi)) def periodic_gauss(x, *pars): """ Return a sum of gaussian functions defined by *(npeaks, delta, height, centroid, fwhm)*, where: - *npeaks* is the number of gaussians peaks - *delta* is the constant distance between 2 peaks - *height* is the peak amplitude of all the gaussians - *centroid* is the peak x-coordinate of the first gaussian - *fwhm* is the full-width at half maximum for all the gaussians :param x: Independent variable where the function is calculated :param pars: *(npeaks, delta, height, centroid, fwhm)* :return: Sum of ``npeaks`` gaussians """ if not len(pars): raise IndexError("No parameters specified. " + "At least 5 parameters are required.") newpars = numpy.zeros((pars[0], 3), numpy.float) for i in range(int(pars[0])): newpars[i, 0] = pars[2] newpars[i, 1] = pars[3] + i * pars[1] newpars[:, 2] = pars[4] return sum_gauss(x, newpars) silx-0.6.1/silx/math/fit/leastsq.py0000644023630100076410000011416113202530432017657 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module implements a Levenberg-Marquardt algorithm with constraints on the fitted parameters without introducing any other dependendency than numpy. If scipy dependency is not an issue, and no constraints are applied to the fitting parameters, there is no real gain compared to the use of scipy.optimize.curve_fit other than a more conservative calculation of uncertainties on fitted parameters. This module is a refactored version of PyMca Gefit.py module. """ __authors__ = ["V.A. Sole"] __license__ = "MIT" __date__ = "15/05/2017" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" import numpy from numpy.linalg import inv from numpy.linalg.linalg import LinAlgError import time import logging import copy _logger = logging.getLogger(__name__) # codes understood by the routine CFREE = 0 CPOSITIVE = 1 CQUOTED = 2 CFIXED = 3 CFACTOR = 4 CDELTA = 5 CSUM = 6 CIGNORED = 7 def leastsq(model, xdata, ydata, p0, sigma=None, constraints=None, model_deriv=None, epsfcn=None, deltachi=None, full_output=None, check_finite=True, left_derivative=False, max_iter=100): """ Use non-linear least squares Levenberg-Marquardt algorithm to fit a function, f, to data with optional constraints on the fitted parameters. Assumes ``ydata = f(xdata, *params) + eps`` :param model: callable The model function, f(x, ...). It must take the independent variable as the first argument and the parameters to fit as separate remaining arguments. The returned value is a one dimensional array of floats. :param xdata: An M-length sequence. The independent variable where the data is measured. :param ydata: An M-length sequence The dependent data --- nominally f(xdata, ...) :param p0: N-length sequence Initial guess for the parameters. :param sigma: None or M-length sequence, optional If not None, the uncertainties in the ydata array. These are used as weights in the least-squares problem i.e. minimising ``np.sum( ((f(xdata, *popt) - ydata) / sigma)**2 )`` If None, the uncertainties are assumed to be 1 :param constraints: If provided, it is a 2D sequence of dimension (n_parameters, 3) where, for each parameter denoted by the index i, the meaning is - constraints[i][0] - 0 - Free (CFREE) - 1 - Positive (CPOSITIVE) - 2 - Quoted (CQUOTED) - 3 - Fixed (CFIXED) - 4 - Factor (CFACTOR) - 5 - Delta (CDELTA) - 6 - Sum (CSUM) - constraints[i][1] - Ignored if constraints[i][0] is 0, 1, 3 - Min value of the parameter if constraints[i][0] is CQUOTED - Index of fitted parameter to which it is related - constraints[i][2] - Ignored if constraints[i][0] is 0, 1, 3 - Max value of the parameter if constraints[i][0] is CQUOTED - Factor to apply to related parameter with index constraints[i][1] - Difference with parameter with index constraints[i][1] - Sum obtained when adding parameter with index constraints[i][1] :type constraints: *optional*, None or 2D sequence :param model_deriv: None (default) or function providing the derivatives of the fitting function respect to the fitted parameters. It will be called as model_deriv(xdata, parameters, index) where parameters is a sequence with the current values of the fitting parameters, index is the fitting parameter index for which the the derivative has to be provided in the supplied array of xdata points. :type model_deriv: *optional*, None or callable :param epsfcn: float A variable used in determining a suitable parameter variation when calculating the numerical derivatives (for model_deriv=None). Normally the actual step length will be sqrt(epsfcn)*x Original Gefit module was using epsfcn 1.0e-5 while default value is now numpy.finfo(numpy.float).eps as in scipy :type epsfcn: *optional*, float :param deltachi: float A variable used to control the minimum change in chisq to consider the fitting process not worth to be continued. Default is 0.1 %. :type deltachi: *optional*, float :param full_output: bool, optional non-zero to return all optional outputs. The default is None what will give a warning in case of a constrained fit without having set this kweyword. :param check_finite: bool, optional If True, check that the input arrays do not contain nans of infs, and raise a ValueError if they do. Setting this parameter to False will ignore input arrays values containing nans. Default is True. :param left_derivative: This parameter only has an influence if no derivative function is provided. When True the left and right derivatives of the model will be calculated for each fitted parameters thus leading to the double number of function evaluations. Default is False. Original Gefit module was always using left_derivative as True. :type left_derivative: *optional*, bool :param max_iter: Maximum number of iterations (default is 100) :return: Returns a tuple of length 2 (or 3 if full_ouput is True) with the content: ``popt``: array Optimal values for the parameters so that the sum of the squared error of ``f(xdata, *popt) - ydata`` is minimized ``pcov``: 2d array If no constraints are applied, this array contains the estimated covariance of popt. The diagonal provides the variance of the parameter estimate. To compute one standard deviation errors use ``perr = np.sqrt(np.diag(pcov))``. If constraints are applied, this array does not contain the estimated covariance of the parameters actually used during the fitting process but the uncertainties after recalculating the covariance if all the parameters were free. To get the actual uncertainties following error propagation of the actually fitted parameters one should set full_output to True and access the uncertainties key. ``infodict``: dict a dictionary of optional outputs with the keys: ``uncertainties`` The actual uncertainty on the optimized parameters. ``nfev`` The number of function calls ``fvec`` The function evaluated at the output ``niter`` The number of iterations performed ``chisq`` The chi square ``np.sum( ((f(xdata, *popt) - ydata) / sigma)**2 )`` ``reduced_chisq`` The chi square ``np.sum( ((f(xdata, *popt) - ydata) / sigma)**2 )`` divided by the number of degrees of freedom ``(M - number_of_free_parameters)`` """ function_call_counter = 0 if numpy.isscalar(p0): p0 = [p0] parameters = numpy.array(p0, dtype=numpy.float64, copy=False) if deltachi is None: deltachi = 0.001 # NaNs can not be handled if check_finite: xdata = numpy.asarray_chkfinite(xdata) ydata = numpy.asarray_chkfinite(ydata) if sigma is not None: sigma = numpy.asarray_chkfinite(sigma) else: sigma = numpy.ones((ydata.shape), dtype=numpy.float) ydata.shape = -1 sigma.shape = -1 else: ydata = numpy.asarray(ydata) xdata = numpy.asarray(xdata) ydata.shape = -1 if sigma is not None: sigma = numpy.asarray(sigma) else: sigma = numpy.ones((ydata.shape), dtype=numpy.float) sigma.shape = -1 # get rid of NaN in input data idx = numpy.isfinite(ydata) if False in idx: # xdata must have a shape able to be understood by the user function # in principle, one should not need to change it, however, if there are # points to be excluded, one has to be able to exclude them. # We can only hope that the sequence is properly arranged if xdata.size == ydata.size: if len(xdata.shape) != 1: msg = "Need to reshape input xdata." _logger.warning(msg) xdata.shape = -1 else: raise ValueError("Cannot reshape xdata to deal with NaN in ydata") ydata = ydata[idx] xdata = xdata[idx] sigma = sigma[idx] idx = numpy.isfinite(sigma) if False in idx: # xdata must have a shape able to be understood by the user function # in principle, one should not need to change it, however, if there are # points to be excluded, one has to be able to exclude them. # We can only hope that the sequence is properly arranged ydata = ydata[idx] xdata = xdata[idx] sigma = sigma[idx] idx = numpy.isfinite(xdata) filter_xdata = False if False in idx: # What to do? try: # Let's see if the function is able to deal with non-finite data msg = "Checking if function can deal with non-finite data" _logger.debug(msg) evaluation = model(xdata, *parameters) function_call_counter += 1 if evaluation.shape != ydata.shape: if evaluation.size == ydata.size: msg = "Supplied function does not return a proper array of floats." msg += "\nFunction should be rewritten to return a 1D array of floats." msg += "\nTrying to reshape output." _logger.warning(msg) evaluation.shape = ydata.shape if False in numpy.isfinite(evaluation): msg = "Supplied function unable to handle non-finite x data" msg += "\nAttempting to filter out those x data values." _logger.warning(msg) filter_xdata = True else: filter_xdata = False evaluation = None except: # function cannot handle input data filter_xdata = True if filter_xdata: if xdata.size != ydata.size: raise ValueError("xdata contains non-finite data that cannot be filtered") else: # we leave the xdata as they where old_shape = xdata.shape xdata.shape = ydata.shape idx0 = numpy.isfinite(xdata) xdata.shape = old_shape ydata = ydata[idx0] xdata = xdata[idx] sigma = sigma[idx0] weight = 1.0 / (sigma + numpy.equal(sigma, 0)) weight0 = weight * weight nparameters = len(parameters) if epsfcn is None: epsfcn = numpy.finfo(numpy.float).eps else: epsfcn = max(epsfcn, numpy.finfo(numpy.float).eps) # check if constraints have been passed as text constrained_fit = False if constraints is not None: # make sure we work with a list of lists input_constraints = constraints tmp_constraints = [None] * len(input_constraints) for i in range(nparameters): tmp_constraints[i] = list(input_constraints[i]) constraints = tmp_constraints for i in range(nparameters): if hasattr(constraints[i][0], "upper"): txt = constraints[i][0].upper() if txt == "FREE": constraints[i][0] = CFREE elif txt == "POSITIVE": constraints[i][0] = CPOSITIVE elif txt == "QUOTED": constraints[i][0] = CQUOTED elif txt == "FIXED": constraints[i][0] = CFIXED elif txt == "FACTOR": constraints[i][0] = CFACTOR constraints[i][1] = int(constraints[i][1]) elif txt == "DELTA": constraints[i][0] = CDELTA constraints[i][1] = int(constraints[i][1]) elif txt == "SUM": constraints[i][0] = CSUM constraints[i][1] = int(constraints[i][1]) elif txt in ["IGNORED", "IGNORE"]: constraints[i][0] = CIGNORED else: #I should raise an exception raise ValueError("Unknown constraint %s" % constraints[i][0]) if constraints[i][0] > 0: constrained_fit = True if constrained_fit: if full_output is None: _logger.info("Recommended to set full_output to True when using constraints") # Levenberg-Marquardt algorithm fittedpar = parameters.__copy__() flambda = 0.001 iiter = max_iter #niter = 0 last_evaluation=None x = xdata y = ydata chisq0 = -1 iteration_counter = 0 while (iiter > 0): weight = weight0 """ I cannot evaluate the initial chisq here because I do not know if some parameters are to be ignored, otherways I could do it as follows: if last_evaluation is None: yfit = model(x, *fittedpar) last_evaluation = yfit chisq0 = (weight * pow(y-yfit, 2)).sum() and chisq would not need to be recalculated. Passing the last_evaluation assumes that there are no parameters being ignored or not between calls. """ iteration_counter += 1 chisq0, alpha0, beta, internal_output = chisq_alpha_beta( model, fittedpar, x, y, weight, constraints=constraints, model_deriv=model_deriv, epsfcn=epsfcn, left_derivative=left_derivative, last_evaluation=last_evaluation, full_output=True) n_free = internal_output["n_free"] free_index = internal_output["free_index"] noigno = internal_output["noigno"] fitparam = internal_output["fitparam"] function_calls = internal_output["function_calls"] function_call_counter += function_calls #print("chisq0 = ", chisq0, n_free, fittedpar) #raise nr, nc = alpha0.shape flag = 0 #lastdeltachi = chisq0 while flag == 0: alpha = alpha0 * (1.0 + flambda * numpy.identity(nr)) deltapar = numpy.dot(beta, inv(alpha)) if constraints is None: newpar = fitparam + deltapar [0] else: newpar = parameters.__copy__() pwork = numpy.zeros(deltapar.shape, numpy.float) for i in range(n_free): if constraints is None: pwork [0] [i] = fitparam [i] + deltapar [0] [i] elif constraints [free_index[i]][0] == CFREE: pwork [0] [i] = fitparam [i] + deltapar [0] [i] elif constraints [free_index[i]][0] == CPOSITIVE: #abs method pwork [0] [i] = fitparam [i] + deltapar [0] [i] #square method #pwork [0] [i] = (numpy.sqrt(fitparam [i]) + deltapar [0] [i]) * \ # (numpy.sqrt(fitparam [i]) + deltapar [0] [i]) elif constraints[free_index[i]][0] == CQUOTED: pmax = max(constraints[free_index[i]][1], constraints[free_index[i]][2]) pmin = min(constraints[free_index[i]][1], constraints[free_index[i]][2]) A = 0.5 * (pmax + pmin) B = 0.5 * (pmax - pmin) if B != 0: pwork [0] [i] = A + \ B * numpy.sin(numpy.arcsin((fitparam[i] - A)/B)+ \ deltapar [0] [i]) else: txt = "Error processing constrained fit\n" txt += "Parameter limits are %g and %g\n" % (pmin, pmax) txt += "A = %g B = %g" % (A, B) raise ValueError("Invalid parameter limits") newpar[free_index[i]] = pwork [0] [i] newpar = numpy.array(_get_parameters(newpar, constraints)) workpar = numpy.take(newpar, noigno) yfit = model(x, *workpar) if last_evaluation is None: if len(yfit.shape) > 1: msg = "Supplied function does not return a 1D array of floats." msg += "\nFunction should be rewritten." msg += "\nTrying to reshape output." _logger.warning(msg) yfit.shape = -1 function_call_counter += 1 chisq = (weight * pow(y-yfit, 2)).sum() absdeltachi = chisq0 - chisq if absdeltachi < 0: flambda *= 10.0 if flambda > 1000: flag = 1 iiter = 0 else: flag = 1 fittedpar = newpar.__copy__() lastdeltachi = 100 * (absdeltachi / (chisq + (chisq == 0))) if iteration_counter < 2: # ignore any limit, the fit *has* to be improved pass elif (lastdeltachi) < deltachi: iiter = 0 elif absdeltachi < numpy.sqrt(epsfcn): iiter = 0 _logger.info("Iteration finished due to too small absolute chi decrement") chisq0 = chisq flambda = flambda / 10.0 last_evaluation = yfit iiter = iiter - 1 # this is the covariance matrix of the actually fitted parameters cov0 = inv(alpha0) if constraints is None: cov = cov0 else: # yet another call needed with all the parameters being free except those # that are FIXED and that will be assigned a 100 % uncertainty. new_constraints = copy.deepcopy(constraints) flag_special = [0] * len(fittedpar) for idx, constraint in enumerate(constraints): if constraints[idx][0] in [CFIXED, CIGNORED]: flag_special[idx] = constraints[idx][0] else: new_constraints[idx][0] = CFREE new_constraints[idx][1] = 0 new_constraints[idx][2] = 0 chisq, alpha, beta, internal_output = chisq_alpha_beta( model, fittedpar, x, y, weight, constraints=new_constraints, model_deriv=model_deriv, epsfcn=epsfcn, left_derivative=left_derivative, last_evaluation=last_evaluation, full_output=True) # obtained chisq should be identical to chisq0 try: cov = inv(alpha) except LinAlgError: _logger.critical("Error calculating covariance matrix after successful fit") cov = None if cov is not None: for idx, value in enumerate(flag_special): if value in [CFIXED, CIGNORED]: cov = numpy.insert(numpy.insert(cov, idx, 0, axis=1), idx, 0, axis=0) cov[idx, idx] = fittedpar[idx] * fittedpar[idx] if not full_output: return fittedpar, cov else: sigma0 = numpy.sqrt(abs(numpy.diag(cov0))) sigmapar = _get_sigma_parameters(fittedpar, sigma0, constraints) ddict = {} ddict["chisq"] = chisq0 ddict["reduced_chisq"] = chisq0 / (len(yfit)-n_free) ddict["covariance"] = cov0 ddict["uncertainties"] = sigmapar ddict["fvec"] = last_evaluation ddict["nfev"] = function_call_counter ddict["niter"] = iteration_counter return fittedpar, cov, ddict #, chisq/(len(yfit)-len(sigma0)), sigmapar,niter,lastdeltachi def chisq_alpha_beta(model, parameters, x, y, weight, constraints=None, model_deriv=None, epsfcn=None, left_derivative=False, last_evaluation=None, full_output=False): """ Get chi square, the curvature matrix alpha and the matrix beta according to the input parameters. If all the parameters are unconstrained, the covariance matrix is the inverse of the alpha matrix. :param model: callable The model function, f(x, ...). It must take the independent variable as the first argument and the parameters to fit as separate remaining arguments. The returned value is a one dimensional array of floats. :param parameters: N-length sequence Values of parameters at which function and derivatives are to be calculated. :param x: An M-length sequence. The independent variable where the data is measured. :param y: An M-length sequence The dependent data --- nominally f(xdata, ...) :param weight: M-length sequence Weights to be applied in the calculation of chi square As a reminder ``chisq = np.sum(weigth * (model(x, *parameters) - y)**2)`` :param constraints: If provided, it is a 2D sequence of dimension (n_parameters, 3) where, for each parameter denoted by the index i, the meaning is - constraints[i][0] - 0 - Free (CFREE) - 1 - Positive (CPOSITIVE) - 2 - Quoted (CQUOTED) - 3 - Fixed (CFIXED) - 4 - Factor (CFACTOR) - 5 - Delta (CDELTA) - 6 - Sum (CSUM) - constraints[i][1] - Ignored if constraints[i][0] is 0, 1, 3 - Min value of the parameter if constraints[i][0] is CQUOTED - Index of fitted parameter to which it is related - constraints[i][2] - Ignored if constraints[i][0] is 0, 1, 3 - Max value of the parameter if constraints[i][0] is CQUOTED - Factor to apply to related parameter with index constraints[i][1] - Difference with parameter with index constraints[i][1] - Sum obtained when adding parameter with index constraints[i][1] :type constraints: *optional*, None or 2D sequence :param model_deriv: None (default) or function providing the derivatives of the fitting function respect to the fitted parameters. It will be called as model_deriv(xdata, parameters, index) where parameters is a sequence with the current values of the fitting parameters, index is the fitting parameter index for which the the derivative has to be provided in the supplied array of xdata points. :type model_deriv: *optional*, None or callable :param epsfcn: float A variable used in determining a suitable parameter variation when calculating the numerical derivatives (for model_deriv=None). Normally the actual step length will be sqrt(epsfcn)*x Original Gefit module was using epsfcn 1.0e-10 while default value is now numpy.finfo(numpy.float).eps as in scipy :type epsfcn: *optional*, float :param left_derivative: This parameter only has an influence if no derivative function is provided. When True the left and right derivatives of the model will be calculated for each fitted parameters thus leading to the double number of function evaluations. Default is False. Original Gefit module was always using left_derivative as True. :type left_derivative: *optional*, bool :param last_evaluation: An M-length array Used for optimization purposes. If supplied, this array will be taken as the result of evaluating the function, that is as the result of ``model(x, *parameters)`` thus avoiding the evaluation call. :param full_output: bool, optional Additional output used for internal purposes with the keys: ``function_calls`` The number of model function calls performed. ``fitparam`` A sequence with the actual free parameters ``free_index`` Sequence with the indices of the free parameters in input parameters sequence. ``noigno`` Sequence with the indices of the original parameters considered in the calculations. """ if epsfcn is None: epsfcn = numpy.finfo(numpy.float).eps else: epsfcn = max(epsfcn, numpy.finfo(numpy.float).eps) #nr0, nc = data.shape n_param = len(parameters) if constraints is None: derivfactor = numpy.ones((n_param, )) n_free = n_param noigno = numpy.arange(n_param) free_index = noigno * 1 fitparam = parameters * 1 else: n_free = 0 fitparam = [] free_index = [] noigno = [] derivfactor = [] for i in range(n_param): if constraints[i][0] != CIGNORED: noigno.append(i) if constraints[i][0] == CFREE: fitparam.append(parameters [i]) derivfactor.append(1.0) free_index.append(i) n_free += 1 elif constraints[i][0] == CPOSITIVE: fitparam.append(abs(parameters[i])) derivfactor.append(1.0) #fitparam.append(numpy.sqrt(abs(parameters[i]))) #derivfactor.append(2.0*numpy.sqrt(abs(parameters[i]))) free_index.append(i) n_free += 1 elif constraints[i][0] == CQUOTED: pmax = max(constraints[i][1], constraints[i][2]) pmin =min(constraints[i][1], constraints[i][2]) if ((pmax-pmin) > 0) & \ (parameters[i] <= pmax) & \ (parameters[i] >= pmin): A = 0.5 * (pmax + pmin) B = 0.5 * (pmax - pmin) fitparam.append(parameters[i]) derivfactor.append(B*numpy.cos(numpy.arcsin((parameters[i] - A)/B))) free_index.append(i) n_free += 1 elif (pmax-pmin) > 0: print("WARNING: Quoted parameter outside boundaries") print("Initial value = %f" % parameters[i]) print("Limits are %f and %f" % (pmin, pmax)) print("Parameter will be kept at its starting value") fitparam = numpy.array(fitparam, numpy.float) alpha = numpy.zeros((n_free, n_free), numpy.float) beta = numpy.zeros((1, n_free), numpy.float) #delta = (fitparam + numpy.equal(fitparam, 0.0)) * 0.00001 delta = (fitparam + numpy.equal(fitparam, 0.0)) * numpy.sqrt(epsfcn) nr = y.size ############## # Prior to each call to the function one has to re-calculate the # parameters pwork = parameters.__copy__() for i in range(n_free): pwork [free_index[i]] = fitparam [i] if n_free == 0: raise ValueError("No free parameters to fit") function_calls = 0 if not left_derivative: if last_evaluation is not None: f2 = last_evaluation else: f2 = model(x, *parameters) f2.shape = -1 function_calls += 1 for i in range(n_free): if model_deriv is None: #pwork = parameters.__copy__() pwork[free_index[i]] = fitparam [i] + delta [i] newpar = _get_parameters(pwork.tolist(), constraints) newpar = numpy.take(newpar, noigno) f1 = model(x, *newpar) f1.shape = -1 function_calls += 1 if left_derivative: pwork[free_index[i]] = fitparam [i] - delta [i] newpar = _get_parameters(pwork.tolist(), constraints) newpar=numpy.take(newpar, noigno) f2 = model(x, *newpar) function_calls += 1 help0 = (f1 - f2) / (2.0 * delta[i]) else: help0 = (f1 - f2) / (delta[i]) help0 = help0 * derivfactor[i] pwork[free_index[i]] = fitparam [i] #removed I resize outside the loop: #help0 = numpy.resize(help0, (1, nr)) else: help0 = model_deriv(x, pwork, free_index[i]) help0 = help0 * derivfactor[i] if i == 0: deriv = help0 else: deriv = numpy.concatenate((deriv, help0), 0) #line added to resize outside the loop deriv = numpy.resize(deriv, (n_free, nr)) if last_evaluation is None: if constraints is None: yfit = model(x, *fitparam) yfit.shape = -1 else: newpar = _get_parameters(pwork.tolist(), constraints) newpar = numpy.take(newpar, noigno) yfit = model(x, *newpar) yfit.shape = -1 function_calls += 1 else: yfit = last_evaluation deltay = y - yfit help0 = weight * deltay for i in range(n_free): derivi = numpy.resize(deriv[i, :], (1, nr)) help1 = numpy.resize(numpy.sum((help0 * derivi), 1), (1, 1)) if i == 0: beta = help1 else: beta = numpy.concatenate((beta, help1), 1) help1 = numpy.inner(deriv, weight*derivi) if i == 0: alpha = help1 else: alpha = numpy.concatenate((alpha, help1), 1) chisq = (help0 * deltay).sum() if full_output: ddict = {} ddict["n_free"] = n_free ddict["free_index"] = free_index ddict["noigno"] = noigno ddict["fitparam"] = fitparam ddict["derivfactor"] = derivfactor ddict["function_calls"] = function_calls return chisq, alpha, beta, ddict else: return chisq, alpha, beta def _get_parameters(parameters, constraints): """ Apply constraints to input parameters. Parameters not depending on other parameters, they are returned as the input. Parameters depending on other parameters, return the value after applying the relation to the parameter wo which they are related. """ # 0 = Free 1 = Positive 2 = Quoted # 3 = Fixed 4 = Factor 5 = Delta if constraints is None: return parameters * 1 newparam = [] #first I make the free parameters #because the quoted ones put troubles for i in range(len(constraints)): if constraints[i][0] == CFREE: newparam.append(parameters[i]) elif constraints[i][0] == CPOSITIVE: #newparam.append(parameters[i] * parameters[i]) newparam.append(abs(parameters[i])) elif constraints[i][0] == CQUOTED: newparam.append(parameters[i]) elif abs(constraints[i][0]) == CFIXED: newparam.append(parameters[i]) else: newparam.append(parameters[i]) for i in range(len(constraints)): if constraints[i][0] == CFACTOR: newparam[i] = constraints[i][2] * newparam[int(constraints[i][1])] elif constraints[i][0] == CDELTA: newparam[i] = constraints[i][2] + newparam[int(constraints[i][1])] elif constraints[i][0] == CIGNORED: # The whole ignored stuff should not be documented because setting # a parameter to 0 is not the same as being ignored. # Being ignored should imply the parameter is simply not accounted for # and should be stripped out of the list of parameters by the program # using this module newparam[i] = 0 elif constraints[i][0] == CSUM: newparam[i] = constraints[i][2]-newparam[int(constraints[i][1])] return newparam def _get_sigma_parameters(parameters, sigma0, constraints): """ Internal function propagating the uncertainty on the actually fitted parameters and related parameters to the final parameters considering the applied constraints. Parameters ---------- parameters : 1D sequence of length equal to the number of free parameters N The parameters actually used in the fitting process. sigma0 : 1D sequence of length N Uncertainties calculated as the square-root of the diagonal of the covariance matrix constraints : The set of constraints applied in the fitting process """ # 0 = Free 1 = Positive 2 = Quoted # 3 = Fixed 4 = Factor 5 = Delta if constraints is None: return sigma0 n_free = 0 sigma_par = numpy.zeros(parameters.shape, numpy.float) for i in range(len(constraints)): if constraints[i][0] == CFREE: sigma_par [i] = sigma0[n_free] n_free += 1 elif constraints[i][0] == CPOSITIVE: #sigma_par [i] = 2.0 * sigma0[n_free] sigma_par [i] = sigma0[n_free] n_free += 1 elif constraints[i][0] == CQUOTED: pmax = max(constraints [i][1], constraints [i][2]) pmin = min(constraints [i][1], constraints [i][2]) # A = 0.5 * (pmax + pmin) B = 0.5 * (pmax - pmin) if (B > 0) & (parameters [i] < pmax) & (parameters [i] > pmin): sigma_par [i] = abs(B * numpy.cos(parameters[i]) * sigma0[n_free]) n_free += 1 else: sigma_par [i] = parameters[i] elif abs(constraints[i][0]) == CFIXED: sigma_par[i] = parameters[i] for i in range(len(constraints)): if constraints[i][0] == CFACTOR: sigma_par [i] = constraints[i][2]*sigma_par[int(constraints[i][1])] elif constraints[i][0] == CDELTA: sigma_par [i] = sigma_par[int(constraints[i][1])] elif constraints[i][0] == CSUM: sigma_par [i] = sigma_par[int(constraints[i][1])] return sigma_par def main(argv=None): if argv is None: npoints = 10000 elif hasattr(argv, "__len__"): if len(argv) > 1: npoints = int(argv[1]) else: print("Usage:") print("fit [npoints]") else: # expected a number npoints = argv def gauss(t0, *param0): param = numpy.array(param0) t = numpy.array(t0) dummy = 2.3548200450309493 * (t - param[3]) / param[4] return param[0] + param[1] * t + param[2] * myexp(-0.5 * dummy * dummy) def myexp(x): # put a (bad) filter to avoid over/underflows # with no python looping return numpy.exp(x * numpy.less(abs(x), 250)) -\ 1.0 * numpy.greater_equal(abs(x), 250) xx = numpy.arange(npoints, dtype=numpy.float) yy = gauss(xx, *[10.5, 2, 1000.0, 20., 15]) sy = numpy.sqrt(abs(yy)) parameters = [0.0, 1.0, 900.0, 25., 10] stime = time.time() fittedpar, cov, ddict = leastsq(gauss, xx, yy, parameters, sigma=sy, left_derivative=False, full_output=True, check_finite=True) etime = time.time() sigmapars = numpy.sqrt(numpy.diag(cov)) print("Took ", etime - stime, "seconds") print("Function calls = ", ddict["nfev"]) print("chi square = ", ddict["chisq"]) print("Fitted pars = ", fittedpar) print("Sigma pars = ", sigmapars) try: from scipy.optimize import curve_fit as cfit SCIPY = True except ImportError: SCIPY = False if SCIPY: counter = 0 stime = time.time() scipy_fittedpar, scipy_cov = cfit(gauss, xx, yy, parameters, sigma=sy) etime = time.time() print("Scipy Took ", etime - stime, "seconds") print("Counter = ", counter) print("scipy = ", scipy_fittedpar) print("Sigma = ", numpy.sqrt(numpy.diag(scipy_cov))) if __name__ == "__main__": main() silx-0.6.1/silx/math/fit/peaks_wrapper.pxd0000644023630100076410000000323713202530432021212 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "22/06/2016" cimport cython cdef extern from "peaks.h": long seek(long begin_index, long end_index, long nsamples, double fwhm, double sensitivity, double debug_info, double * data, double ** peaks, double ** relevances) silx-0.6.1/silx/math/fit/filters.c0000644023630100076410000326167013202530432017460 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [ "silx/math/fit/filters/include/filters.h" ], "include_dirs": [ "silx/math/fit/filters/include", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c" }, "module_name": "silx.math.fit.filters" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #elif !defined(CYTHON_USE_PYLONG_INTERNALS) #define CYTHON_USE_PYLONG_INTERNALS 1 #endif #ifndef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 1 #endif #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #if PY_VERSION_HEX < 0x030300F0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #elif !defined(CYTHON_USE_UNICODE_WRITER) #define CYTHON_USE_UNICODE_WRITER 1 #endif #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #ifndef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 1 #endif #ifndef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 1 #endif #endif #if !defined(CYTHON_FAST_PYCCALL) #define CYTHON_FAST_PYCCALL (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1) #endif #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #undef SHIFT #undef BASE #undef MASK #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 && !defined(Py_OptimizeFlag) #define Py_OptimizeFlag 0 #endif #define __PYX_BUILD_PY_SSIZE_T "n" #define CYTHON_FORMAT_SSIZE_T "z" #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyType_Type #endif #ifndef Py_TPFLAGS_CHECKTYPES #define Py_TPFLAGS_CHECKTYPES 0 #endif #ifndef Py_TPFLAGS_HAVE_INDEX #define Py_TPFLAGS_HAVE_INDEX 0 #endif #ifndef Py_TPFLAGS_HAVE_NEWBUFFER #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif #ifndef Py_TPFLAGS_HAVE_FINALIZE #define Py_TPFLAGS_HAVE_FINALIZE 0 #endif #ifndef METH_FASTCALL #define METH_FASTCALL 0x80 typedef PyObject *(*__Pyx_PyCFunctionFast) (PyObject *self, PyObject **args, Py_ssize_t nargs, PyObject *kwnames); #else #define __Pyx_PyCFunctionFast _PyCFunctionFast #endif #if CYTHON_FAST_PYCCALL #define __Pyx_PyFastCFunction_Check(func)\ ((PyCFunction_Check(func) && (METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))))) #else #define __Pyx_PyFastCFunction_Check(func) 0 #endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ?\ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) PyUnicode_MAX_CHAR_VALUE(u) #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) #define __Pyx_PyUnicode_DATA(u) 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__Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; 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#if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /*--- Type declarations ---*/ struct __pyx_array_obj; struct __pyx_MemviewEnum_obj; struct __pyx_memoryview_obj; struct __pyx_memoryviewslice_obj; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_array_obj { PyObject_HEAD struct __pyx_vtabstruct_array *__pyx_vtab; char *data; Py_ssize_t len; char *format; int ndim; Py_ssize_t *_shape; Py_ssize_t *_strides; Py_ssize_t itemsize; 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/* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* PyObjectCall.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* RaiseException.proto */ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /* BufferIndexError.proto */ static void __Pyx_RaiseBufferIndexError(int axis); /* PyCFunctionFastCall.proto */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject *__Pyx_PyCFunction_FastCall(PyObject *func, PyObject **args, Py_ssize_t nargs); #else #define __Pyx_PyCFunction_FastCall(func, args, nargs) (assert(0), NULL) #endif /* PyFunctionFastCall.proto */ #if CYTHON_FAST_PYCALL #define __Pyx_PyFunction_FastCall(func, args, nargs)\ __Pyx_PyFunction_FastCallDict((func), (args), (nargs), NULL) #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs); #else #define __Pyx_PyFunction_FastCallDict(func, args, nargs, kwargs) _PyFunction_FastCallDict(func, args, nargs, kwargs) #endif #endif /* PyObjectCallMethO.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg); #endif /* PyObjectCallOneArg.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? 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static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* ArgTypeTest.proto */ static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /* IncludeStringH.proto */ #include /* BytesEquals.proto */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals); /* UnicodeEquals.proto */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals); /* StrEquals.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Equals __Pyx_PyUnicode_Equals #else #define __Pyx_PyString_Equals __Pyx_PyBytes_Equals #endif /* None.proto */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t, Py_ssize_t); /* UnaryNegOverflows.proto */ #define UNARY_NEG_WOULD_OVERFLOW(x)\ (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); 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#define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_double(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_double(const char *itemp, PyObject *obj); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_long(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_long(const char *itemp, PyObject *obj); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_long(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'silx.math.fit.filters_wrapper' */ /* Module declarations from 'silx.math.fit.filters' */ static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_long = { "long", NULL, sizeof(long), { 0 }, 0, IS_UNSIGNED(long) ? 'U' : 'I', IS_UNSIGNED(long), 0 }; #define __Pyx_MODULE_NAME "silx.math.fit.filters" int __pyx_module_is_main_silx__math__fit__filters = 0; /* Implementation of 'silx.math.fit.filters' */ static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_C[] = "C"; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_w[] = "w"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_nx[] = "nx"; static const char __pyx_k_ny[] = "ny"; static const char __pyx_k_nz[] = "nz"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_int[] = "int_"; static const char __pyx_k_len[] = "__len__"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_copy[] = "copy"; static const char __pyx_k_data[] = "data"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_empty[] = "empty"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_nrows[] = "nrows"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_order[] = "order"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_strip[] = "strip"; static const char __pyx_k_data_c[] = "data_c"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_factor[] = "factor"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_logger[] = "_logger"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_output[] = "output"; static const char __pyx_k_snip1d[] = "snip1d"; static const char __pyx_k_snip2d[] = "snip2d"; static const char __pyx_k_snip3d[] = "snip3d"; static const char __pyx_k_status[] = "status"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_anchors[] = "anchors"; static const char __pyx_k_asarray[] = "asarray"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_float64[] = "float64"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_input_c[] = "input_c"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_logging[] = "logging"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_ndarray[] = "ndarray"; static const char __pyx_k_npoints[] = "npoints"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_P_Knobel[] = "P. Knobel"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_ncolumns[] = "ncolumns"; static const char __pyx_k_smooth1d[] = "smooth1d"; static const char __pyx_k_smooth2d[] = "smooth2d"; static const char __pyx_k_smooth3d[] = "smooth3d"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_anchors_c[] = "anchors_c"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_getLogger[] = "getLogger"; static const char __pyx_k_15_05_2017[] = "15/05/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_data_shape[] = "data_shape"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_snip_width[] = "snip_width"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_len_anchors[] = "len_anchors"; static const char __pyx_k_niterations[] = "niterations"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_savitsky_golay[] = "savitsky_golay"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_or_a_numpy_array[] = "or a numpy array"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_or_a_2D_numpy_array[] = "or a 2D numpy array"; static const char __pyx_k_or_a_3D_numpy_array[] = "or a 3D numpy array"; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_silx_math_fit_filters[] = "silx.math.fit.filters"; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_than_3_and_smaller_than_100[] = "than 3 and smaller than 100."; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_This_module_provides_background[] = "This module provides background extraction functions and smoothing\nfunctions. These functions are extracted from PyMca module SpecFitFuns.\n\nIndex of background extraction functions:\n------------------------------------------\n\n - :func:`strip`\n - :func:`snip1d`\n - :func:`snip2d`\n - :func:`snip3d`\n\nSmoothing functions:\n--------------------\n\n - :func:`savitsky_golay`\n - :func:`smooth1d`\n - :func:`smooth2d`\n - :func:`smooth3d`\n\nAPI documentation:\n-------------------\n\n"; static const char __pyx_k_data_must_be_a_2D_sequence_list[] = "data must be a 2D sequence (list, tuple) "; static const char __pyx_k_data_must_be_a_3D_sequence_list[] = "data must be a 3D sequence (list, tuple) "; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/math/fit/filters.pyx"; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_Smoothing_failed_Check_that_npoi[] = "Smoothing failed. Check that npoints is greater "; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_data_array_must_be_2_dimensional[] = "data array must be 2-dimensional"; static const char __pyx_k_data_array_must_be_3_dimensional[] = "data array must be 3-dimensional"; static const char __pyx_k_data_must_be_a_sequence_list_tup[] = "data must be a sequence (list, tuple) "; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static PyObject *__pyx_kp_s_15_05_2017; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_n_s_C; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_P_Knobel; static PyObject *__pyx_kp_s_Smoothing_failed_Check_that_npoi; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_anchors; static PyObject *__pyx_n_s_anchors_c; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_asarray; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_class; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_copy; static PyObject *__pyx_n_s_data; static PyObject *__pyx_kp_s_data_array_must_be_2_dimensional; static PyObject *__pyx_kp_s_data_array_must_be_3_dimensional; static PyObject *__pyx_n_s_data_c; static PyObject *__pyx_kp_s_data_must_be_a_2D_sequence_list; static PyObject *__pyx_kp_s_data_must_be_a_3D_sequence_list; static PyObject *__pyx_kp_s_data_must_be_a_sequence_list_tup; static PyObject *__pyx_n_s_data_shape; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_empty; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_factor; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float64; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_n_s_getLogger; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_input_c; static PyObject *__pyx_n_s_int; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_len; static PyObject *__pyx_n_s_len_anchors; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_logger; static PyObject *__pyx_n_s_logging; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_ncolumns; static PyObject *__pyx_n_s_ndarray; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_niterations; static PyObject *__pyx_n_s_npoints; static PyObject *__pyx_n_s_nrows; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_n_s_nx; static PyObject *__pyx_n_s_ny; static PyObject *__pyx_n_s_nz; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_kp_s_or_a_2D_numpy_array; static PyObject *__pyx_kp_s_or_a_3D_numpy_array; static PyObject *__pyx_kp_s_or_a_numpy_array; static PyObject *__pyx_n_s_order; static PyObject *__pyx_n_s_output; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_savitsky_golay; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_silx_math_fit_filters; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_smooth1d; static PyObject *__pyx_n_s_smooth2d; static PyObject *__pyx_n_s_smooth3d; static PyObject *__pyx_n_s_snip1d; static PyObject *__pyx_n_s_snip2d; static PyObject *__pyx_n_s_snip3d; static PyObject *__pyx_n_s_snip_width; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_status; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_strip; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_test; static PyObject *__pyx_kp_s_than_3_and_smaller_than_100; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_n_s_unpack; static PyObject *__pyx_kp_s_users_kieffer_workspace_400_rel; static PyObject *__pyx_n_s_w; static PyObject *__pyx_pf_4silx_4math_3fit_7filters_strip(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_w, PyObject *__pyx_v_niterations, PyObject *__pyx_v_factor, PyObject *__pyx_v_anchors); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_2snip1d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_snip_width); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_4snip2d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_snip_width); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_6snip3d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_snip_width); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_8savitsky_golay(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_npoints); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_10smooth1d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_12smooth2d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data); /* proto */ static PyObject *__pyx_pf_4silx_4math_3fit_7filters_14smooth3d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array___cinit__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_shape, Py_ssize_t __pyx_v_itemsize, PyObject *__pyx_v_format, PyObject *__pyx_v_mode, int __pyx_v_allocate_buffer); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_2__getbuffer__(struct __pyx_array_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_array___pyx_pf_15View_dot_MemoryView_5array_4__dealloc__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_5array_7memview___get__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_6__getattr__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_attr); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_8__getitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_10__setitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item, PyObject *__pyx_v_value); /* proto */ static int __pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum___init__(struct __pyx_MemviewEnum_obj *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum_2__repr__(struct __pyx_MemviewEnum_obj *__pyx_v_self); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview___cinit__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj, int __pyx_v_flags, int __pyx_v_dtype_is_object); /* proto */ static void __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_2__dealloc__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_4__getitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_6__setitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_8__getbuffer__(struct __pyx_memoryview_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_1T___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4base___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_5shape___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_7strides___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_10suboffsets___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4ndim___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_8itemsize___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_6nbytes___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4size___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static Py_ssize_t __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_10__len__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_12__repr__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_14__str__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_16is_c_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_18is_f_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_20copy(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_22copy_fortran(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static void __pyx_memoryviewslice___pyx_pf_15View_dot_MemoryView_16_memoryviewslice___dealloc__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_16_memoryviewslice_4base___get__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_float_1_0; static PyObject *__pyx_int_0; static PyObject *__pyx_int_1; static PyObject *__pyx_int_5; static PyObject *__pyx_int_1000; static PyObject *__pyx_int_neg_1; static PyObject *__pyx_tuple_; static PyObject *__pyx_tuple__2; static PyObject *__pyx_tuple__3; static PyObject *__pyx_tuple__4; static PyObject *__pyx_tuple__5; static PyObject *__pyx_tuple__6; static PyObject *__pyx_tuple__7; static PyObject *__pyx_tuple__8; static PyObject *__pyx_tuple__9; static PyObject *__pyx_slice__23; static PyObject *__pyx_slice__24; static PyObject *__pyx_slice__25; static PyObject *__pyx_tuple__10; static PyObject *__pyx_tuple__11; static PyObject *__pyx_tuple__12; static PyObject *__pyx_tuple__13; static PyObject *__pyx_tuple__14; static PyObject *__pyx_tuple__15; static PyObject *__pyx_tuple__16; static PyObject *__pyx_tuple__17; static PyObject *__pyx_tuple__18; static PyObject *__pyx_tuple__19; static PyObject *__pyx_tuple__20; static PyObject *__pyx_tuple__21; static PyObject *__pyx_tuple__22; static PyObject *__pyx_tuple__26; static PyObject *__pyx_tuple__27; static PyObject *__pyx_tuple__29; static PyObject *__pyx_tuple__31; static PyObject *__pyx_tuple__33; static PyObject *__pyx_tuple__35; static PyObject *__pyx_tuple__37; static PyObject *__pyx_tuple__39; static PyObject *__pyx_tuple__41; static PyObject *__pyx_tuple__43; static PyObject *__pyx_tuple__44; static PyObject *__pyx_tuple__45; static PyObject *__pyx_tuple__46; static PyObject *__pyx_tuple__47; static PyObject *__pyx_codeobj__28; static PyObject *__pyx_codeobj__30; static PyObject *__pyx_codeobj__32; static PyObject *__pyx_codeobj__34; static PyObject *__pyx_codeobj__36; static PyObject *__pyx_codeobj__38; static PyObject *__pyx_codeobj__40; static PyObject *__pyx_codeobj__42; /* "silx/math/fit/filters.pyx":61 * * * def strip(data, w=1, niterations=1000, factor=1.0, anchors=None): # <<<<<<<<<<<<<< * """Extract background from data using the strip algorithm, as explained at * http://pymca.sourceforge.net/stripbackground.html. */ /* Python wrapper */ static PyObject *__pyx_pw_4silx_4math_3fit_7filters_1strip(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4silx_4math_3fit_7filters_strip[] = "strip(data, w=1, niterations=1000, factor=1.0, anchors=None)\nExtract background from data using the strip algorithm, as explained at\n http://pymca.sourceforge.net/stripbackground.html.\n\n In its simplest implementation it is just as an iterative procedure\n depending on two parameters. These parameters are the strip background\n width ``w``, and the number of iterations. 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"View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1094 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ } /* "View.MemoryView":1096 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ /*else*/ { __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1104 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1105 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1107 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t 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__pyx_memoryview_refcount_objects_in_slice(__pyx_v_data, __pyx_v_shape, __pyx_v_strides, __pyx_v_ndim, __pyx_v_inc); /* "View.MemoryView":1355 * * @cname('__pyx_memoryview_refcount_objects_in_slice_with_gil') * cdef void refcount_objects_in_slice_with_gil(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * bint inc) with gil: */ /* function exit code */ __Pyx_RefNannyFinishContext(); #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif } /* "View.MemoryView":1361 * * @cname('__pyx_memoryview_refcount_objects_in_slice') * cdef void refcount_objects_in_slice(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, bint inc): * cdef Py_ssize_t i */ static void __pyx_memoryview_refcount_objects_in_slice(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, int __pyx_v_inc) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; __Pyx_RefNannyDeclarations Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; 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__pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef Py_ssize_t extent = shape[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_extent = (__pyx_v_shape[0]); /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1399 * * if ndim == 1: * for i in range(extent): # <<<<<<<<<<<<<< * memcpy(data, item, itemsize) * data += stride */ __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1400 * if ndim == 1: * for i in range(extent): * memcpy(data, item, itemsize) # <<<<<<<<<<<<<< * data += stride * else: */ memcpy(__pyx_v_data, __pyx_v_item, __pyx_v_itemsize); /* "View.MemoryView":1401 * for i in range(extent): * memcpy(data, item, itemsize) * data += stride # <<<<<<<<<<<<<< * else: * for i in range(extent): */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, 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Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /* function exit code */ } static struct __pyx_vtabstruct_array __pyx_vtable_array; static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_array_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_array_obj *)o); p->__pyx_vtab = __pyx_vtabptr_array; p->mode = ((PyObject*)Py_None); Py_INCREF(Py_None); p->_format = ((PyObject*)Py_None); Py_INCREF(Py_None); if (unlikely(__pyx_array___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_array(PyObject *o) { struct __pyx_array_obj *p = (struct __pyx_array_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_array___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->mode); Py_CLEAR(p->_format); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_array(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_array(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_array___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_tp_getattro_array(PyObject *o, PyObject *n) { PyObject *v = PyObject_GenericGetAttr(o, n); if (!v && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Clear(); v = __pyx_array___getattr__(o, n); } return v; } static PyObject *__pyx_getprop___pyx_array_memview(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_5array_7memview_1__get__(o); } static PyMethodDef __pyx_methods_array[] = { {"__getattr__", (PyCFunction)__pyx_array___getattr__, METH_O|METH_COEXIST, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_array[] = { {(char *)"memview", __pyx_getprop___pyx_array_memview, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_array = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_array, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_array = { 0, /*mp_length*/ __pyx_array___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.filters.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.filters.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4base_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_5shape_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_strides(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_7strides_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_suboffsets(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_10suboffsets_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_ndim(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4ndim_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_itemsize(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_8itemsize_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_nbytes(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_6nbytes_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_size(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4size_1__get__(o); } static PyMethodDef __pyx_methods_memoryview[] = { {"is_c_contig", (PyCFunction)__pyx_memoryview_is_c_contig, METH_NOARGS, 0}, {"is_f_contig", (PyCFunction)__pyx_memoryview_is_f_contig, METH_NOARGS, 0}, {"copy", (PyCFunction)__pyx_memoryview_copy, METH_NOARGS, 0}, {"copy_fortran", (PyCFunction)__pyx_memoryview_copy_fortran, METH_NOARGS, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_memoryview[] = { {(char *)"T", __pyx_getprop___pyx_memoryview_T, 0, (char *)0, 0}, {(char *)"base", __pyx_getprop___pyx_memoryview_base, 0, (char *)0, 0}, {(char *)"shape", __pyx_getprop___pyx_memoryview_shape, 0, (char *)0, 0}, {(char *)"strides", __pyx_getprop___pyx_memoryview_strides, 0, (char *)0, 0}, {(char *)"suboffsets", __pyx_getprop___pyx_memoryview_suboffsets, 0, (char *)0, 0}, {(char *)"ndim", __pyx_getprop___pyx_memoryview_ndim, 0, (char *)0, 0}, {(char *)"itemsize", __pyx_getprop___pyx_memoryview_itemsize, 0, (char *)0, 0}, {(char *)"nbytes", __pyx_getprop___pyx_memoryview_nbytes, 0, (char *)0, 0}, {(char *)"size", __pyx_getprop___pyx_memoryview_size, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_memoryview = { __pyx_memoryview___len__, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_memoryview, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_memoryview = { __pyx_memoryview___len__, /*mp_length*/ __pyx_memoryview___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_memoryview, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_memoryview = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_memoryview_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_memoryview = { PyVarObject_HEAD_INIT(0, 0) "silx.math.fit.filters.memoryview", /*tp_name*/ sizeof(struct __pyx_memoryview_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_memoryview, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_memoryview___repr__, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_memoryview, /*tp_as_sequence*/ &__pyx_tp_as_mapping_memoryview, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ __pyx_memoryview___str__, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_memoryview, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_memoryview, /*tp_traverse*/ __pyx_tp_clear_memoryview, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_memoryview, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_memoryview, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_memoryview, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, 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goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* BufferIndexError */ static void __Pyx_RaiseBufferIndexError(int axis) { PyErr_Format(PyExc_IndexError, "Out of bounds on buffer access (axis %d)", axis); } /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_double(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(double *) itemp); } static CYTHON_INLINE int __pyx_memview_set_double(const char *itemp, PyObject *obj) { double value = __pyx_PyFloat_AsDouble(obj); if ((value == (double)-1) && PyErr_Occurred()) return 0; *(double *) itemp = value; return 1; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_long(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_long(*(long *) itemp); } static CYTHON_INLINE int __pyx_memview_set_long(const char *itemp, PyObject *obj) { long value = __Pyx_PyInt_As_long(obj); if ((value == (long)-1) && PyErr_Occurred()) return 0; *(long *) itemp = value; return 1; } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; 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else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/fit/fitmanager.py0000644023630100076410000012757413202530306020334 0ustar knobelusers00000000000000# coding: utf-8 # /*######################################################################### # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ##########################################################################*/ """ This module provides a tool to perform advanced fitting. The actual fit relies on :func:`silx.math.fit.leastsq`. This module deals with: - handling of the model functions (using a set of default functions or loading custom user functions) - handling of estimation function, that are used to determine the number of parameters to be fitted for functions with unknown number of parameters (such as the sum of a variable number of gaussian curves), and find reasonable initial parameters for input to the iterative fitting algorithm - handling of custom derivative functions that can be passed as a parameter to :func:`silx.math.fit.leastsq` - providing different background models """ from collections import OrderedDict import logging import numpy from numpy.linalg.linalg import LinAlgError import os import sys from .filters import strip, smooth1d from .leastsq import leastsq from .fittheory import FitTheory from . import bgtheories __authors__ = ["V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "16/01/2017" _logger = logging.getLogger(__name__) class FitManager(object): """ Fit functions manager :param x: Abscissa data. If ``None``, :attr:`xdata` is set to ``numpy.array([0.0, 1.0, 2.0, ..., len(y)-1])`` :type x: Sequence or numpy array or None :param y: The dependant data ``y = f(x)``. ``y`` must have the same shape as ``x`` if ``x`` is not ``None``. :type y: Sequence or numpy array or None :param sigmay: The uncertainties in the ``ydata`` array. These can be used as weights in the least-squares problem, if ``weight_flag`` is ``True``. If ``None``, the uncertainties are assumed to be 1, unless ``weight_flag`` is ``True``, in which case the square-root of ``y`` is used. :type sigmay: Sequence or numpy array or None :param weight_flag: If this parameter is ``True`` and ``sigmay`` uncertainties are not specified, the square root of ``y`` is used as weights in the least-squares problem. If ``False``, the uncertainties are set to 1. :type weight_flag: boolean """ def __init__(self, x=None, y=None, sigmay=None, weight_flag=False): """ """ self.fitconfig = { 'WeightFlag': weight_flag, 'fitbkg': 'No Background', 'fittheory': None, # Next few parameters are defined for compatibility with legacy theories # which take the background as argument for their estimation function 'StripWidth': 2, 'StripIterations': 5000, 'StripThresholdFactor': 1.0, 'SmoothingFlag': False } """Dictionary of fit configuration parameters. These parameters can be modified using the :meth:`configure` method. Keys are: - 'fitbkg': name of the function used for fitting a low frequency background signal - 'FwhmPoints': default full width at half maximum value for the peaks'. - 'Sensitivity': Sensitivity parameter for the peak detection algorithm (:func:`silx.math.fit.peak_search`) """ self.theories = OrderedDict() """Dictionary of fit theories, defining functions to be fitted to individual peaks. Keys are descriptive theory names (e.g "Gaussians" or "Step up"). Values are :class:`silx.math.fit.fittheory.FitTheory` objects with the following attributes: - *"function"* is the fit function for an individual peak - *"parameters"* is a sequence of parameter names - *"estimate"* is the parameter estimation function - *"configure"* is the function returning the configuration dict for the theory in the format described in the :attr:` fitconfig` documentation - *"derivative"* (optional) is a custom derivative function, whose signature is described in the documentation of :func:`silx.math.fit.leastsq.leastsq` (``model_deriv(xdata, parameters, index)``). - *"description"* is a description string """ self.selectedtheory = None """Name of currently selected theory. This name matches a key in :attr:`theories`.""" self.bgtheories = OrderedDict() """Dictionary of background theories. See :attr:`theories` for documentation on theories. """ # Load default theories (constant, linear, strip) self.loadbgtheories(bgtheories) self.selectedbg = 'No Background' """Name of currently selected background theory. This name must be an existing key in :attr:`bgtheories`.""" self.fit_results = [] """This list stores detailed information about all fit parameters. It is initialized in :meth:`estimate` and completed with final fit values in :meth:`runfit`. Each fit parameter is stored as a dictionary with following fields: - 'name': Parameter name. - 'estimation': Estimated value. - 'group': Group number. Group 0 corresponds to the background function parameters. Group ``n`` (for ``n>0``) corresponds to the fit function parameters for the n-th peak. - 'code': Constraint code - 0 - FREE - 1 - POSITIVE - 2 - QUOTED - 3 - FIXED - 4 - FACTOR - 5 - DELTA - 6 - SUM - 'cons1': - Ignored if 'code' is FREE, POSITIVE or FIXED. - Min value of the parameter if code is QUOTED - Index of fitted parameter to which 'cons2' is related if code is FACTOR, DELTA or SUM. - 'cons2': - Ignored if 'code' is FREE, POSITIVE or FIXED. - Max value of the parameter if QUOTED - Factor to apply to related parameter with index 'cons1' if 'code' is FACTOR - Difference with parameter with index 'cons1' if 'code' is DELTA - Sum obtained when adding parameter with index 'cons1' if 'code' is SUM - 'fitresult': Fitted value. - 'sigma': Standard deviation for the parameter estimate - 'xmin': Lower limit of the ``x`` data range on which the fit was performed - 'xmax': Upeer limit of the ``x`` data range on which the fit was performed """ self.parameter_names = [] """This list stores all fit parameter names: background function parameters and fit function parameters for every peak. It is filled in :meth:`estimate`. It is the responsibility of the estimate function defined in :attr:`theories` to determine how many parameters are needed, based on how many peaks are detected and how many parameters are needed to fit an individual peak. """ self.setdata(x, y, sigmay) ################## # Public methods # ################## def addbackground(self, bgname, bgtheory): """Add a new background theory to dictionary :attr:`bgtheories`. :param bgname: String with the name describing the function :param bgtheory: :class:`FitTheory` object :type bgtheory: :class:`silx.math.fit.fittheory.FitTheory` """ self.bgtheories[bgname] = bgtheory def addtheory(self, name, theory=None, function=None, parameters=None, estimate=None, configure=None, derivative=None, description=None, pymca_legacy=False): """Add a new theory to dictionary :attr:`theories`. You can pass a name and a :class:`FitTheory` object as arguments, or alternatively provide all arguments necessary to instantiate a new :class:`FitTheory` object. See :meth:`loadtheories` for more information on estimation functions, configuration functions and custom derivative functions. :param name: String with the name describing the function :param theory: :class:`FitTheory` object, defining a fit function and associated information (estimation function, description…). If this parameter is provided, all other parameters, except for ``name``, are ignored. :type theory: :class:`silx.math.fit.fittheory.FitTheory` :param function function: Mandatory argument if ``theory`` is not provided. See documentation for :attr:`silx.math.fit.fittheory.FitTheory.function`. :param list[str] parameters: Mandatory argument if ``theory`` is not provided. See documentation for :attr:`silx.math.fit.fittheory.FitTheory.parameters`. :param function estimate: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.estimate` :param function configure: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.configure` :param function derivative: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.derivative` :param str description: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.description` :param config_widget: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.config_widget` :param bool pymca_legacy: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.pymca_legacy` """ if theory is not None: self.theories[name] = theory elif function is not None and parameters is not None: self.theories[name] = FitTheory( description=description, function=function, parameters=parameters, estimate=estimate, configure=configure, derivative=derivative, pymca_legacy=pymca_legacy ) else: raise TypeError("You must supply a FitTheory object or define " + "a fit function and its parameters.") def addbgtheory(self, name, theory=None, function=None, parameters=None, estimate=None, configure=None, derivative=None, description=None): """Add a new theory to dictionary :attr:`bgtheories`. You can pass a name and a :class:`FitTheory` object as arguments, or alternatively provide all arguments necessary to instantiate a new :class:`FitTheory` object. :param name: String with the name describing the function :param theory: :class:`FitTheory` object, defining a fit function and associated information (estimation function, description…). If this parameter is provided, all other parameters, except for ``name``, are ignored. :type theory: :class:`silx.math.fit.fittheory.FitTheory` :param function function: Mandatory argument if ``theory`` is not provided. See documentation for :attr:`silx.math.fit.fittheory.FitTheory.function`. :param list[str] parameters: Mandatory argument if ``theory`` is not provided. See documentation for :attr:`silx.math.fit.fittheory.FitTheory.parameters`. :param function estimate: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.estimate` :param function configure: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.configure` :param function derivative: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.derivative` :param str description: See documentation for :attr:`silx.math.fit.fittheory.FitTheory.description` """ if theory is not None: self.bgtheories[name] = theory elif function is not None and parameters is not None: self.bgtheories[name] = FitTheory( description=description, function=function, parameters=parameters, estimate=estimate, configure=configure, derivative=derivative, is_background=True ) else: raise TypeError("You must supply a FitTheory object or define " + "a background function and its parameters.") def configure(self, **kw): """Configure the current theory by filling or updating the :attr:`fitconfig` dictionary. Call the custom configuration function, if any. This allows the user to modify the behavior of the custom fit function or the custom estimate function. This methods accepts only named parameters. All ``**kw`` parameters are expected to be fields of :attr:`fitconfig` to be updated, unless they have a special meaning for the custom configuration function of the currently selected theory.. This method returns the modified config dictionary returned by the custom configuration function. """ # inspect **kw to find known keys, update them in self.fitconfig for key in self.fitconfig: if key in kw: self.fitconfig[key] = kw[key] # initialize dict with existing config dict result = {} result.update(self.fitconfig) if "WeightFlag" in kw: if kw["WeightFlag"]: self.enableweight() else: self.disableweight() if self.selectedtheory is None: return result # Apply custom configuration function custom_config_fun = self.theories[self.selectedtheory].configure if custom_config_fun is not None: result.update(custom_config_fun(**kw)) custom_bg_config_fun = self.bgtheories[self.selectedbg].configure if custom_bg_config_fun is not None: result.update(custom_bg_config_fun(**kw)) # Update self.fitconfig with custom config for key in self.fitconfig: if key in result: self.fitconfig[key] = result[key] result.update(self.fitconfig) return result def estimate(self, callback=None): """ Fill :attr:`fit_results` with an estimation of the fit parameters. At first, the background parameters are estimated, if a background model has been specified. Then, a custom estimation function related to the model function is called. This process determines the number of needed fit parameters and provides an initial estimation for them, to serve as an input for the actual iterative fitting performed in :meth:`runfit`. :param callback: Optional callback function, conforming to the signature ``callback(data)`` with ``data`` being a dictionary. This callback function is called before and after the estimation process, and is given a dictionary containing the values of :attr:`state` (``'Estimate in progress'`` or ``'Ready to Fit'``) and :attr:`chisq`. This is used for instance in :mod:`silx.gui.fit.FitWidget` to update a widget displaying a status message. :return: Estimated parameters """ self.state = 'Estimate in progress' self.chisq = None if callback is not None: callback(data={'chisq': self.chisq, 'status': self.state}) CONS = {0: 'FREE', 1: 'POSITIVE', 2: 'QUOTED', 3: 'FIXED', 4: 'FACTOR', 5: 'DELTA', 6: 'SUM', 7: 'IGNORE'} xwork = self.xdata ywork = self.ydata # estimate the background bg_params, bg_constraints = self.estimate_bkg(xwork, ywork) # estimate the function try: fun_params, fun_constraints = self.estimate_fun(xwork, ywork) except LinAlgError: self.state = 'Estimate failed' if callback is not None: callback(data={'status': self.state}) raise # build the names self.parameter_names = [] for bg_param_name in self.bgtheories[self.selectedbg].parameters: self.parameter_names.append(bg_param_name) fun_param_names = self.theories[self.selectedtheory].parameters param_index, peak_index = 0, 0 while param_index < len(fun_params): peak_index += 1 for fun_param_name in fun_param_names: self.parameter_names.append(fun_param_name + "%d" % peak_index) param_index += 1 self.fit_results = [] nb_fun_params_per_group = len(fun_param_names) group_number = 0 xmin = min(xwork) xmax = max(xwork) nb_bg_params = len(bg_params) for (pindex, pname) in enumerate(self.parameter_names): # First come background parameters if pindex < nb_bg_params: estimation_value = bg_params[pindex] constraint_code = CONS[int(bg_constraints[pindex][0])] cons1 = bg_constraints[pindex][1] cons2 = bg_constraints[pindex][2] # then come peak function parameters else: fun_param_index = pindex - nb_bg_params # increment group_number for each new fitted peak if (fun_param_index % nb_fun_params_per_group) == 0: group_number += 1 estimation_value = fun_params[fun_param_index] constraint_code = CONS[int(fun_constraints[fun_param_index][0])] # cons1 is the index of another fit parameter. In the global # fit_results, we must adjust the index to account for the bg # params added to the start of the list. cons1 = fun_constraints[fun_param_index][1] if constraint_code in ["FACTOR", "DELTA", "SUM"]: cons1 += nb_bg_params cons2 = fun_constraints[fun_param_index][2] self.fit_results.append({'name': pname, 'estimation': estimation_value, 'group': group_number, 'code': constraint_code, 'cons1': cons1, 'cons2': cons2, 'fitresult': 0.0, 'sigma': 0.0, 'xmin': xmin, 'xmax': xmax}) self.state = 'Ready to Fit' self.chisq = None self.niter = 0 if callback is not None: callback(data={'chisq': self.chisq, 'status': self.state}) return numpy.append(bg_params, fun_params) def fit(self): """Convenience method to call :meth:`estimate` followed by :meth:`runfit`. :return: Output of :meth:`runfit`""" self.estimate() return self.runfit() def gendata(self, x=None, paramlist=None, estimated=False): """Return a data array using the currently selected fit function and the fitted parameters. :param x: Independent variable where the function is calculated. If ``None``, use :attr:`xdata`. :param paramlist: List of dictionaries, each dictionary item being a fit parameter. The dictionary's format is documented in :attr:`fit_results`. If ``None`` (default), use parameters from :attr:`fit_results`. :param estimated: If *True*, use estimated parameters. :return: :meth:`fitfunction` calculated for parameters whose code is not set to ``"IGNORE"``. This calculates :meth:`fitfunction` on `x` data using fit parameters from a list of parameter dictionaries, if field ``code`` is not set to ``"IGNORE"``. """ if x is None: x = self.xdata if paramlist is None: paramlist = self.fit_results active_params = [] for param in paramlist: if param['code'] not in ['IGNORE', 7]: if not estimated: active_params.append(param['fitresult']) else: active_params.append(param['estimation']) newdata = self.fitfunction(numpy.array(x), *active_params) return newdata def get_estimation(self): """Return the list of fit parameter names.""" if self.state not in ["Ready to fit", "Fit in progress", "Ready"]: _logger.warning("get_estimation() called before estimate() completed") return [param["estimation"] for param in self.fit_results] def get_names(self): """Return the list of fit parameter estimations.""" if self.state not in ["Ready to fit", "Fit in progress", "Ready"]: msg = "get_names() called before estimate() completed, " msg += "names are not populated at this stage" _logger.warning(msg) return [param["name"] for param in self.fit_results] def get_fitted_parameters(self): """Return the list of fitted parameters.""" if self.state not in ["Ready"]: msg = "get_fitted_parameters() called before runfit() completed, " msg += "results are not available a this stage" _logger.warning(msg) return [param["fitresult"] for param in self.fit_results] def loadtheories(self, theories): """Import user defined fit functions defined in an external Python source file, and save them in :attr:`theories`. An example of such a file can be found in the sources of :mod:`silx.math.fit.fittheories`. It must contain a dictionary named ``THEORY`` with the following structure:: THEORY = { 'theory_name_1': FitTheory(description='Description of theory 1', function=fitfunction1, parameters=('param name 1', 'param name 2', …), estimate=estimation_function1, configure=configuration_function1, derivative=derivative_function1), 'theory_name_2': FitTheory(…), } See documentation of :mod:`silx.math.fit.fittheories` and :mod:`silx.math.fit.fittheory` for more information on designing your fit functions file. This method can also load user defined functions in the legacy format used in *PyMca*. :param theories: Name of python source file, or module containing the definition of fit functions. :raise: ImportError if theories cannot be imported """ from types import ModuleType if isinstance(theories, ModuleType): theories_module = theories else: # if theories is not a module, it must be a string string_types = (basestring,) if sys.version_info[0] == 2 else (str,) # noqa if not isinstance(theories, string_types): raise ImportError("theory must be a python module, a module" + "name or a python filename") # if theories is a filename if os.path.isfile(theories): sys.path.append(os.path.dirname(theories)) f = os.path.basename(os.path.splitext(theories)[0]) theories_module = __import__(f) # if theories is a module name else: theories_module = __import__(theories) if hasattr(theories_module, "INIT"): theories.INIT() if not hasattr(theories_module, "THEORY"): msg = "File %s does not contain a THEORY dictionary" % theories raise ImportError(msg) elif isinstance(theories_module.THEORY, dict): # silx format for theory definition for theory_name, fittheory in list(theories_module.THEORY.items()): self.addtheory(theory_name, fittheory) else: self._load_legacy_theories(theories_module) def loadbgtheories(self, theories): """Import user defined background functions defined in an external Python module (source file), and save them in :attr:`theories`. An example of such a file can be found in the sources of :mod:`silx.math.fit.fittheories`. It must contain a dictionary named ``THEORY`` with the following structure:: THEORY = { 'theory_name_1': FitTheory(description='Description of theory 1', function=fitfunction1, parameters=('param name 1', 'param name 2', …), estimate=estimation_function1, configure=configuration_function1, 'theory_name_2': FitTheory(…), } See documentation of :mod:`silx.math.fit.bgtheories` and :mod:`silx.math.fit.fittheory` for more information on designing your background functions file. :param theories: Module or name of python source file containing the definition of background functions. :raise: ImportError if theories cannot be imported """ from types import ModuleType if isinstance(theories, ModuleType): theories_module = theories else: # if theories is not a module, it must be a string string_types = (basestring,) if sys.version_info[0] == 2 else (str,) # noqa if not isinstance(theories, string_types): raise ImportError("theory must be a python module, a module" + "name or a python filename") # if theories is a filename if os.path.isfile(theories): sys.path.append(os.path.dirname(theories)) f = os.path.basename(os.path.splitext(theories)[0]) theories_module = __import__(f) # if theories is a module name else: theories_module = __import__(theories) if hasattr(theories_module, "INIT"): theories.INIT() if not hasattr(theories_module, "THEORY"): msg = "File %s does not contain a THEORY dictionary" % theories raise ImportError(msg) elif isinstance(theories_module.THEORY, dict): # silx format for theory definition for theory_name, fittheory in list(theories_module.THEORY.items()): self.addbgtheory(theory_name, fittheory) def setbackground(self, theory): """Choose a background type from within :attr:`bgtheories`. This updates :attr:`selectedbg`. :param theory: The name of the background to be used. :raise: KeyError if ``theory`` is not a key of :attr:`bgtheories``. """ if theory in self.bgtheories: self.selectedbg = theory else: msg = "No theory with name %s in bgtheories.\n" % theory msg += "Available theories: %s\n" % self.bgtheories.keys() raise KeyError(msg) # run configure to apply our fitconfig to the selected theory # through its custom config function self.configure(**self.fitconfig) def setdata(self, x, y, sigmay=None, xmin=None, xmax=None): """Set data attributes: - ``xdata0``, ``ydata0`` and ``sigmay0`` store the initial data and uncertainties. These attributes are not modified after initialization. - ``xdata``, ``ydata`` and ``sigmay`` store the data after removing values where ``xdata < xmin`` or ``xdata > xmax``. These attributes may be modified at a latter stage by filters. :param x: Abscissa data. If ``None``, :attr:`xdata`` is set to ``numpy.array([0.0, 1.0, 2.0, ..., len(y)-1])`` :type x: Sequence or numpy array or None :param y: The dependant data ``y = f(x)``. ``y`` must have the same shape as ``x`` if ``x`` is not ``None``. :type y: Sequence or numpy array or None :param sigmay: The uncertainties in the ``ydata`` array. These are used as weights in the least-squares problem. If ``None``, the uncertainties are assumed to be 1. :type sigmay: Sequence or numpy array or None :param xmin: Lower value of x values to use for fitting :param xmax: Upper value of x values to use for fitting """ if y is None: self.xdata0 = numpy.array([], numpy.float) self.ydata0 = numpy.array([], numpy.float) # self.sigmay0 = numpy.array([], numpy.float) self.xdata = numpy.array([], numpy.float) self.ydata = numpy.array([], numpy.float) # self.sigmay = numpy.array([], numpy.float) else: self.ydata0 = numpy.array(y) self.ydata = numpy.array(y) if x is None: self.xdata0 = numpy.arange(len(self.ydata0)) self.xdata = numpy.arange(len(self.ydata0)) else: self.xdata0 = numpy.array(x) self.xdata = numpy.array(x) # default weight if sigmay is None: self.sigmay0 = None self.sigmay = numpy.sqrt(self.ydata) if self.fitconfig["WeightFlag"] else None else: self.sigmay0 = numpy.array(sigmay) self.sigmay = numpy.array(sigmay) if self.fitconfig["WeightFlag"] else None # take the data between limits, using boolean array indexing if (xmin is not None or xmax is not None) and len(self.xdata): xmin = xmin if xmin is not None else min(self.xdata) xmax = xmax if xmax is not None else max(self.xdata) bool_array = (self.xdata >= xmin) & (self.xdata <= xmax) self.xdata = self.xdata[bool_array] self.ydata = self.ydata[bool_array] self.sigmay = self.sigmay[bool_array] if sigmay is not None else None def enableweight(self): """This method can be called to set :attr:`sigmay`. If :attr:`sigmay0` was filled with actual uncertainties in :meth:`setdata`, use these values. Else, use ``sqrt(self.ydata)``. """ if self.sigmay0 is None: self.sigmay = numpy.sqrt(self.ydata) if self.fitconfig["WeightFlag"] else None else: self.sigmay = self.sigmay0 def disableweight(self): """This method can be called to set :attr:`sigmay` equal to ``None``. As a result, :func:`leastsq` will consider that the weights in the least square problem are 1 for all samples.""" self.sigmay = None def settheory(self, theory): """Pick a theory from :attr:`theories`. :param theory: Name of the theory to be used. :raise: KeyError if ``theory`` is not a key of :attr:`theories`. """ if theory is None: self.selectedtheory = None elif theory in self.theories: self.selectedtheory = theory else: msg = "No theory with name %s in theories.\n" % theory msg += "Available theories: %s\n" % self.theories.keys() raise KeyError(msg) # run configure to apply our fitconfig to the selected theory # through its custom config function self.configure(**self.fitconfig) def runfit(self, callback=None): """Run the actual fitting and fill :attr:`fit_results` with fit results. Before running this method, :attr:`fit_results` must already be populated with a list of all parameters and their estimated values. For this, run :meth:`estimate` beforehand. :param callback: Optional callback function, conforming to the signature ``callback(data)`` with ``data`` being a dictionary. This callback function is called before and after the estimation process, and is given a dictionary containing the values of :attr:`state` (``'Fit in progress'`` or ``'Ready'``) and :attr:`chisq`. This is used for instance in :mod:`silx.gui.fit.FitWidget` to update a widget displaying a status message. :return: Tuple ``(fitted parameters, uncertainties, infodict)``. *infodict* is the dictionary returned by :func:`silx.math.fit.leastsq` when called with option ``full_output=True``. Uncertainties is a sequence of uncertainty values associated with each fitted parameter. """ # self.dataupdate() self.state = 'Fit in progress' self.chisq = None if callback is not None: callback(data={'chisq': self.chisq, 'status': self.state}) param_val = [] param_constraints = [] # Initial values are set to the ones computed in estimate() for param in self.fit_results: param_val.append(param['estimation']) param_constraints.append([param['code'], param['cons1'], param['cons2']]) ywork = self.ydata try: params, covariance_matrix, infodict = leastsq( self.fitfunction, # bg + actual model function self.xdata, ywork, param_val, sigma=self.sigmay, constraints=param_constraints, model_deriv=self.theories[self.selectedtheory].derivative, full_output=True, left_derivative=True) except LinAlgError: self.state = 'Fit failed' callback(data={'status': self.state}) raise sigmas = infodict['uncertainties'] for i, param in enumerate(self.fit_results): if param['code'] != 'IGNORE': param['fitresult'] = params[i] param['sigma'] = sigmas[i] self.chisq = infodict["reduced_chisq"] self.niter = infodict["niter"] self.state = 'Ready' if callback is not None: callback(data={'chisq': self.chisq, 'status': self.state}) return params, sigmas, infodict ################### # Private methods # ################### def fitfunction(self, x, *pars): """Function to be fitted. This is the sum of the selected background function plus the selected fit model function. :param x: Independent variable where the function is calculated. :param pars: Sequence of all fit parameters. The first few parameters are background parameters, then come the peak function parameters. :return: Output of the fit function with ``x`` as input and ``pars`` as fit parameters. """ result = numpy.zeros(numpy.shape(x), numpy.float) if self.selectedbg is not None: bg_pars_list = self.bgtheories[self.selectedbg].parameters nb_bg_pars = len(bg_pars_list) bgfun = self.bgtheories[self.selectedbg].function result += bgfun(x, self.ydata, *pars[0:nb_bg_pars]) else: nb_bg_pars = 0 selectedfun = self.theories[self.selectedtheory].function result += selectedfun(x, *pars[nb_bg_pars:]) return result def estimate_bkg(self, x, y): """Estimate background parameters using the function defined in the current fit configuration. To change the selected background model, attribute :attr:`selectdbg` must be changed using method :meth:`setbackground`. The actual background function to be used is referenced in :attr:`bgtheories` :param x: Sequence of x data :param y: sequence of y data :return: Tuple of two sequences and one data array ``(estimated_param, constraints, bg_data)``: - ``estimated_param`` is a list of estimated values for each background parameter. - ``constraints`` is a 2D sequence of dimension ``(n_parameters, 3)`` - ``constraints[i][0]``: Constraint code. See explanation about codes in :attr:`fit_results` - ``constraints[i][1]`` See explanation about 'cons1' in :attr:`fit_results` documentation. - ``constraints[i][2]`` See explanation about 'cons2' in :attr:`fit_results` documentation. """ background_estimate_function = self.bgtheories[self.selectedbg].estimate if background_estimate_function is not None: return background_estimate_function(x, y) else: return [], [] def estimate_fun(self, x, y): """Estimate fit parameters using the function defined in the current fit configuration. :param x: Sequence of x data :param y: sequence of y data :param bg: Background signal, to be subtracted from ``y`` before fitting. :return: Tuple of two sequences ``(estimated_param, constraints)``: - ``estimated_param`` is a list of estimated values for each background parameter. - ``constraints`` is a 2D sequence of dimension (n_parameters, 3) - ``constraints[i][0]``: Constraint code. See explanation about codes in :attr:`fit_results` - ``constraints[i][1]`` See explanation about 'cons1' in :attr:`fit_results` documentation. - ``constraints[i][2]`` See explanation about 'cons2' in :attr:`fit_results` documentation. :raise: ``TypeError`` if estimation function is not callable """ estimatefunction = self.theories[self.selectedtheory].estimate if hasattr(estimatefunction, '__call__'): if not self.theories[self.selectedtheory].pymca_legacy: return estimatefunction(x, y) else: # legacy pymca estimate functions have a different signature if self.fitconfig["fitbkg"] == "No Background": bg = numpy.zeros_like(y) else: if self.fitconfig["SmoothingFlag"]: y = smooth1d(y) bg = strip(y, w=self.fitconfig["StripWidth"], niterations=self.fitconfig["StripIterations"], factor=self.fitconfig["StripThresholdFactor"]) # fitconfig can be filled by user defined config function xscaling = self.fitconfig.get('Xscaling', 1.0) yscaling = self.fitconfig.get('Yscaling', 1.0) return estimatefunction(x, y, bg, xscaling, yscaling) else: raise TypeError("Estimation function in attribute " + "theories[%s]" % self.selectedtheory + " must be callable.") def _load_legacy_theories(self, theories_module): """Load theories from a custom module in the old PyMca format. See PyMca5.PyMcaMath.fitting.SpecfitFunctions for an example. """ mandatory_attributes = ["THEORY", "PARAMETERS", "FUNCTION", "ESTIMATE"] err_msg = "Custom fit function file must define: " err_msg += ", ".join(mandatory_attributes) for attr in mandatory_attributes: if not hasattr(theories_module, attr): raise ImportError(err_msg) derivative = theories_module.DERIVATIVE if hasattr(theories_module, "DERIVATIVE") else None configure = theories_module.CONFIGURE if hasattr(theories_module, "CONFIGURE") else None estimate = theories_module.ESTIMATE if hasattr(theories_module, "ESTIMATE") else None if isinstance(theories_module.THEORY, (list, tuple)): # multiple fit functions for i in range(len(theories_module.THEORY)): deriv = derivative[i] if derivative is not None else None config = configure[i] if configure is not None else None estim = estimate[i] if estimate is not None else None self.addtheory(theories_module.THEORY[i], FitTheory( theories_module.FUNCTION[i], theories_module.PARAMETERS[i], estim, config, deriv, pymca_legacy=True)) else: # single fit function self.addtheory(theories_module.THEORY, FitTheory( theories_module.FUNCTION, theories_module.PARAMETERS, estimate, configure, derivative, pymca_legacy=True)) def test(): from .functions import sum_gauss from . import fittheories from . import bgtheories # Create synthetic data with a sum of gaussian functions x = numpy.arange(1000).astype(numpy.float) p = [1000, 100., 250, 255, 690., 45, 1500, 800.5, 95] y = 0.5 * x + 13 + sum_gauss(x, *p) # Fitting fit = FitManager() # more sensitivity necessary to resolve # overlapping peaks at x=690 and x=800.5 fit.setdata(x=x, y=y) fit.loadtheories(fittheories) fit.settheory('Gaussians') fit.loadbgtheories(bgtheories) fit.setbackground('Linear') fit.estimate() fit.runfit() print("Searched parameters = ", p) print("Obtained parameters : ") dummy_list = [] for param in fit.fit_results: print(param['name'], ' = ', param['fitresult']) dummy_list.append(param['fitresult']) print("chisq = ", fit.chisq) # Plot constant, slope = dummy_list[:2] p1 = dummy_list[2:] print(p1) y2 = slope * x + constant + sum_gauss(x, *p1) try: from silx.gui import qt from silx.gui.plot.PlotWindow import PlotWindow app = qt.QApplication([]) pw = PlotWindow(control=True) pw.addCurve(x, y, "Original") pw.addCurve(x, y2, "Fit result") pw.legendsDockWidget.show() pw.show() app.exec_() except ImportError: _logger.warning("Could not import qt to display fit result as curve") if __name__ == "__main__": test() silx-0.6.1/silx/math/fit/functions_wrapper.pxd0000644023630100076410000001232313202530432022113 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "14/06/2016" cimport cython cdef extern from "functions.h": int erfc_array(double* x, int len_x, double* y) int erf_array(double* x, int len_x, double* y); void snip1d(double *data, int size, int width) void snip2d(double *data, int nrows, int ncolumns, int width) void snip3d(double *data, int nx, int ny, int nz, int width) int strip(double* input, long len_input, double c, long niter, int deltai, long* anchors, long len_anchors, double* output) int sum_gauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y) int sum_agauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y) int sum_fastagauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y) int sum_splitgauss(double* x, int len_x, double* pgauss, int len_pgauss, double* y) int sum_apvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y) int sum_pvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y) int sum_splitpvoigt(double* x, int len_x, double* pvoigt, int len_pvoigt, double* y) int sum_lorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y) int sum_alorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y) int sum_splitlorentz(double* x, int len_x, double* plorentz, int len_plorentz, double* y) int sum_stepdown(double* x, int len_x, double* pdstep, int len_pdstep, double* y) int sum_stepup(double* x, int len_x, double* pustep, int len_pustep, double* y) int sum_slit(double* x, int len_x, double* pslit, int len_pslit, double* y) int sum_ahypermet(double* x, int len_x, double* phypermet, int len_phypermet, double* y, int tail_flags) int sum_fastahypermet(double* x, int len_x, double* phypermet, int len_phypermet, double* y, int tail_flags) long seek(long begin_index, long end_index, long nsamples, double fwhm, double sensitivity, double debug_info, long max_npeaks, double * data, double * peaks, double * relevances) int SavitskyGolay(double* input, long len_input, int npoints, double* output) silx-0.6.1/silx/math/fit/setup.py0000644023630100076410000000625713202530432017351 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "22/06/2016" import os.path import numpy from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('fit', parent_package, top_path) config.add_subpackage('test') # ===================================== # fit functions # ===================================== fun_src = [os.path.join('functions', "src", "funs.c"), "functions.pyx"] fun_inc = [os.path.join('functions', 'include'), numpy.get_include()] config.add_extension('functions', sources=fun_src, include_dirs=fun_inc, language='c') # ===================================== # fit filters # ===================================== filt_src = [os.path.join('filters', "src", srcf) for srcf in ["smoothnd.c", "snip1d.c", "snip2d.c", "snip3d.c", "strip.c"]] filt_src.append("filters.pyx") filt_inc = [os.path.join('filters', 'include'), numpy.get_include()] config.add_extension('filters', sources=filt_src, include_dirs=filt_inc, language='c') # ===================================== # peaks # ===================================== peaks_src = [os.path.join('peaks', "src", "peaks.c"), "peaks.pyx"] peaks_inc = [os.path.join('peaks', 'include'), numpy.get_include()] config.add_extension('peaks', sources=peaks_src, include_dirs=peaks_inc, language='c') # ===================================== # ===================================== return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/math/fit/filters/0000755023630100076410000000000013202537043017302 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/filters/include/0000755023630100076410000000000013202537043020725 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/filters/include/filters.h0000644023630100076410000000376613202530306022555 0ustar knobelusers00000000000000/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ #ifndef FITFILTERSH #define FITFILTERS_H /* Background functions */ void snip1d(double *data, int size, int width); //void snip1d_multiple(double *data, int n_channels, int snip_width, int n_spectra); void snip2d(double *data, int nrows, int ncolumns, int width); void snip3d(double *data, int nx, int ny, int nz, int width); int strip(double* input, long len_input, double c, long niter, int deltai, long* anchors, long len_anchors, double* output); /* Smoothing functions */ int SavitskyGolay(double* input, long len_input, int npoints, double* output); void smooth1d(double *data, int size); void smooth2d(double *data, int size0, int size1); void smooth3d(double *data, int size0, int size1, int size2); #endif /* #define FITFILTERS_H */ silx-0.6.1/silx/math/fit/filters/src/0000755023630100076410000000000013202537043020071 5ustar knobelusers00000000000000silx-0.6.1/silx/math/fit/filters/src/smoothnd.c0000644023630100076410000002250213202530306022064 0ustar knobelusers00000000000000#/*########################################################################## # # Copyright (c) 2004-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ #include #include #include #define MIN(x, y) (((x) < (y)) ? (x) : (y)) #define MAX(x, y) (((x) > (y)) ? (x) : (y)) #define MAX_SAVITSKY_GOLAY_WIDTH 101 #define MIN_SAVITSKY_GOLAY_WIDTH 3 /* Wrapped functions */ void smooth1d(double *data, int size); void smooth2d(double *data, int size0, int size1); void smooth3d(double *data, int size0, int size1, int size2); int SavitskyGolay(double* input, long len_input, int npoints, double* output); /* Internal functions */ long index2d(long row_idx, long col_idx, long ncols); long index3d(long x_idx, long y_idx, long z_idx, long ny, long nz); void smooth1d_rows(double *data, long nrows, long ncols); void smooth1d_cols(double *data, long nrows, long ncols); void smooth1d_x(double *data, long nx, long ny, long nz); void smooth1d_y(double *data, long nx, long ny, long nz); void smooth1d_z(double *data, long nx, long ny, long nz); void smooth2d_yzslice(double *data, long nx, long ny, long nz); void smooth2d_xzslice(double *data, long nx, long ny, long nz); void smooth2d_xyslice(double *data, long nx, long ny, long nz); /* Simple smoothing of a 1D array */ void smooth1d(double *data, int size) { long i; double prev_sample; double next_sample; if (size < 3) { return; } prev_sample = data[0]; for (i=0; i<(size-1); i++) { next_sample = 0.25 * (prev_sample + 2 * data[i] + data[i+1]); prev_sample = data[i]; data[i] = next_sample; } data[size-1] = 0.25 * prev_sample + 0.75 * data[size-1]; return; } /* Smoothing of a 2D array*/ void smooth2d(double *data, int nrows, int ncols) { /* smooth the first dimension (rows) */ smooth1d_rows(data, nrows, ncols); /* smooth the 2nd dimension */ smooth1d_cols(data, nrows, ncols); } /* Smoothing of a 3D array */ void smooth3d(double *data, int nx, int ny, int nz) { smooth2d_xyslice(data, nx, ny, nz); smooth2d_xzslice(data, nx, ny, nz); smooth2d_yzslice(data, nx, ny, nz); } /* 1D Savitsky-Golay smoothing */ int SavitskyGolay(double* input, long len_input, int npoints, double* output) { //double dpoints = 5.; double coeff[MAX_SAVITSKY_GOLAY_WIDTH]; int i, j, m; double dhelp, den; double *data; memcpy(output, input, len_input * sizeof(double)); if (!(npoints % 2)) npoints +=1; if((npoints < MIN_SAVITSKY_GOLAY_WIDTH) || (len_input < npoints) || \ (npoints > MAX_SAVITSKY_GOLAY_WIDTH)) { /* do not smooth data */ return 1; } /* calculate the coefficients */ m = (int) (npoints/2); den = (double) ((2*m-1) * (2*m+1) * (2*m + 3)); for (i=0; i<= m; i++){ coeff[m+i] = (double) (3 * (3*m*m + 3*m - 1 - 5*i*i )); coeff[m-i] = coeff[m+i]; } /* simple smoothing at the beginning */ for (j=0; j<=(int)(npoints/3); j++) { smooth1d(output, m); } /* simple smoothing at the end */ for (j=0; j<=(int)(npoints/3); j++) { smooth1d((output+len_input-m-1), m); } /*one does not need the whole spectrum buffer, but code is clearer */ data = (double *) malloc(len_input * sizeof(double)); memcpy(data, output, len_input * sizeof(double)); /* the actual SG smoothing in the middle */ for (i=m; i<(len_input-m); i++){ dhelp = 0; for (j=-m;j<=m;j++) { dhelp += coeff[m+j] * (*(data+i+j)); } if(dhelp > 0.0){ *(output+i) = dhelp / den; } } free(data); return (0); } /*********************/ /* Utility functions */ /*********************/ long index2d(long row_idx, long col_idx, long ncols) { return (row_idx*ncols+col_idx); } /* Apply smooth 1d on all rows in a 2D array*/ void smooth1d_rows(double *data, long nrows, long ncols) { long row_idx; for (row_idx=0; row_idx < nrows; row_idx++) { smooth1d(&data[row_idx * ncols], ncols); } } /* Apply smooth 1d on all columns in a 2D array*/ void smooth1d_cols(double *data, long nrows, long ncols) { long row_idx, col_idx; long this_idx2d, next_idx2d; double prev_sample; double next_sample; for (col_idx=0; col_idx < ncols; col_idx++) { prev_sample = data[index2d(0, col_idx, ncols)]; for (row_idx=0; row_idx<(nrows-1); row_idx++) { this_idx2d = index2d(row_idx, col_idx, ncols); next_idx2d = index2d(row_idx+1, col_idx, ncols); next_sample = 0.25 * (prev_sample + \ 2 * data[this_idx2d] + \ data[next_idx2d]); prev_sample = data[this_idx2d]; data[this_idx2d] = next_sample; } this_idx2d = index2d(nrows-1, col_idx, ncols); data[this_idx2d] = 0.25 * prev_sample + 0.75 * data[this_idx2d]; } } long index3d(long x_idx, long y_idx, long z_idx, long ny, long nz) { return ((x_idx*ny + y_idx) * nz + z_idx); } /* Apply smooth 1d along first dimension in a 3D array*/ void smooth1d_x(double *data, long nx, long ny, long nz) { long x_idx, y_idx, z_idx; long this_idx3d, next_idx3d; double prev_sample; double next_sample; for (y_idx=0; y_idx < ny; y_idx++) { for (z_idx=0; z_idx < nz; z_idx++) { prev_sample = data[index3d(0, y_idx, z_idx, ny, nz)]; for (x_idx=0; x_idx<(nx-1); x_idx++) { this_idx3d = index3d(x_idx, y_idx, z_idx, ny, nz); next_idx3d = index3d(x_idx+1, y_idx, z_idx, ny, nz); next_sample = 0.25 * (prev_sample + \ 2 * data[this_idx3d] + \ data[next_idx3d]); prev_sample = data[this_idx3d]; data[this_idx3d] = next_sample; } this_idx3d = index3d(nx-1, y_idx, z_idx, ny, nz); data[this_idx3d] = 0.25 * prev_sample + 0.75 * data[this_idx3d]; } } } /* Apply smooth 1d along second dimension in a 3D array*/ void smooth1d_y(double *data, long nx, long ny, long nz) { long x_idx, y_idx, z_idx; long this_idx3d, next_idx3d; double prev_sample; double next_sample; for (x_idx=0; x_idx < nx; x_idx++) { for (z_idx=0; z_idx < nz; z_idx++) { prev_sample = data[index3d(x_idx, 0, z_idx, ny, nz)]; for (y_idx=0; y_idx<(ny-1); y_idx++) { this_idx3d = index3d(x_idx, y_idx, z_idx, ny, nz); next_idx3d = index3d(x_idx, y_idx+1, z_idx, ny, nz); next_sample = 0.25 * (prev_sample + \ 2 * data[this_idx3d] + \ data[next_idx3d]); prev_sample = data[this_idx3d]; data[this_idx3d] = next_sample; } this_idx3d = index3d(x_idx, ny-1, z_idx, ny, nz); data[this_idx3d] = 0.25 * prev_sample + 0.75 * data[this_idx3d]; } } } /* Apply smooth 1d along third dimension in a 3D array*/ void smooth1d_z(double *data, long nx, long ny, long nz) { long x_idx, y_idx; long idx3d_first_sample; for (x_idx=0; x_idx < nx; x_idx++) { for (y_idx=0; y_idx < ny; y_idx++) { idx3d_first_sample = index3d(x_idx, y_idx, 0, ny, nz); /*We can use regular 1D smoothing function because z samples are contiguous in memory*/ smooth1d(&data[idx3d_first_sample], nz); } } } /* 2D smoothing of a YZ slice in a 3D volume*/ void smooth2d_yzslice(double *data, long nx, long ny, long nz) { long x_idx; long slice_size = ny * nz; /* a YZ slice is a "normal" 2D array of memory-contiguous data*/ for (x_idx=0; x_idx < nx; x_idx++) { smooth2d(&data[x_idx*slice_size], ny, nz); } } /* 2D smoothing of a XZ slice in a 3D volume*/ void smooth2d_xzslice(double *data, long nx, long ny, long nz) { /* smooth along the first dimension */ smooth1d_x(data, nx, ny, nz); /* smooth along the third dimension */ smooth1d_z(data, nx, ny, nz); } /* 2D smoothing of a XY slice in a 3D volume*/ void smooth2d_xyslice(double *data, long nx, long ny, long nz) { /* smooth along the first dimension */ smooth1d_x(data, nx, ny, nz); /* smooth along the second dimension */ smooth1d_y(data, nx, ny, nz); } silx-0.6.1/silx/math/fit/filters/src/snip3d.c0000644023630100076410000001516213202530306021435 0ustar knobelusers00000000000000#/*########################################################################## # # The PyMca X-Ray Fluorescence Toolkit # # Copyright (c) 2004-2014 European Synchrotron Radiation Facility # # This file is part of the PyMca X-ray Fluorescence Toolkit developed at # the ESRF by the Software group. # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ /* Implementation of the algorithm SNIP in 3D described in Miroslav Morhac et al. Nucl. Instruments and Methods in Physics Research A401 (1997) 113-132. */ #include #include #include #define MIN(x, y) (((x) < (y)) ? (x) : (y)) #define MAX(x, y) (((x) > (y)) ? (x) : (y)) void lls(double *data, int size); void lls_inv(double *data, int size); void snip3d(double *data, int nx, int ny, int nz, int width) { int i, j, k; int p; int size; double *w; double P1, P2, P3, P4, P5, P6, P7, P8; double R1, R2, R3, R4, R5, R6; double S1, S2, S3, S4, S5, S6, S7, S8, S9, S10, S11, S12; double dhelp; long ioffset; long iplus; long imin; long joffset; long jplus; long jmin; size = nx * ny * nz; w = (double *) malloc(size * sizeof(double)); for (p=width; p > 0; p--) { for (i=p; i<(nx-p); i++) { ioffset = i * ny * nz; iplus = (i + p) * ny * nz; imin = (i - p) * ny * nz; for (j=p; j<(ny-p); j++) { joffset = j * nz; jplus = (j + p) * nz; jmin = (j - p) * nz; for (k=p; k<(nz-p); k++) { P1 = data[iplus + jplus + k-p]; /* P1 = data[i+p][j+p][k-p] */ P2 = data[imin + jplus + k-p]; /* P2 = data[i-p][j+p][k-p] */ P3 = data[iplus + jmin + k-p]; /* P3 = data[i+p][j-p][k-p] */ P4 = data[imin + jmin + k-p]; /* P4 = data[i-p][j-p][k-p] */ P5 = data[iplus + jplus + k+p]; /* P5 = data[i+p][j+p][k+p] */ P6 = data[imin + jplus + k+p]; /* P6 = data[i-p][j+p][k+p] */ P7 = data[imin + jmin + k+p]; /* P7 = data[i-p][j-p][k+p] */ P8 = data[iplus + jmin + k+p]; /* P8 = data[i+p][j-p][k+p] */ S1 = data[iplus + joffset + k-p]; /* S1 = data[i+p][j][k-p] */ S2 = data[ioffset + jmin + k-p]; /* S2 = data[i][j+p][k-p] */ S3 = data[imin + joffset + k-p]; /* S3 = data[i-p][j][k-p] */ S4 = data[ioffset + jmin + k-p]; /* S4 = data[i][j-p][k-p] */ S5 = data[imin + joffset + k+p]; /* S5 = data[i-p][j][k+p] */ S6 = data[ioffset + jplus + k+p]; /* S6 = data[i][j+p][k+p] */ S7 = data[imin + joffset + k+p]; /* S7 = data[i-p][j][k+p] */ S8 = data[ioffset + jmin + k+p]; /* S8 = data[i][j-p][k+p] */ S9 = data[imin + jplus + k]; /* S9 = data[i-p][j+p][k] */ S10 = data[imin + jmin + k]; /* S10 = data[i-p][j-p][k] */ S11 = data[iplus + jmin + k]; /* S11 = data[i+p][j-p][k] */ S12 = data[iplus + jplus + k]; /* S12 = data[i+p][j+p][k] */ R1 = data[ioffset + joffset + k-p]; /* R1 = data[i][j][k-p] */ R2 = data[ioffset + joffset + k+p]; /* R2 = data[i][j][k+p] */ R3 = data[imin + joffset + k]; /* R3 = data[i-p][j][k] */ R4 = data[iplus + joffset + k]; /* R4 = data[i+p][j][k] */ R5 = data[ioffset + jplus + k]; /* R5 = data[i][j+p][k] */ R6 = data[ioffset + jmin + k]; /* R6 = data[i][j-p][k] */ dhelp = 0.5*(P1+P3); S1 = MAX(S1, dhelp) - dhelp; dhelp = 0.5*(P1+P2); S2 = MAX(S2, dhelp) - dhelp; dhelp = 0.5*(P2+P4); S3 = MAX(S3, dhelp) - dhelp; dhelp = 0.5*(P3+P4); S4 = MAX(S4, dhelp) - dhelp; dhelp = 0.5*(P5+P8); /* Different from paper (P5+P7) but according to drawing */ S5 = MAX(S5, dhelp) - dhelp; dhelp = 0.5*(P5+P6); S6 = MAX(S6, dhelp) - dhelp; dhelp = 0.5*(P6+P7); /* Different from paper (P6+P8) but according to drawing */ S7 = MAX(S7, dhelp) - dhelp; dhelp = 0.5*(P7+P8); S8 = MAX(S8, dhelp) - dhelp; dhelp = 0.5*(P2+P6); S9 = MAX(S9, dhelp) - dhelp; dhelp = 0.5*(P4+P7); /* Different from paper (P4+P8) but according to drawing */ S10 = MAX(S10, dhelp) - dhelp; dhelp = 0.5*(P3+P8); /* Different from paper (P1+P5) but according to drawing */ S11 = MAX(S11, dhelp) - dhelp; dhelp = 0.5*(P1+P5); /* Different from paper (P3+P7) but according to drawing */ S12 = MAX(S12, dhelp) - dhelp; /* The published formulae correspond to have: P7 and P8 interchanged, and S11 and S12 interchanged with respect to the published drawing */ dhelp = 0.5 * (S1+S2+S3+S4) + 0.25 * (P1+P2+P3+P4); R1 = MAX(R1, dhelp) - dhelp; dhelp = 0.5 * (S5+S6+S7+S8) + 0.25 * (P5+P6+P7+P8); R2 = MAX(R2, dhelp) - dhelp; dhelp = 0.5 * (S3+S7+S9+S10) + 0.25 * (P2+P4+P6+P7); /* Again same P7 and P8 change */ R3 = MAX(R3, dhelp) - dhelp; dhelp = 0.5 * (S1+S5+S11+S12) + 0.25 * (P1+P3+P5+P8); /* Again same P7 and P8 change */ R4 = MAX(R4, dhelp) - dhelp; dhelp = 0.5 * (S2+S6+S9+S12) + 0.25 * (P1+P2+P5+P6); /* Again same S11 and S12 change */ R5 = MAX(R5, dhelp) - dhelp; dhelp = 0.5 * (S4+S8+S10+S11) + 0.25 * (P3+P4+P7+P8); /* Again same S11 and S12 change */ R6 = MAX(R6, dhelp) - dhelp; dhelp = 0.5 * (R1 + R2 + R3 + R4 + R5 + R6) +\ 0.25 * (S1 + S2 + S3 + S4 + S5 + S6) +\ 0.25 * (S7 + S8 + S9 + S10 + S11 + S12) +\ 0.125 * (P1 + P2 + P3 + P4 + P5 + P6 + P7 + P8); w[ioffset + joffset + k] = MIN(data[ioffset + joffset + k], dhelp); } } } for (i=p; i<(nx-p); i++) { ioffset = i * ny * nz; for (j=p; j<(ny-p); j++) { joffset = j * nz; for (k=p; k<(nz-p); j++) { data[ioffset + joffset + k] = w[ioffset + joffset + k]; } } } } free(w); } silx-0.6.1/silx/math/fit/filters/src/snip2d.c0000644023630100076410000000657613202530306021445 0ustar knobelusers00000000000000#/*########################################################################## # # The PyMca X-Ray Fluorescence Toolkit # # Copyright (c) 2004-2014 European Synchrotron Radiation Facility # # This file is part of the PyMca X-ray Fluorescence Toolkit developed at # the ESRF by the Software group. # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ /* Implementation of the algorithm SNIP in 2D described in Miroslav Morhac et al. Nucl. Instruments and Methods in Physics Research A401 (1997) 113-132. */ #include #include #include #define MIN(x, y) (((x) < (y)) ? (x) : (y)) #define MAX(x, y) (((x) > (y)) ? (x) : (y)) void lls(double *data, int size); void lls_inv(double *data, int size); void snip2d(double *data, int nrows, int ncolumns, int width) { int i, j; int p; int size; double *w; double P1, P2, P3, P4; double S1, S2, S3, S4; double dhelp; int iminuspxncolumns; /* (i-p) * ncolumns */ int ixncolumns; /* i * ncolumns */ int ipluspxncolumns; /* (i+p) * ncolumns */ size = nrows * ncolumns; w = (double *) malloc(size * sizeof(double)); for (p=width; p > 0; p--) { for (i=p; i<(nrows-p); i++) { iminuspxncolumns = (i-p) * ncolumns; ixncolumns = i * ncolumns; ipluspxncolumns = (i+p) * ncolumns; for (j=p; j<(ncolumns-p); j++) { P4 = data[ iminuspxncolumns + (j-p)]; /* P4 = data[i-p][j-p] */ S4 = data[ iminuspxncolumns + j]; /* S4 = data[i-p][j] */ P2 = data[ iminuspxncolumns + (j+p)]; /* P2 = data[i-p][j+p] */ S3 = data[ ixncolumns + (j-p)]; /* S3 = data[i][j-p] */ S2 = data[ ixncolumns + (j+p)]; /* S2 = data[i][j+p] */ P3 = data[ ipluspxncolumns + (j-p)]; /* P3 = data[i+p][j-p] */ S1 = data[ ipluspxncolumns + j]; /* S1 = data[i+p][j] */ P1 = data[ ipluspxncolumns + (j+p)]; /* P1 = data[i+p][j+p] */ dhelp = 0.5*(P1+P3); S1 = MAX(S1, dhelp) - dhelp; dhelp = 0.5*(P1+P2); S2 = MAX(S2, dhelp) - dhelp; dhelp = 0.5*(P3+P4); S3 = MAX(S3, dhelp) - dhelp; dhelp = 0.5*(P2+P4); S4 = MAX(S4, dhelp) - dhelp; w[ixncolumns + j] = MIN(data[ixncolumns + j], 0.5 * (S1+S2+S3+S4) + 0.25 * (P1+P2+P3+P4)); } } for (i=p; i<(nrows-p); i++) { ixncolumns = i * ncolumns; for (j=p; j<(ncolumns-p); j++) { data[ixncolumns + j] = w[ixncolumns + j]; } } } free(w); } silx-0.6.1/silx/math/fit/filters/src/strip.c0000644023630100076410000001142413202530306021373 0ustar knobelusers00000000000000#/*########################################################################## # Copyright (c) 2004-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ /* This file provides a background strip function, to isolate low frequency background signal from a spectrum (and later substact it from the signal to be left only with the peaks to be fitted). It is adapted from PyMca source file "SpecFitFuns.c". The main difference with the original code is that this code does not handle the python wrapping, which is done elsewhere using cython. Authors: V.A. Sole, P. Knobel License: MIT Last modified: 17/06/2016 */ #include #include /* strip(double* input, double c, long niter, double* output) The strip background is probably PyMca's most popular background model. In its simplest implementation it is just as an iterative procedure depending on two parameters. These parameters are the strip background width w, and the strip background number of iterations. At each iteration, if the contents of channel i, y(i), is above the average of the contents of the channels at w channels of distance, y(i-w) and y(i+w), y(i) is replaced by the average. At the end of the process we are left with something that resembles a spectrum in which the peaks have been "stripped". Parameters: - input: Input data array - c: scaling factor applied to the average of y(i-w) and y(i+w) before comparing to y(i) - niter: number of iterations - deltai: operator width (in number of channels) - anchors: Array of anchors, indices of points that will not be modified during the stripping procedure. - output: output array */ int strip(double* input, long len_input, double c, long niter, int deltai, long* anchors, long len_anchors, double* output) { long iter_index, array_index, anchor_index, anchor; int anchor_nearby_flag; double t_mean; memcpy(output, input, len_input * sizeof(double)); if (deltai <=0) deltai = 1; if (len_input < (2*deltai+1)) return(-1); if (len_anchors > 0) { for (iter_index = 0; iter_index < niter; iter_index++) { for (array_index = deltai; array_index < len_input - deltai; array_index++) { /* if index is within +- deltai of an anchor, don't do anything */ anchor_nearby_flag = 0; for (anchor_index=0; anchor_index (anchor - deltai) && array_index < (anchor + deltai)) { anchor_nearby_flag = 1; break; } } /* skip this array_index index */ if (anchor_nearby_flag) { continue; } t_mean = 0.5 * (input[array_index-deltai] + input[array_index+deltai]); if (input[array_index] > (t_mean * c)) output[array_index] = t_mean; } memcpy(input, output, len_input * sizeof(double)); } } else { for (iter_index = 0; iter_index < niter; iter_index++) { for (array_index=deltai; array_index < len_input - deltai; array_index++) { t_mean = 0.5 * (input[array_index-deltai] + input[array_index+deltai]); if (input[array_index] > (t_mean * c)) output[array_index] = t_mean; } memcpy(input, output, len_input * sizeof(double)); } } return(0); } silx-0.6.1/silx/math/fit/filters/src/snip1d.c0000644023630100076410000000761413202530306021436 0ustar knobelusers00000000000000#/*########################################################################## # Copyright (c) 2004-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ /* Implementation of the algorithm SNIP in 1D described in Miroslav Morhac et al. Nucl. Instruments and Methods in Physics Research A401 (1997) 113-132. The original idea for 1D and the low-statistics-digital-filter (lsdf) come from C.G. Ryan et al. Nucl. Instruments and Methods in Physics Research B34 (1988) 396-402. */ #include #include #include #define MIN(x, y) (((x) < (y)) ? (x) : (y)) #define MAX(x, y) (((x) > (y)) ? (x) : (y)) void lls(double *data, int size); void lls_inv(double *data, int size); void snip1d(double *data, int n_channels, int snip_width); void snip1d_multiple(double *data, int n_channels, int snip_width, int n_spectra); void lsdf(double *data, int size, int fwhm, double f, double A, double M, double ratio); void lls(double *data, int size) { int i; for (i=0; i< size; i++) { data[i] = log(log(sqrt(data[i]+1.0)+1.0)+1.0); } } void lls_inv(double *data, int size) { int i; double tmp; for (i=0; i< size; i++) { /* slightly different than the published formula because with the original formula: tmp = exp(exp(data[i]-1.0)-1.0); data[i] = tmp * tmp - 1.0; one does not recover the original data */ tmp = exp(exp(data[i])-1.0)-1.0; data[i] = tmp * tmp - 1.0; } } void lsdf(double *data, int size, int fwhm, double f, double A, double M, double ratio) { int channel, i, j; double L, R, S; int width; double dhelp; width = (int) (f * fwhm); for (channel=width; channel<(size-width); channel++) { i = width; while(i>0) { L=0; R=0; for(j=channel-i; j (1/ratio))) { if (S<(A*sqrt(data[channel]))) { data[channel] = S /(2*i+1); break; } } i=i-1; } } } void snip1d(double *data, int n_channels, int snip_width) { snip1d_multiple(data, n_channels, snip_width, 1); } void snip1d_multiple(double *data, int n_channels, int snip_width, int n_spectra) { int i; int j; int p; int offset; double *w; i = (int) (0.5 * snip_width); /* lsdf(data, size, i, 1.5, 75., 10., 1.3); */ w = (double *) malloc(n_channels * sizeof(double)); for (j=0; j < n_spectra; j++) { offset = j * n_channels; for (p = snip_width; p > 0; p--) { for (i=p; i<(n_channels - p); i++) { w[i] = MIN(data[i + offset], 0.5*(data[i + offset - p] + data[ i + offset + p])); } for (i=p; i<(n_channels - p); i++) { data[i+offset] = w[i]; } } } free(w); } silx-0.6.1/silx/math/fit/filters_wrapper.pxd0000644023630100076410000000452613202530432021561 0ustar knobelusers00000000000000# coding: utf-8 #/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "22/06/2016" cimport cython cdef extern from "filters.h": void snip1d(double *data, int size, int width) void snip2d(double *data, int nrows, int ncolumns, int width) void snip3d(double *data, int nx, int ny, int nz, int width) int strip(double* input, long len_input, double c, long niter, int deltai, long* anchors, long len_anchors, double* output) int SavitskyGolay(double* input, long len_input, int npoints, double* output) void smooth1d(double *data, int size) void smooth2d(double *data, int size0, int size1) void smooth3d(double *data, int size0, int size1, int size2) silx-0.6.1/silx/math/medianfilter/0000755023630100076410000000000013202537043017513 5ustar knobelusers00000000000000silx-0.6.1/silx/math/medianfilter/include/0000755023630100076410000000000013202537043021136 5ustar knobelusers00000000000000silx-0.6.1/silx/math/medianfilter/include/median_filter.hpp0000644023630100076410000001742513202530432024455 0ustar knobelusers00000000000000/*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ // __authors__ = ["H. Payno"] // __license__ = "MIT" // __date__ = "10/02/2017" #ifndef MEDIAN_FILTER #define MEDIAN_FILTER #include #include #include #include #include // Modes for the median filter enum MODE{ NEAREST=0, REFLECT=1, MIRROR=2, SHRINK=3 }; // Simple function browsing a deque and registring the min and max values // and if those values are unique or not template void getMinMax(std::vector& v, T& min, T&max, typename std::vector::const_iterator end){ // init min and max values typename std::vector::const_iterator it = v.begin(); if (v.size() == 0){ raise(SIGINT); }else{ min = max = *(*it); } it++; // Browse all the deque while(it!=end){ // check if repeated (should always be before min/max setting) if(*(*it) > max) max = *(*it); if(*(*it) < min) min = *(*it); it++; } } template bool cmp(const T* a, const T* b){ return *a < *b; } // apply the median filter only on limited part of the vector template const T* median(std::vector& v, int window_size) { std::nth_element(v.begin(), v.begin() + window_size/2, v.begin()+window_size, cmp); return v[window_size/2]; } template void print_window(std::vector& v, typename std::vector::const_iterator end){ typename std::vector::const_iterator it; for(it = v.begin(); it != end; ++it){ std::cout << *(*it) << " "; } std::cout << std::endl; } // return the index into 0, (length_max - 1) in reflect mode int reflect(int index, int length_max){ int res = index; // if the index is negative get the positive symetrical value if(res < 0){ res += 1; res = -res; } // then apply the reflect algorithm. Frequence is 2 max length res = res % (2*length_max); if(res >= length_max){ res = 2*length_max - res -1; res = res % length_max; } return res; } // return the index into 0, (length_max - 1) in mirror mode int mirror(int index, int length_max){ int res = index; // if the index is negative get the positive symetrical value if(res < 0){ res = -res; } int rightLimit = length_max -1; // apply the redundancy each two right limit res = res % (2*rightLimit); if(res >= length_max){ int distToRedundancy = (2*rightLimit) - res; res = distToRedundancy; } return res; } // Browse the column of pixel_x template void median_filter( const T* input, T* output, int* kernel_dim, // two values : 0:width, 1:height int* image_dim, // two values : 0:width, 1:height int y_pixel, // the x pixel to process int x_pixel_range_min, int x_pixel_range_max, bool conditional, int pMode){ assert(kernel_dim[0] > 0); assert(kernel_dim[1] > 0); assert(y_pixel >= 0); assert(image_dim[0] > 0); assert(image_dim[1] > 0); assert(y_pixel >= 0); assert(y_pixel < image_dim[0]); assert(x_pixel_range_max < image_dim[1]); assert(x_pixel_range_min <= x_pixel_range_max); // kernel odd assertion assert((kernel_dim[0] - 1)%2 == 0); assert((kernel_dim[1] - 1)%2 == 0); // # this should be move up to avoid calculation each time int halfKernel_x = (kernel_dim[1] - 1) / 2; int halfKernel_y = (kernel_dim[0] - 1) / 2; MODE mode = static_cast(pMode); // init buffer std::vector window_values(kernel_dim[0]*kernel_dim[1]); for(int x_pixel=x_pixel_range_min; x_pixel <= x_pixel_range_max; x_pixel ++ ){ typename std::vector::iterator it = window_values.begin(); // fill the vector for(int win_y=y_pixel-halfKernel_y; win_y<= y_pixel+halfKernel_y; win_y++) { for(int win_x = x_pixel-halfKernel_x; win_x <= x_pixel+halfKernel_x; win_x++) { int index_x = win_x; int index_y = win_y; switch(mode){ case NEAREST: index_x = std::min(std::max(win_x, 0), image_dim[1] - 1); index_y = std::min(std::max(win_y, 0), image_dim[0] - 1); break; case REFLECT: index_x = reflect(win_x, image_dim[1]); index_y = reflect(win_y, image_dim[0]); break; case MIRROR: index_x = mirror(win_x, image_dim[1]); index_y = mirror(win_y, image_dim[0]); break; case SHRINK: if((index_x < 0) || (index_x > image_dim[1] -1)){ continue; } if((index_y < 0) || (index_y > image_dim[0] -1)){ continue; } break; } *it = (&input[index_y*image_dim[1] + index_x]); ++it; } } // get end of the windows. This is needed since in shrink mode we are // not sure to fill the entire window. typename std::vector::iterator window_end; int window_size = kernel_dim[0]*kernel_dim[1]; if(mode == SHRINK){ int x_shrink_ker_dim = std::min(x_pixel+halfKernel_x, image_dim[1]-1) - std::max(0, x_pixel-halfKernel_x)+1; int y_shrink_ker_dim = std::min(y_pixel+halfKernel_y, image_dim[0]-1) - std::max(0, y_pixel-halfKernel_y)+1; window_size = x_shrink_ker_dim*y_shrink_ker_dim; window_end = window_values.begin() + window_size; }else{ window_end = window_values.end(); } // apply the median value if needed for this pixel const T* currentPixelValue = &input[image_dim[1]*y_pixel + x_pixel]; if (conditional == true){ T min = 0; T max = 0; getMinMax(window_values, min, max, window_end); if ((*currentPixelValue == max) || (*currentPixelValue == min)){ output[image_dim[1]*y_pixel + x_pixel] = *(median(window_values, window_size)); }else{ output[image_dim[1]*y_pixel + x_pixel] = *currentPixelValue; } }else{ output[image_dim[1]*y_pixel + x_pixel] = *(median(window_values, window_size)); } } } #endif // MEDIAN_FILTER silx-0.6.1/silx/math/medianfilter/test/0000755023630100076410000000000013202537043020472 5ustar knobelusers00000000000000silx-0.6.1/silx/math/medianfilter/test/benchmark.py0000644023630100076410000000773313202530432023003 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests of the median filter""" __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "02/05/2017" from silx.gui import qt from silx.math.medianfilter import medfilt2d as medfilt2d_silx import numpy import numpy.random from timeit import Timer from silx.gui.plot import Plot1D import logging try: import scipy except: scipy = None else: import scipy.ndimage try: import PyMca5.PyMca as pymca except: pymca = None else: from PyMca5.PyMca.median import medfilt2d as medfilt2d_pymca logger = logging.getLogger(__name__) logger.setLevel(logging.INFO) class BenchmarkMedianFilter(object): """Simple benchmark of the median fiter silx vs scipy""" NB_ITER = 3 def __init__(self, imageWidth, kernels): self.img = numpy.random.rand(imageWidth, imageWidth) self.kernels = kernels self.run() def run(self): self.execTime = {} for kernel in self.kernels: self.execTime[kernel] = self.bench(kernel) def bench(self, width): def execSilx(): medfilt2d_silx(self.img, width) def execScipy(): scipy.ndimage.median_filter(input=self.img, size=width, mode='nearest') def execPymca(): medfilt2d_pymca(self.img, width) execTime = {} t = Timer(execSilx) execTime["silx"] = t.timeit(BenchmarkMedianFilter.NB_ITER) logger.info( 'exec time silx (kernel size = %s) is %s' % (width, execTime["silx"])) if scipy is not None: t = Timer(execScipy) execTime["scipy"] = t.timeit(BenchmarkMedianFilter.NB_ITER) logger.info( 'exec time scipy (kernel size = %s) is %s' % (width, execTime["scipy"])) if pymca is not None: t = Timer(execPymca) execTime["pymca"] = t.timeit(BenchmarkMedianFilter.NB_ITER) logger.info( 'exec time pymca (kernel size = %s) is %s' % (width, execTime["pymca"])) return execTime def getExecTimeFor(self, id): res = [] for k in self.kernels: res.append(self.execTime[k][id]) return res global app # QApplication must be global to avoid seg fault on quit app = qt.QApplication([]) kernels = [3, 5, 7, 11, 15] benchmark = BenchmarkMedianFilter(imageWidth=1000, kernels=kernels) plot = Plot1D() plot.addCurve(x=kernels, y=benchmark.getExecTimeFor("silx"), legend='silx') if scipy is not None: plot.addCurve(x=kernels, y=benchmark.getExecTimeFor("scipy"), legend='scipy') if pymca is not None: plot.addCurve(x=kernels, y=benchmark.getExecTimeFor("pymca"), legend='pymca') plot.show() app.exec_() silx-0.6.1/silx/math/medianfilter/test/test_medianfilter.py0000644023630100076410000004506113202530432024547 0ustar knobelusers00000000000000# coding: utf-8 # ########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################ """Tests of the median filter""" __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "02/05/2017" import unittest import numpy from silx.math.medianfilter import medfilt2d from silx.math.medianfilter.medianfilter import reflect, mirror from silx.math.medianfilter.medianfilter import MODES as silx_mf_modes from silx.test.utils import ParametricTestCase try: import scipy import scipy.misc except: scipy = None else: import scipy.ndimage import logging _logger = logging.getLogger(__name__) RANDOM_FLOAT_MAT = numpy.array([ [0.05564293, 0.62717157, 0.75002406, 0.40555336, 0.70278975], [0.76532598, 0.02839148, 0.05272484, 0.65166994, 0.42161216], [0.23067427, 0.74219128, 0.56049024, 0.44406320, 0.28773158], [0.81025249, 0.20303021, 0.68382382, 0.46372299, 0.81281709], [0.94691602, 0.07813661, 0.81651256, 0.84220106, 0.33623165]]) RANDOM_INT_MAT = numpy.array([ [0, 5, 2, 6, 1], [2, 3, 1, 7, 1], [9, 8, 6, 7, 8], [5, 6, 8, 2, 4]]) class TestMedianFilterNearest(ParametricTestCase): """Unit tests for the median filter in nearest mode""" def testFilter3_100(self): """Test median filter on a 10x10 matrix with a 3x3 kernel.""" dataIn = numpy.arange(100, dtype=numpy.int32) dataIn = dataIn.reshape((10, 10)) dataOut = medfilt2d(image=dataIn, kernel_size=(3, 3), conditional=False, mode='nearest') self.assertTrue(dataOut[0, 0] == 1) self.assertTrue(dataOut[9, 0] == 90) self.assertTrue(dataOut[9, 9] == 98) self.assertTrue(dataOut[0, 9] == 9) self.assertTrue(dataOut[0, 4] == 5) self.assertTrue(dataOut[9, 4] == 93) self.assertTrue(dataOut[4, 4] == 44) def testFilter3_9(self): "Test median filter on a 3x3 matrix with a 3x3 kernel." dataIn = numpy.array([0, -1, 1, 12, 6, -2, 100, 4, 12], dtype=numpy.int16) dataIn = dataIn.reshape((3, 3)) dataOut = medfilt2d(image=dataIn, kernel_size=(3, 3), conditional=False, mode='nearest') self.assertTrue(dataOut.shape == dataIn.shape) self.assertTrue(dataOut[1, 1] == 4) self.assertTrue(dataOut[0, 0] == 0) self.assertTrue(dataOut[0, 1] == 0) self.assertTrue(dataOut[1, 0] == 6) def testFilterWidthOne(self): """Make sure a filter of one by one give the same result as the input """ dataIn = numpy.arange(100, dtype=numpy.int32) dataIn = dataIn.reshape((10, 10)) dataOut = medfilt2d(image=dataIn, kernel_size=(1, 1), conditional=False, mode='nearest') self.assertTrue(numpy.array_equal(dataIn, dataOut)) def testFilter3Conditionnal(self): """Test that the conditional filter apply correctly in a 10x10 matrix with a 3x3 kernel """ dataIn = numpy.arange(100, dtype=numpy.int32) dataIn = dataIn.reshape((10, 10)) dataOut = medfilt2d(image=dataIn, kernel_size=(3, 3), conditional=True, mode='nearest') self.assertTrue(dataOut[0, 0] == 1) self.assertTrue(dataOut[0, 1] == 1) self.assertTrue(numpy.array_equal(dataOut[1:8, 1:8], dataIn[1:8, 1:8])) self.assertTrue(dataOut[9, 9] == 98) def testFilter3_1D(self): """Simple test of a 3x3 median filter on a 1D array""" dataIn = numpy.arange(100, dtype=numpy.int32) dataOut = medfilt2d(image=dataIn, kernel_size=(5), conditional=False, mode='nearest') self.assertTrue(dataOut[0] == 0) self.assertTrue(dataOut[9] == 9) self.assertTrue(dataOut[99] == 99) class TestMedianFilterReflect(ParametricTestCase): """Unit test for the median filter in reflect mode""" def testArange9(self): """Test from a 3x3 window to RANDOM_FLOAT_MAT""" img = numpy.arange(9, dtype=numpy.int32) img = img.reshape(3, 3) kernel = (3, 3) res = medfilt2d(image=img, kernel_size=kernel, conditional=False, mode='reflect') self.assertTrue( numpy.array_equal(res.ravel(), [1, 2, 2, 3, 4, 5, 6, 6, 7])) def testRandom10(self): """Test a (5, 3) window to a RANDOM_FLOAT_MAT""" kernel = (5, 3) thRes = numpy.array([ [0.23067427, 0.56049024, 0.56049024, 0.4440632, 0.42161216], [0.23067427, 0.62717157, 0.56049024, 0.56049024, 0.46372299], [0.62717157, 0.62717157, 0.56049024, 0.56049024, 0.4440632], [0.76532598, 0.68382382, 0.56049024, 0.56049024, 0.42161216], [0.81025249, 0.68382382, 0.56049024, 0.68382382, 0.46372299]]) res = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=False, mode='reflect') self.assertTrue(numpy.array_equal(thRes, res)) def testApplyReflect1D(self): """Test the reflect function used for the median filter in reflect mode """ # test for inside values self.assertTrue(reflect(2, 3) == 2) # test for boundaries values self.assertTrue(reflect(3, 3) == 2) self.assertTrue(reflect(4, 3) == 1) self.assertTrue(reflect(5, 3) == 0) self.assertTrue(reflect(6, 3) == 0) self.assertTrue(reflect(7, 3) == 1) self.assertTrue(reflect(-1, 3) == 0) self.assertTrue(reflect(-2, 3) == 1) self.assertTrue(reflect(-3, 3) == 2) self.assertTrue(reflect(-4, 3) == 2) self.assertTrue(reflect(-5, 3) == 1) self.assertTrue(reflect(-6, 3) == 0) self.assertTrue(reflect(-7, 3) == 0) def testRandom10Conditionnal(self): """Test the median filter in reflect mode and with the conditionnal option""" kernel = (3, 1) thRes = numpy.array([ [0.05564293, 0.62717157, 0.75002406, 0.40555336, 0.70278975], [0.23067427, 0.62717157, 0.56049024, 0.44406320, 0.42161216], [0.76532598, 0.20303021, 0.56049024, 0.46372299, 0.42161216], [0.81025249, 0.20303021, 0.68382382, 0.46372299, 0.33623165], [0.94691602, 0.07813661, 0.81651256, 0.84220106, 0.33623165]]) res = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=True, mode='reflect') self.assertTrue(numpy.array_equal(thRes, res)) class TestMedianFilterMirror(ParametricTestCase): """Unit test for the median filter in mirror mode """ def testApplyMirror1D(self): """Test the reflect function used for the median filter in mirror mode """ # test for inside values self.assertTrue(mirror(2, 3) == 2) # test for boundaries values self.assertTrue(mirror(4, 4) == 2) self.assertTrue(mirror(5, 4) == 1) self.assertTrue(mirror(6, 4) == 0) self.assertTrue(mirror(7, 4) == 1) self.assertTrue(mirror(8, 4) == 2) self.assertTrue(mirror(-1, 4) == 1) self.assertTrue(mirror(-2, 4) == 2) self.assertTrue(mirror(-3, 4) == 3) self.assertTrue(mirror(-4, 4) == 2) self.assertTrue(mirror(-5, 4) == 1) self.assertTrue(mirror(-6, 4) == 0) def testRandom10(self): """Test a (5, 3) window to a random array""" kernel = (3, 5) thRes = numpy.array([ [0.05272484, 0.40555336, 0.42161216, 0.42161216, 0.42161216], [0.56049024, 0.56049024, 0.4440632, 0.4440632, 0.4440632], [0.56049024, 0.46372299, 0.46372299, 0.46372299, 0.46372299], [0.68382382, 0.56049024, 0.56049024, 0.46372299, 0.56049024], [0.68382382, 0.46372299, 0.68382382, 0.46372299, 0.68382382]]) res = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=False, mode='mirror') self.assertTrue(numpy.array_equal(thRes, res)) def testRandom10Conditionnal(self): """Test the median filter in reflect mode and with the conditionnal option""" kernel = (1, 3) thRes = numpy.array([ [0.62717157, 0.62717157, 0.62717157, 0.70278975, 0.40555336], [0.02839148, 0.05272484, 0.05272484, 0.42161216, 0.65166994], [0.74219128, 0.56049024, 0.56049024, 0.44406320, 0.44406320], [0.20303021, 0.68382382, 0.46372299, 0.68382382, 0.46372299], [0.07813661, 0.81651256, 0.81651256, 0.81651256, 0.84220106]]) res = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=True, mode='mirror') self.assertTrue(numpy.array_equal(thRes, res)) class TestMedianFilterShrink(ParametricTestCase): """Unit test for the median filter in mirror mode """ def testRandom_3x3(self): """Test the median filter in shrink mode and with the conditionnal option""" kernel = (3, 3) thRes = numpy.array([ [0.62717157, 0.62717157, 0.62717157, 0.65166994, 0.65166994], [0.62717157, 0.56049024, 0.56049024, 0.44406320, 0.44406320], [0.74219128, 0.56049024, 0.46372299, 0.46372299, 0.46372299], [0.74219128, 0.68382382, 0.56049024, 0.56049024, 0.46372299], [0.81025249, 0.81025249, 0.68382382, 0.81281709, 0.81281709]]) res = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=False, mode='shrink') self.assertTrue(numpy.array_equal(thRes, res)) def testBounds(self): """Test the median filter in shrink mode with 3 different kernels which should return the same result due to the large values of kernels used. """ kernel1 = (1, 9) kernel2 = (1, 11) kernel3 = (1, 21) thRes = numpy.array([[2, 2, 2, 2, 2], [2, 2, 2, 2, 2], [8, 8, 8, 8, 8], [5, 5, 5, 5, 5]]) resK1 = medfilt2d(image=RANDOM_INT_MAT, kernel_size=kernel1, conditional=False, mode='shrink') resK2 = medfilt2d(image=RANDOM_INT_MAT, kernel_size=kernel2, conditional=False, mode='shrink') resK3 = medfilt2d(image=RANDOM_INT_MAT, kernel_size=kernel3, conditional=False, mode='shrink') self.assertTrue(numpy.array_equal(resK1, thRes)) self.assertTrue(numpy.array_equal(resK2, resK1)) self.assertTrue(numpy.array_equal(resK3, resK1)) def testRandom_3x3Conditionnal(self): """Test the median filter in reflect mode and with the conditionnal option""" kernel = (3, 3) thRes = numpy.array([ [0.05564293, 0.62717157, 0.62717157, 0.40555336, 0.65166994], [0.62717157, 0.56049024, 0.05272484, 0.65166994, 0.42161216], [0.23067427, 0.74219128, 0.56049024, 0.44406320, 0.46372299], [0.81025249, 0.20303021, 0.68382382, 0.46372299, 0.81281709], [0.81025249, 0.81025249, 0.81651256, 0.81281709, 0.81281709]]) res = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=True, mode='shrink') self.assertTrue(numpy.array_equal(res, thRes)) def testRandomInt(self): """Test 3x3 kernel on RANDOM_INT_MAT """ kernel = (3, 3) thRes = numpy.array([[3, 2, 5, 2, 6], [5, 3, 6, 6, 7], [6, 6, 6, 6, 7], [8, 8, 7, 7, 7]]) resK1 = medfilt2d(image=RANDOM_INT_MAT, kernel_size=kernel, conditional=False, mode='shrink') self.assertTrue(numpy.array_equal(resK1, thRes)) class TestGeneralExecution(ParametricTestCase): """Some general test on median filter application""" def testTypes(self): """Test that all needed types have their implementation of the median filter """ for mode in silx_mf_modes: for testType in [numpy.float32, numpy.float64, numpy.int16, numpy.uint16, numpy.int32, numpy.int64, numpy.uint64]: with self.subTest(mode=mode, type=testType): data = (numpy.random.rand(10, 10) * 65000).astype(testType) out = medfilt2d(image=data, kernel_size=(3, 3), conditional=False, mode=mode) self.assertTrue(out.dtype.type is testType) def testInputDataIsNotModify(self): """Make sure input data is not modify by the median filter""" dataIn = numpy.arange(100, dtype=numpy.int32) dataIn = dataIn.reshape((10, 10)) dataInCopy = dataIn.copy() for mode in silx_mf_modes: with self.subTest(mode=mode): medfilt2d(image=dataIn, kernel_size=(3, 3), conditional=False, mode=mode) self.assertTrue(numpy.array_equal(dataIn, dataInCopy)) def _getScipyAndSilxCommonModes(): """return the mode which are comparable between silx and scipy""" modes = silx_mf_modes.copy() del modes['shrink'] return modes @unittest.skipUnless(scipy is not None, "scipy not available") class TestVsScipy(ParametricTestCase): """Compare scipy.ndimage.median_filter vs silx.math.medianfilter on comparable """ def testWithArange(self): """Test vs scipy with different kernels on arange matrix""" data = numpy.arange(10000, dtype=numpy.int32) data = data.reshape(100, 100) kernels = [(3, 7), (7, 5), (1, 1), (3, 3)] modesToTest = _getScipyAndSilxCommonModes() for kernel in kernels: for mode in modesToTest: with self.subTest(kernel=kernel, mode=mode): resScipy = scipy.ndimage.median_filter(input=data, size=kernel, mode=mode) resSilx = medfilt2d(image=data, kernel_size=kernel, conditional=False, mode=mode) self.assertTrue(numpy.array_equal(resScipy, resSilx)) def testRandomMatrice(self): """Test vs scipy with different kernels on RANDOM_FLOAT_MAT""" kernels = [(3, 7), (7, 5), (1, 1), (3, 3)] modesToTest = _getScipyAndSilxCommonModes() for kernel in kernels: for mode in modesToTest: with self.subTest(kernel=kernel, mode=mode): resScipy = scipy.ndimage.median_filter(input=RANDOM_FLOAT_MAT, size=kernel, mode=mode) resSilx = medfilt2d(image=RANDOM_FLOAT_MAT, kernel_size=kernel, conditional=False, mode=mode) self.assertTrue(numpy.array_equal(resScipy, resSilx)) def testAscentOrLena(self): """Test vs scipy with """ if hasattr(scipy.misc, 'ascent'): img = scipy.misc.ascent() else: img = scipy.misc.lena() kernels = [(3, 1), (3, 5), (5, 9), (9, 3)] modesToTest = _getScipyAndSilxCommonModes() for kernel in kernels: for mode in modesToTest: with self.subTest(kernel=kernel, mode=mode): resScipy = scipy.ndimage.median_filter(input=img, size=kernel, mode=mode) resSilx = medfilt2d(image=img, kernel_size=kernel, conditional=False, mode=mode) self.assertTrue(numpy.array_equal(resScipy, resSilx)) def suite(): test_suite = unittest.TestSuite() for test in [TestGeneralExecution, TestVsScipy, TestMedianFilterNearest, TestMedianFilterReflect, TestMedianFilterMirror, TestMedianFilterShrink]: test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(test)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/math/medianfilter/test/__init__.py0000644023630100076410000000303213202530432022574 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "22/06/2016" import unittest from .test_medianfilter import suite as test_medianfilter def suite(): test_suite = unittest.TestSuite() test_suite.addTest(test_medianfilter()) return test_suite silx-0.6.1/silx/math/medianfilter/medianfilter.cpp0000644023630100076410000404275613202530432022677 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [ "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h", "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ufuncobject.h", "silx/math/medianfilter/include/median_filter.hpp" ], "extra_compile_args": [ "-fopenmp" ], "extra_link_args": [ "-fopenmp" ], "include_dirs": [ "silx/math/medianfilter/include", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c++" }, "module_name": "silx.math.medianfilter.medianfilter" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef 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} template class __Pyx_FakeReference { public: __Pyx_FakeReference() : ptr(NULL) { } __Pyx_FakeReference(const T& ref) : ptr(const_cast(&ref)) { } T *operator->() { return ptr; } T *operator&() { return ptr; } operator T&() { return *ptr; } template bool operator ==(U other) { return *ptr == other; } template bool operator !=(U other) { return *ptr != other; } private: T *ptr; }; #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__math__medianfilter__medianfilter #define __PYX_HAVE_API__silx__math__medianfilter__medianfilter #include "median_filter.hpp" #include #include #include #include "numpy/arrayobject.h" #include "numpy/ufuncobject.h" #include "pythread.h" #include "pystate.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; 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#if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t */ typedef npy_int8 __pyx_t_5numpy_int8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t */ typedef npy_int16 __pyx_t_5numpy_int16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":727 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< * ctypedef npy_int64 int64_t * #ctypedef npy_int96 int96_t */ typedef npy_int32 __pyx_t_5numpy_int32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":728 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< * #ctypedef npy_int96 int96_t * #ctypedef npy_int128 int128_t */ typedef npy_int64 __pyx_t_5numpy_int64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":734 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< * ctypedef npy_uint64 uint64_t * #ctypedef npy_uint96 uint96_t */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":735 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< * #ctypedef npy_uint96 uint96_t * #ctypedef npy_uint128 uint128_t */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":739 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< * ctypedef npy_float64 float64_t * #ctypedef npy_float80 float80_t */ typedef npy_float32 __pyx_t_5numpy_float32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":740 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< * #ctypedef npy_float80 float80_t * #ctypedef npy_float128 float128_t */ typedef npy_float64 __pyx_t_5numpy_float64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t */ typedef npy_long __pyx_t_5numpy_int_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":750 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< * ctypedef npy_longlong longlong_t * */ typedef npy_longlong __pyx_t_5numpy_long_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< * * ctypedef npy_ulong uint_t */ typedef npy_longlong __pyx_t_5numpy_longlong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t */ typedef npy_ulong __pyx_t_5numpy_uint_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":754 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulonglong_t * */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< * * ctypedef npy_intp intp_t */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":757 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< * ctypedef npy_uintp uintp_t * */ typedef npy_intp __pyx_t_5numpy_intp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< * * ctypedef npy_double float_t */ typedef npy_uintp __pyx_t_5numpy_uintp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t */ typedef npy_double __pyx_t_5numpy_float_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":761 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< * ctypedef npy_longdouble longdouble_t * */ typedef npy_double __pyx_t_5numpy_double_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cfloat cfloat_t */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; /* "silx/math/medianfilter/medianfilter.pyx":40 * from libcpp cimport bool * * ctypedef unsigned long uint64 # <<<<<<<<<<<<<< * ctypedef unsigned int uint32 * ctypedef unsigned short uint16 */ typedef unsigned long __pyx_t_4silx_4math_12medianfilter_12medianfilter_uint64; 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/* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* PyFunctionFastCall.proto */ #if CYTHON_FAST_PYCALL #define __Pyx_PyFunction_FastCall(func, args, nargs)\ __Pyx_PyFunction_FastCallDict((func), (args), (nargs), NULL) #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs); #else #define __Pyx_PyFunction_FastCallDict(func, args, nargs, kwargs) _PyFunction_FastCallDict(func, args, nargs, kwargs) #endif #endif /* PyCFunctionFastCall.proto */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject *__Pyx_PyCFunction_FastCall(PyObject *func, PyObject **args, Py_ssize_t nargs); #else #define __Pyx_PyCFunction_FastCall(func, args, nargs) (assert(0), NULL) #endif /* PyObjectCall.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif /* PySequenceContains.proto */ static CYTHON_INLINE int __Pyx_PySequence_ContainsTF(PyObject* item, PyObject* seq, int eq) { int result = PySequence_Contains(seq, item); return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); } /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* RaiseException.proto */ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* PyObjectCallMethO.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg); #endif /* PyObjectCallOneArg.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* ArgTypeTest.proto */ static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); #define __Pyx_BufPtrCContig2d(type, buf, i0, s0, i1, s1) ((type)((char*)buf + i0 * s0) + i1) #define __Pyx_BufPtrCContig1d(type, buf, i0, s0) ((type)buf + i0) /* DictGetItem.proto */ #if PY_MAJOR_VERSION >= 3 && !CYTHON_COMPILING_IN_PYPY static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* IncludeStringH.proto */ #include /* BytesEquals.proto */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals); /* UnicodeEquals.proto */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals); /* StrEquals.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Equals __Pyx_PyUnicode_Equals #else #define __Pyx_PyString_Equals __Pyx_PyBytes_Equals #endif /* None.proto */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t, Py_ssize_t); /* UnaryNegOverflows.proto */ #define UNARY_NEG_WOULD_OVERFLOW(x)\ (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *); /*proto*/ /* GetAttr.proto */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_float(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_nn___pyx_t_5numpy_int32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_double(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_int64_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_uint64_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_int32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_uint32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_int16_t(PyObject *); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* RealImag.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus #define __Pyx_CREAL(z) ((z).real()) #define __Pyx_CIMAG(z) ((z).imag()) #else #define __Pyx_CREAL(z) (__real__(z)) #define __Pyx_CIMAG(z) (__imag__(z)) #endif #else #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif #if defined(__cplusplus) && CYTHON_CCOMPLEX\ && (defined(_WIN32) || defined(__clang__) || (defined(__GNUC__) && (__GNUC__ >= 5 || __GNUC__ == 4 && __GNUC_MINOR__ >= 4 )) || __cplusplus >= 201103) #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_float(a, b) ((a)==(b)) #define __Pyx_c_sum_float(a, b) ((a)+(b)) #define __Pyx_c_diff_float(a, b) ((a)-(b)) #define __Pyx_c_prod_float(a, b) ((a)*(b)) #define __Pyx_c_quot_float(a, b) ((a)/(b)) #define __Pyx_c_neg_float(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_float(z) ((z)==(float)0) #define __Pyx_c_conj_float(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_float(z) (::std::abs(z)) #define __Pyx_c_pow_float(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_float(z) ((z)==0) #define __Pyx_c_conj_float(z) (conjf(z)) #if 1 #define __Pyx_c_abs_float(z) (cabsf(z)) #define __Pyx_c_pow_float(a, b) (cpowf(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex); static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex); #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex, __pyx_t_float_complex); #endif #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_double(a, b) ((a)==(b)) #define __Pyx_c_sum_double(a, b) ((a)+(b)) #define __Pyx_c_diff_double(a, b) ((a)-(b)) #define __Pyx_c_prod_double(a, b) ((a)*(b)) #define __Pyx_c_quot_double(a, b) ((a)/(b)) #define __Pyx_c_neg_double(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_double(z) ((z)==(double)0) #define __Pyx_c_conj_double(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_double(z) (::std::abs(z)) #define __Pyx_c_pow_double(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_double(z) ((z)==0) #define __Pyx_c_conj_double(z) (conj(z)) #if 1 #define __Pyx_c_abs_double(z) (cabs(z)) #define __Pyx_c_pow_double(a, b) (cpow(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex); static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex); #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex, __pyx_t_double_complex); #endif #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* PyIdentifierFromString.proto */ #if !defined(__Pyx_PyIdentifier_FromString) #if PY_MAJOR_VERSION < 3 #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) #else #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) #endif #endif /* ModuleImport.proto */ static PyObject *__Pyx_ImportModule(const char *name); /* TypeImport.proto */ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'libcpp' */ /* Module declarations from 'silx.math.medianfilter.median_filter' */ /* Module declarations from 'cpython.buffer' */ /* Module declarations from 'libc.string' */ /* Module declarations from 'libc.stdio' */ /* Module declarations from '__builtin__' */ /* Module declarations from 'cpython.type' */ static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; /* Module declarations from 'cpython' */ /* Module declarations from 'cpython.object' */ /* Module declarations from 'cpython.ref' */ /* Module declarations from 'libc.stdlib' */ /* Module declarations from 'numpy' */ /* Module declarations from 'numpy' */ static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ /* Module declarations from 'silx.math.medianfilter.medianfilter' */ static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_uint16_t = { "uint16_t", NULL, sizeof(__pyx_t_5numpy_uint16_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_uint16_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_uint16_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t = { "int32_t", NULL, sizeof(__pyx_t_5numpy_int32_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int32_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int32_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int64_t = { "int64_t", NULL, sizeof(__pyx_t_5numpy_int64_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int64_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int64_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_uint64_t = { "uint64_t", NULL, sizeof(__pyx_t_5numpy_uint64_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_uint64_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_uint64_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_uint32_t = { "uint32_t", NULL, sizeof(__pyx_t_5numpy_uint32_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_uint32_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_uint32_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int16_t = { "int16_t", NULL, sizeof(__pyx_t_5numpy_int16_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int16_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int16_t), 0 }; #define __Pyx_MODULE_NAME "silx.math.medianfilter.medianfilter" int __pyx_module_is_main_silx__math__medianfilter__medianfilter = 0; /* Implementation of 'silx.math.medianfilter.medianfilter' */ static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_RuntimeError; static PyObject *__pyx_builtin_ImportError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_y[] = "y"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_err[] = "err"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_data[] = "data"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_MODES[] = "MODES"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_check[] = "check"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_image[] = "image"; static const char __pyx_k_index[] = "index"; static const char __pyx_k_int16[] = "int16"; static const char __pyx_k_int32[] = "int32"; static const char __pyx_k_int64[] = "int64"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_mirror[] = "mirror"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_shrink[] = "shrink"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_uint16[] = "uint16"; static const char __pyx_k_uint32[] = "uint32"; static const char __pyx_k_uint64[] = "uint64"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_H_Payno[] = "H. Payno"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_float32[] = "float32"; static const char __pyx_k_float64[] = "float64"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_ker_dim[] = "ker_dim"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_medfilt[] = "medfilt"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_nearest[] = "nearest"; static const char __pyx_k_reflect[] = "reflect"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_reshaped[] = "reshaped"; static const char __pyx_k_J_Kieffer[] = "J. Kieffer"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_image_dim[] = "image_dim"; static const char __pyx_k_medfilt1d[] = "medfilt1d"; static const char __pyx_k_medfilt2d[] = "medfilt2d"; static const char __pyx_k_02_05_2017[] = "02/05/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_length_max[] = "length_max"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_zeros_like[] = "zeros_like"; static const char __pyx_k_ImportError[] = "ImportError"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_conditional[] = "conditional"; static const char __pyx_k_kernel_size[] = "kernel_size"; static const char __pyx_k_medfilterfc[] = "medfilterfc"; static const char __pyx_k_C_CONTIGUOUS[] = "C_CONTIGUOUS"; static const char __pyx_k_RuntimeError[] = "RuntimeError"; static const char __pyx_k_buffer_shape[] = "buffer_shape"; static const char __pyx_k_input_buffer[] = "input_buffer"; static const char __pyx_k_output_buffer[] = "output_buffer"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_median_filter_int16[] = "_median_filter_int16"; static const char __pyx_k_median_filter_int32[] = "_median_filter_int32"; static const char __pyx_k_median_filter_int64[] = "_median_filter_int64"; static const char __pyx_k_median_filter_uint16[] = "_median_filter_uint16"; static const char __pyx_k_median_filter_uint32[] = "_median_filter_uint32"; static const char __pyx_k_median_filter_uint64[] = "_median_filter_uint64"; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_median_filter_float32[] = "_median_filter_float32"; static const char __pyx_k_median_filter_float64[] = "_median_filter_float64"; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static const char __pyx_k_Requested_mode_s_is_unknowed[] = "Requested mode %s is unknowed."; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_input_buffer_dimension_must_mo[] = " dimension must mo higher than 2."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_Invalid_data_shape_Dimemsion_of[] = "Invalid data shape. Dimemsion of the arary should be 1 or 2"; static const char __pyx_k_input_buffer_must_be_a_C_CONTIG[] = " must be a C_CONTIGUOUS numpy array."; static const char __pyx_k_numpy_core_multiarray_failed_to[] = "numpy.core.multiarray failed to import"; static const char __pyx_k_output_buffer_dimension_must_mo[] = " dimension must mo higher than 2."; static const char __pyx_k_output_buffer_must_be_a_C_CONTI[] = " must be a C_CONTIGUOUS numpy array."; static const char __pyx_k_s_type_is_not_managed_by_the_me[] = "%s type is not managed by the median filter"; static const char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/math/medianfilter/medianfilter.pyx"; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_This_module_provides_median_filt[] = "This module provides median filter function for 1D and 2D arrays.\n"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_input_buffer_and_output_buffer_m[] = "input buffer and output_buffer must be of the same type"; static const char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; static const char __pyx_k_numpy_core_umath_failed_to_impor[] = "numpy.core.umath failed to import"; static const char __pyx_k_silx_math_medianfilter_medianfil[] = "silx.math.medianfilter.medianfilter"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static const char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; static const char __pyx_k_input_buffer_and_output_buffer_m_2[] = "input buffer and output_buffer must be of the same dimension and same dimension"; static PyObject *__pyx_kp_s_02_05_2017; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_n_s_C_CONTIGUOUS; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; static PyObject *__pyx_kp_s_H_Payno; static PyObject *__pyx_n_s_ImportError; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_data_shape_Dimemsion_of; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_kp_s_J_Kieffer; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MODES; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_Requested_mode_s_is_unknowed; static PyObject *__pyx_n_s_RuntimeError; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_buffer_shape; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_check; static PyObject *__pyx_n_s_class; static PyObject *__pyx_n_s_conditional; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_data; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_err; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float32; static PyObject *__pyx_n_s_float64; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_image; static PyObject *__pyx_n_s_image_dim; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_index; static PyObject *__pyx_n_s_input_buffer; static PyObject *__pyx_kp_s_input_buffer_and_output_buffer_m; static PyObject *__pyx_kp_s_input_buffer_and_output_buffer_m_2; static PyObject *__pyx_kp_s_input_buffer_dimension_must_mo; static PyObject *__pyx_kp_s_input_buffer_must_be_a_C_CONTIG; static PyObject *__pyx_n_s_int16; static PyObject *__pyx_n_s_int32; static PyObject *__pyx_n_s_int64; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_ker_dim; static PyObject *__pyx_n_s_kernel_size; static PyObject *__pyx_n_s_length_max; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_medfilt; static PyObject *__pyx_n_s_medfilt1d; static PyObject *__pyx_n_s_medfilt2d; static PyObject *__pyx_n_s_medfilterfc; static PyObject *__pyx_n_s_median_filter_float32; static PyObject *__pyx_n_s_median_filter_float64; static PyObject *__pyx_n_s_median_filter_int16; static PyObject *__pyx_n_s_median_filter_int32; static PyObject *__pyx_n_s_median_filter_int64; static PyObject *__pyx_n_s_median_filter_uint16; static PyObject *__pyx_n_s_median_filter_uint32; static PyObject *__pyx_n_s_median_filter_uint64; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mirror; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_nearest; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_kp_s_numpy_core_multiarray_failed_to; static PyObject *__pyx_kp_s_numpy_core_umath_failed_to_impor; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_output_buffer; static PyObject *__pyx_kp_s_output_buffer_dimension_must_mo; static PyObject *__pyx_kp_s_output_buffer_must_be_a_C_CONTI; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_reflect; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_reshaped; static PyObject *__pyx_kp_s_s_type_is_not_managed_by_the_me; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_shrink; static PyObject *__pyx_n_s_silx_math_medianfilter_medianfil; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_test; static PyObject *__pyx_n_s_uint16; static PyObject *__pyx_n_s_uint32; static PyObject *__pyx_n_s_uint64; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_kp_u_unknown_dtype_code_in_numpy_pxd; static PyObject *__pyx_n_s_unpack; static PyObject *__pyx_kp_s_users_kieffer_workspace_400_rel; static PyObject *__pyx_n_s_y; static PyObject *__pyx_n_s_zeros_like; static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_medfilt1d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_kernel_size, bool __pyx_v_conditional, PyObject *__pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_2medfilt2d(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_image, PyObject *__pyx_v_kernel_size, bool __pyx_v_conditional, PyObject *__pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_4medfilt(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, PyObject *__pyx_v_kernel_size, bool __pyx_v_conditional, PyObject *__pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_6check(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_input_buffer, PyObject *__pyx_v_output_buffer); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_8reflect(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_index, int __pyx_v_length_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_10mirror(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_index, int __pyx_v_length_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_12_median_filter_float32(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_14_median_filter_float64(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_16_median_filter_int64(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_18_median_filter_uint64(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_20_median_filter_int32(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_22_median_filter_uint32(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_24_median_filter_int16(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_input_buffer, __Pyx_memviewslice __pyx_v_output_buffer, __Pyx_memviewslice __pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static PyObject *__pyx_pf_4silx_4math_12medianfilter_12medianfilter_26_median_filter_uint16(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_input_buffer, PyArrayObject *__pyx_v_output_buffer, PyArrayObject *__pyx_v_kernel_size, bool __pyx_v_conditional, int __pyx_v_mode); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array___cinit__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_shape, Py_ssize_t __pyx_v_itemsize, PyObject *__pyx_v_format, PyObject *__pyx_v_mode, int __pyx_v_allocate_buffer); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_2__getbuffer__(struct __pyx_array_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_array___pyx_pf_15View_dot_MemoryView_5array_4__dealloc__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_5array_7memview___get__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_6__getattr__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_attr); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_8__getitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_10__setitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item, PyObject *__pyx_v_value); /* proto */ static int __pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum___init__(struct __pyx_MemviewEnum_obj *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum_2__repr__(struct __pyx_MemviewEnum_obj *__pyx_v_self); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview___cinit__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj, int __pyx_v_flags, int __pyx_v_dtype_is_object); /* proto */ static void __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_2__dealloc__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_4__getitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_6__setitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_8__getbuffer__(struct __pyx_memoryview_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_1T___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4base___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_5shape___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_7strides___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_10suboffsets___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4ndim___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_8itemsize___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_6nbytes___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4size___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static Py_ssize_t __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_10__len__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_12__repr__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_14__str__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_16is_c_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_18is_f_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_20copy(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_22copy_fortran(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static void __pyx_memoryviewslice___pyx_pf_15View_dot_MemoryView_16_memoryviewslice___dealloc__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_16_memoryviewslice_4base___get__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_int_0; static PyObject *__pyx_int_1; static PyObject *__pyx_int_2; static PyObject *__pyx_int_3; static PyObject *__pyx_int_neg_1; static PyObject *__pyx_tuple_; static PyObject *__pyx_tuple__2; static PyObject *__pyx_tuple__3; static PyObject *__pyx_tuple__4; static PyObject *__pyx_tuple__5; static PyObject *__pyx_tuple__6; static PyObject *__pyx_tuple__7; static PyObject *__pyx_tuple__8; static PyObject *__pyx_tuple__9; static PyObject *__pyx_slice__26; static PyObject *__pyx_slice__27; static PyObject *__pyx_slice__28; static PyObject *__pyx_tuple__10; static PyObject *__pyx_tuple__11; static PyObject *__pyx_tuple__12; static PyObject *__pyx_tuple__13; static PyObject *__pyx_tuple__14; static PyObject *__pyx_tuple__15; static PyObject *__pyx_tuple__16; static PyObject *__pyx_tuple__17; static PyObject *__pyx_tuple__18; static PyObject *__pyx_tuple__19; static PyObject *__pyx_tuple__20; static PyObject *__pyx_tuple__21; static PyObject *__pyx_tuple__22; static PyObject *__pyx_tuple__23; static PyObject *__pyx_tuple__24; static PyObject *__pyx_tuple__25; static PyObject *__pyx_tuple__29; static PyObject *__pyx_tuple__30; static PyObject *__pyx_tuple__32; static PyObject *__pyx_tuple__34; static PyObject *__pyx_tuple__36; static PyObject *__pyx_tuple__38; static PyObject *__pyx_tuple__40; static PyObject *__pyx_tuple__42; static PyObject *__pyx_tuple__44; static PyObject *__pyx_tuple__46; static PyObject *__pyx_tuple__48; static PyObject *__pyx_tuple__50; static PyObject *__pyx_tuple__52; static PyObject *__pyx_tuple__54; static PyObject *__pyx_tuple__56; static PyObject *__pyx_tuple__58; static PyObject *__pyx_tuple__59; static PyObject *__pyx_tuple__60; static PyObject *__pyx_tuple__61; static PyObject *__pyx_tuple__62; static PyObject *__pyx_codeobj__31; static PyObject *__pyx_codeobj__33; static PyObject *__pyx_codeobj__35; static PyObject *__pyx_codeobj__37; static PyObject *__pyx_codeobj__39; static PyObject *__pyx_codeobj__41; static PyObject *__pyx_codeobj__43; static PyObject *__pyx_codeobj__45; static PyObject *__pyx_codeobj__47; static PyObject *__pyx_codeobj__49; static PyObject *__pyx_codeobj__51; static PyObject *__pyx_codeobj__53; static PyObject *__pyx_codeobj__55; static PyObject *__pyx_codeobj__57; /* "silx/math/medianfilter/medianfilter.pyx":48 * * * def medfilt1d(data, kernel_size=3, bool conditional=False, mode='nearest'): # <<<<<<<<<<<<<< * """Function computing the median filter of the given input. * Behavior at boundaries: the algorithm is reducing the size of the */ /* Python wrapper */ static PyObject *__pyx_pw_4silx_4math_12medianfilter_12medianfilter_1medfilt1d(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4silx_4math_12medianfilter_12medianfilter_medfilt1d[] = "medfilt1d(data, kernel_size=3, bool conditional=False, mode='nearest')\nFunction computing the median filter of the given input.\n Behavior at boundaries: the algorithm is reducing the size of the\n window/kernel for pixels at boundaries (there is no mirroring).\n\n :param numpy.ndarray data: the array for which we want to apply\n the median filter. 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/* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ static Py_ssize_t abs_py_ssize_t(Py_ssize_t __pyx_v_arg) { Py_ssize_t __pyx_r; int __pyx_t_1; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1094 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ } /* "View.MemoryView":1096 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ /*else*/ { __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1104 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1105 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1107 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, Py_ssize_t __pyx_v_stride, int __pyx_v_ndim, char __pyx_v_order) { int __pyx_v_idx; Py_ssize_t __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ __pyx_t_1 = ((__pyx_v_order == 'F') != 0); if (__pyx_t_1) { /* "View.MemoryView":1181 * * if order == 'F': * for idx in range(ndim): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_idx = 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_slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef 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Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ goto __pyx_L3; } /* "View.MemoryView":1403 * data += stride * else: * for i in range(extent): # <<<<<<<<<<<<<< * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) */ /*else*/ { __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1404 * else: * for i in range(extent): * _slice_assign_scalar(data, shape + 1, strides + 1, # <<<<<<<<<<<<<< * ndim - 1, itemsize, item) * data += stride */ __pyx_memoryview__slice_assign_scalar(__pyx_v_data, (__pyx_v_shape + 1), (__pyx_v_strides + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1406 * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) * data += stride # <<<<<<<<<<<<<< * * */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } } __pyx_L3:; /* 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__pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.math.medianfilter.medianfilter.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.medianfilter.medianfilter.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4base_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_5shape_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_strides(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_7strides_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_suboffsets(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_10suboffsets_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_ndim(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4ndim_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_itemsize(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_8itemsize_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_nbytes(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_6nbytes_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_size(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4size_1__get__(o); } static PyMethodDef __pyx_methods_memoryview[] = { {"is_c_contig", (PyCFunction)__pyx_memoryview_is_c_contig, METH_NOARGS, 0}, {"is_f_contig", (PyCFunction)__pyx_memoryview_is_f_contig, METH_NOARGS, 0}, {"copy", (PyCFunction)__pyx_memoryview_copy, METH_NOARGS, 0}, {"copy_fortran", (PyCFunction)__pyx_memoryview_copy_fortran, METH_NOARGS, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_memoryview[] = { {(char *)"T", __pyx_getprop___pyx_memoryview_T, 0, (char *)0, 0}, {(char *)"base", __pyx_getprop___pyx_memoryview_base, 0, (char *)0, 0}, {(char *)"shape", __pyx_getprop___pyx_memoryview_shape, 0, (char *)0, 0}, {(char *)"strides", __pyx_getprop___pyx_memoryview_strides, 0, (char *)0, 0}, {(char *)"suboffsets", __pyx_getprop___pyx_memoryview_suboffsets, 0, (char *)0, 0}, {(char *)"ndim", __pyx_getprop___pyx_memoryview_ndim, 0, (char *)0, 0}, {(char *)"itemsize", __pyx_getprop___pyx_memoryview_itemsize, 0, (char *)0, 0}, {(char *)"nbytes", __pyx_getprop___pyx_memoryview_nbytes, 0, (char *)0, 0}, {(char *)"size", __pyx_getprop___pyx_memoryview_size, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_memoryview = { __pyx_memoryview___len__, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_memoryview, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_memoryview = { __pyx_memoryview___len__, /*mp_length*/ __pyx_memoryview___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_memoryview, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_memoryview = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_memoryview_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_memoryview = { PyVarObject_HEAD_INIT(0, 0) "silx.math.medianfilter.medianfilter.memoryview", /*tp_name*/ sizeof(struct __pyx_memoryview_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_memoryview, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_memoryview___repr__, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_memoryview, /*tp_as_sequence*/ &__pyx_tp_as_mapping_memoryview, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ __pyx_memoryview___str__, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_memoryview, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_memoryview, /*tp_traverse*/ __pyx_tp_clear_memoryview, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_memoryview, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_memoryview, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_memoryview, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct__memoryviewslice __pyx_vtable__memoryviewslice; static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryviewslice_obj *p; PyObject *o = __pyx_tp_new_memoryview(t, a, k); if (unlikely(!o)) return 0; p = ((struct __pyx_memoryviewslice_obj *)o); p->__pyx_base.__pyx_vtab = (struct __pyx_vtabstruct_memoryview*)__pyx_vtabptr__memoryviewslice; p->from_object = Py_None; Py_INCREF(Py_None); p->from_slice.memview = NULL; return o; } static void __pyx_tp_dealloc__memoryviewslice(PyObject *o) { struct __pyx_memoryviewslice_obj *p = (struct __pyx_memoryviewslice_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { 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__Pyx_GIVEREF(__pyx_t_1); __pyx_t_1 = 0; /* "View.MemoryView":284 * cdef generic = Enum("") * cdef strided = Enum("") # default * cdef indirect = Enum("") # <<<<<<<<<<<<<< * * */ __pyx_t_1 = __Pyx_PyObject_Call(((PyObject *)__pyx_MemviewEnum_type), __pyx_tuple__60, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 284, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); __Pyx_XGOTREF(indirect); __Pyx_DECREF_SET(indirect, __pyx_t_1); __Pyx_GIVEREF(__pyx_t_1); __pyx_t_1 = 0; /* "View.MemoryView":287 * * * cdef contiguous = Enum("") # <<<<<<<<<<<<<< * cdef indirect_contiguous = Enum("") * */ __pyx_t_1 = __Pyx_PyObject_Call(((PyObject *)__pyx_MemviewEnum_type), __pyx_tuple__61, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 287, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); __Pyx_XGOTREF(contiguous); __Pyx_DECREF_SET(contiguous, __pyx_t_1); __Pyx_GIVEREF(__pyx_t_1); __pyx_t_1 = 0; /* "View.MemoryView":288 * * cdef contiguous = Enum("") * cdef indirect_contiguous = Enum("") # <<<<<<<<<<<<<< * * */ __pyx_t_1 = __Pyx_PyObject_Call(((PyObject *)__pyx_MemviewEnum_type), __pyx_tuple__62, NULL); 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if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 981, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); if (PyDict_SetItem(__pyx_memoryviewslice_type->tp_dict, __pyx_n_s_pyx_getbuffer, __pyx_t_1) < 0) __PYX_ERR(2, 981, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; PyType_Modified(__pyx_memoryviewslice_type); /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /*--- Wrapped vars code ---*/ goto __pyx_L0; __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); if (__pyx_m) { if (__pyx_d) { __Pyx_AddTraceback("init silx.math.medianfilter.medianfilter", __pyx_clineno, __pyx_lineno, __pyx_filename); } Py_DECREF(__pyx_m); __pyx_m = 0; } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_ImportError, "init silx.math.medianfilter.medianfilter"); } __pyx_L0:; __Pyx_RefNannyFinishContext(); #if PY_MAJOR_VERSION < 3 return; #else return __pyx_m; #endif } /* --- Runtime support code --- */ /* Refnanny */ #if CYTHON_REFNANNY static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { PyObject *m = NULL, *p = NULL; void *r = NULL; m = PyImport_ImportModule((char *)modname); if (!m) goto end; p = PyObject_GetAttrString(m, (char *)"RefNannyAPI"); if (!p) goto end; r = PyLong_AsVoidPtr(p); end: Py_XDECREF(p); Py_XDECREF(m); return (__Pyx_RefNannyAPIStruct *)r; } #endif /* GetBuiltinName */ static PyObject *__Pyx_GetBuiltinName(PyObject *name) { PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); if (unlikely(!result)) { PyErr_Format(PyExc_NameError, #if PY_MAJOR_VERSION >= 3 "name '%U' is not defined", name); #else "name '%.200s' is not defined", PyString_AS_STRING(name)); #endif } return result; } /* RaiseDoubleKeywords */ static void __Pyx_RaiseDoubleKeywordsError( const char* func_name, PyObject* kw_name) { PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION >= 3 "%s() got multiple values for keyword argument '%U'", func_name, kw_name); #else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* RaiseArgTupleInvalid */ static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found) { Py_ssize_t num_expected; const char *more_or_less; if (num_found < num_min) { num_expected = num_min; more_or_less = "at least"; } else { num_expected = num_max; more_or_less = "at most"; } if (exact) { more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) return __pyx_pw_5numpy_7ndarray_1__getbuffer__(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) { __pyx_pw_5numpy_7ndarray_3__releasebuffer__(obj, view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_nn___pyx_t_5numpy_int32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_int64_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int64_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_uint64_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_nn___pyx_t_5numpy_uint64_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_int32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_uint32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_nn___pyx_t_5numpy_uint32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_nn___pyx_t_5numpy_int16_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int16_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return ::std::complex< float >(x, y); } #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return x + y*(__pyx_t_float_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { __pyx_t_float_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabsf(b.real) >= fabsf(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { float r = b.imag / b.real; float s = 1.0 / (b.real + b.imag * r); return __pyx_t_float_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { float r = b.real / b.imag; float s = 1.0 / (b.imag + b.real * r); return __pyx_t_float_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else { float denom = b.real * b.real + b.imag * b.imag; return __pyx_t_float_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrtf(z.real*z.real + z.imag*z.imag); #else return hypotf(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; float r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { float denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(a, a); case 3: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, a); case 4: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = powf(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2f(0, -1); } } else { r = __Pyx_c_abs_float(a); theta = atan2f(a.imag, a.real); } lnr = logf(r); z_r = expf(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cosf(z_theta); z.imag = z_r * sinf(z_theta); return z; } #endif #endif /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return ::std::complex< double >(x, y); } #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return x + y*(__pyx_t_double_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { __pyx_t_double_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabs(b.real) >= fabs(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { double r = b.imag / b.real; double s = 1.0 / (b.real + b.imag * r); return __pyx_t_double_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { double r = b.real / b.imag; double s = 1.0 / (b.imag + b.real * r); return __pyx_t_double_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else { double denom = b.real * b.real + b.imag * b.imag; return __pyx_t_double_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrt(z.real*z.real + z.imag*z.imag); #else return hypot(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; double r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { double denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(a, a); case 3: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, a); case 4: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = pow(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2(0, -1); } } else { r = __Pyx_c_abs_double(a); theta = atan2(a.imag, a.real); } lnr = log(r); z_r = exp(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cos(z_theta); z.imag = z_r * sin(z_theta); return z; } #endif #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value) { const enum NPY_TYPES neg_one = (enum NPY_TYPES) -1, const_zero = (enum NPY_TYPES) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(enum NPY_TYPES) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(enum NPY_TYPES) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(enum NPY_TYPES), little, !is_unsigned); } } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* ModuleImport */ #ifndef __PYX_HAVE_RT_ImportModule #define __PYX_HAVE_RT_ImportModule static PyObject *__Pyx_ImportModule(const char *name) { PyObject *py_name = 0; PyObject *py_module = 0; py_name = __Pyx_PyIdentifier_FromString(name); if (!py_name) goto bad; py_module = PyImport_Import(py_name); Py_DECREF(py_name); return py_module; bad: Py_XDECREF(py_name); return 0; } #endif /* TypeImport */ #ifndef __PYX_HAVE_RT_ImportType #define __PYX_HAVE_RT_ImportType static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict) { PyObject *py_module = 0; PyObject *result = 0; PyObject *py_name = 0; char warning[200]; Py_ssize_t basicsize; #ifdef Py_LIMITED_API PyObject *py_basicsize; #endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; py_name = __Pyx_PyIdentifier_FromString(class_name); if (!py_name) goto bad; result = PyObject_GetAttr(py_module, py_name); Py_DECREF(py_name); py_name = 0; Py_DECREF(py_module); py_module = 0; if (!result) goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } #ifndef Py_LIMITED_API basicsize = ((PyTypeObject *)result)->tp_basicsize; #else py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); if (!py_basicsize) goto bad; basicsize = PyLong_AsSsize_t(py_basicsize); Py_DECREF(py_basicsize); py_basicsize = 0; if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) goto bad; #endif if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd", module_name, class_name, basicsize, size); if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; } else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd", module_name, class_name, basicsize, size); goto bad; } return (PyTypeObject *)result; bad: Py_XDECREF(py_module); Py_XDECREF(result); return NULL; } #endif /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/medianfilter/__init__.py0000644023630100076410000000262413202530432021623 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "02/05/2017" from .medianfilter import (medfilt, medfilt1d, medfilt2d) silx-0.6.1/silx/math/medianfilter/median_filter.pxd0000644023630100076410000000372513202530432023034 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ from libcpp cimport bool # pyx cdef extern from "median_filter.hpp": cdef extern void median_filter[T](const T* image, T* output, int* kernel_dim, int* image_dim, int x_pixel_range_min, int x_pixel_range_max, int y_pixel_range_min, int y_pixel_range_max, bool conditional) nogil; cdef extern int reflect(int index, int length_max); cdef extern int mirror(int index, int length_max); silx-0.6.1/silx/math/medianfilter/medianfilter.pyx0000644023630100076410000004232313202530432022717 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module provides median filter function for 1D and 2D arrays. """ __authors__ = ["H. Payno", "J. Kieffer"] __license__ = "MIT" __date__ = "02/05/2017" from cython.parallel import prange cimport cython cimport median_filter import numpy cimport numpy as cnumpy from libcpp cimport bool ctypedef unsigned long uint64 ctypedef unsigned int uint32 ctypedef unsigned short uint16 MODES = {'nearest':0, 'reflect':1, 'mirror':2, 'shrink':3} def medfilt1d(data, kernel_size=3, bool conditional=False, mode='nearest'): """Function computing the median filter of the given input. Behavior at boundaries: the algorithm is reducing the size of the window/kernel for pixels at boundaries (there is no mirroring). :param numpy.ndarray data: the array for which we want to apply the median filter. Should be 1d. :param kernel_size: the dimension of the kernel. :type kernel_size: int :param bool conditional: True if we want to apply a conditional median filtering. :returns: the array with the median value for each pixel. """ return medfilt(data, kernel_size, conditional, mode) def medfilt2d(image, kernel_size=3, bool conditional=False, mode='nearest'): """Function computing the median filter of the given input. Behavior at boundaries: the algorithm is reducing the size of the window/kernel for pixels at boundaries (there is no mirroring). :param numpy.ndarray data: the array for which we want to apply the median filter. Should be 2d. :param kernel_size: the dimension of the kernel. :type kernel_size: For 1D should be an int for 2D should be a tuple or a list of (kernel_height, kernel_width) :param bool conditional: True if we want to apply a conditional median filtering. :returns: the array with the median value for each pixel. """ return medfilt(image, kernel_size, conditional, mode) def medfilt(data, kernel_size=3, bool conditional=False, mode='nearest'): """Function computing the median filter of the given input. Behavior at boundaries: the algorithm is reducing the size of the window/kernel for pixels at boundaries (there is no mirroring). :param numpy.ndarray data: the array for which we want to apply the median filter. Should be 1d or 2d. :param kernel_size: the dimension of the kernel. :type kernel_size: For 1D should be an int for 2D should be a tuple or a list of (kernel_height, kernel_width) :param bool conditional: True if we want to apply a conditional median filtering. :param str mode: the algorithm used to determine how values at borders are determined. :returns: the array with the median value for each pixel. """ if mode not in MODES: err = 'Requested mode %s is unknowed.' % mode raise ValueError(err) reshaped = False if len(data.shape) == 1: data = data.reshape(data.shape[0], 1) reshaped = True elif len(data.shape) > 2: raise ValueError("Invalid data shape. Dimemsion of the arary should be 1 or 2") # simple median filter apply into a 2D buffer output_buffer = numpy.zeros_like(data) check(data, output_buffer) if type(kernel_size) in (tuple, list): if(len(kernel_size) == 1): ker_dim = numpy.array(1, [kernel_size[0]], dtype=numpy.int32) else: ker_dim = numpy.array(kernel_size, dtype=numpy.int32) else: ker_dim = numpy.array([kernel_size, kernel_size], dtype=numpy.int32) if data.dtype == numpy.float64: medfilterfc = _median_filter_float64 elif data.dtype == numpy.float32: medfilterfc = _median_filter_float32 elif data.dtype == numpy.int64: medfilterfc = _median_filter_int64 elif data.dtype == numpy.uint64: medfilterfc = _median_filter_uint64 elif data.dtype == numpy.int32: medfilterfc = _median_filter_int32 elif data.dtype == numpy.uint32: medfilterfc = _median_filter_uint32 elif data.dtype == numpy.int16: medfilterfc = _median_filter_int16 elif data.dtype == numpy.uint16: medfilterfc = _median_filter_uint16 else: raise ValueError("%s type is not managed by the median filter" % data.dtype) medfilterfc(input_buffer=data, output_buffer=output_buffer, kernel_size=ker_dim, conditional=conditional, mode=MODES[mode]) if reshaped: data = data.reshape(data.shape[0]) output_buffer = output_buffer.reshape(data.shape[0]) return output_buffer def check(input_buffer, output_buffer): """Simple check on the two buffers to make sure we can apply the median filter """ if (input_buffer.flags['C_CONTIGUOUS'] is False): raise ValueError(' must be a C_CONTIGUOUS numpy array.') if (output_buffer.flags['C_CONTIGUOUS'] is False): raise ValueError(' must be a C_CONTIGUOUS numpy array.') if not (len(input_buffer.shape) <= 2): raise ValueError(' dimension must mo higher than 2.') if not (len(output_buffer.shape) <= 2): raise ValueError(' dimension must mo higher than 2.') if not(input_buffer.dtype == output_buffer.dtype): raise ValueError('input buffer and output_buffer must be of the same type') if not (input_buffer.shape == output_buffer.shape): raise ValueError('input buffer and output_buffer must be of the same dimension and same dimension') ######### implementations of the include/median_filter.hpp function ############ @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def reflect(int index, int length_max): """find the correct index into [0, length_max-1] for index in reflect mode :param int index: the index to move into [0, length_max-1] in reflect mode :param int length_max: the higher bound limit """ return median_filter.reflect(index, length_max) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def mirror(int index, int length_max): """find the correct index into [0, length_max-1] for index in mirror mode :param int index: the index to move into [0, length_max-1] in mirror mode :param int length_max: the higher bound limit """ return median_filter.mirror(index, length_max) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_float32(float[:, ::1] input_buffer not None, float[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[float]( & input_buffer[0,0], & output_buffer[0,0], & kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_float64(double[:, ::1] input_buffer not None, double[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[double]( & input_buffer[0, 0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_int64(cnumpy.int64_t[:, ::1] input_buffer not None, cnumpy.int64_t[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[long]( & input_buffer[0,0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_uint64( cnumpy.uint64_t[:, ::1] input_buffer not None, cnumpy.uint64_t[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[uint64]( & input_buffer[0,0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_int32(cnumpy.int32_t[:, ::1] input_buffer not None, cnumpy.int32_t[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[int]( & input_buffer[0,0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_uint32(cnumpy.uint32_t[:, ::1] input_buffer not None, cnumpy.uint32_t[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[uint32]( & input_buffer[0,0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_int16(cnumpy.int16_t[:, ::1] input_buffer not None, cnumpy.int16_t[:, ::1] output_buffer not None, cnumpy.int32_t[::1] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[short]( & input_buffer[0,0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) @cython.cdivision(True) @cython.boundscheck(False) @cython.wraparound(False) @cython.initializedcheck(False) def _median_filter_uint16( cnumpy.ndarray[cnumpy.uint16_t, ndim=2, mode='c'] input_buffer not None, cnumpy.ndarray[cnumpy.uint16_t, ndim=2, mode='c'] output_buffer not None, cnumpy.ndarray[cnumpy.int32_t, ndim=1, mode='c'] kernel_size not None, bool conditional, int mode): cdef: int y = 0 int image_dim = input_buffer.shape[1] - 1 int[2] buffer_shape, buffer_shape[0] = input_buffer.shape[0] buffer_shape[1] = input_buffer.shape[1] for y in prange(input_buffer.shape[0], nogil=True): median_filter.median_filter[uint16]( & input_buffer[0, 0], & output_buffer[0, 0], &kernel_size[0], buffer_shape, y, 0, image_dim, conditional, mode) silx-0.6.1/silx/math/medianfilter/setup.py0000644023630100076410000000440513202530432021223 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "02/05/2017" import numpy from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('medianfilter', parent_package, top_path) config.add_subpackage('test') # ===================================== # median filter # ===================================== medfilt_src = ['medianfilter.pyx'] medfilt_inc = ['include', numpy.get_include()] extra_link_args = ['-fopenmp'] extra_compile_args = ['-fopenmp'] config.add_extension('medianfilter', sources=medfilt_src, include_dirs=[medfilt_inc], language='c++', extra_link_args=extra_link_args, extra_compile_args=extra_compile_args) return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration)silx-0.6.1/silx/math/include/0000755023630100076410000000000013202537043016473 5ustar knobelusers00000000000000silx-0.6.1/silx/math/include/isnan.h0000644023630100076410000000316013202530432017747 0ustar knobelusers00000000000000# /*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ /* This header provides isnan and isfinite functions across platforms. VisualStudio 2008 (i.e., Python2.7) provides _isnan and _finite functions. */ #ifndef __ISNAN_H__ #define __ISNAN_H__ #include #if (defined (_MSC_VER) && _MSC_VER < 1800) #include #define isnan(v) _isnan(v) #define isfinite(v) _finite(v) #endif #endif /*__ISNAN_H__*/ silx-0.6.1/silx/math/test/0000755023630100076410000000000013202537043016027 5ustar knobelusers00000000000000silx-0.6.1/silx/math/test/test_combo.py0000644023630100076410000001773013202530432020542 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests of the combo module""" from __future__ import division __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "19/10/2017" import unittest import numpy from silx.test.utils import ParametricTestCase from silx.math.combo import min_max class TestMinMax(ParametricTestCase): """Tests of min max combo""" FLOATING_DTYPES = 'float32', 'float64' if hasattr(numpy, "float128"): FLOATING_DTYPES += ('float128',) SIGNED_INT_DTYPES = 'int8', 'int16', 'int32', 'int64' UNSIGNED_INT_DTYPES = 'uint8', 'uint16', 'uint32', 'uint64' DTYPES = FLOATING_DTYPES + SIGNED_INT_DTYPES + UNSIGNED_INT_DTYPES def _numpy_min_max(self, data, min_positive=False, finite=False): """Reference numpy implementation of min_max :param numpy.ndarray data: Data set to use for test :param bool min_positive: True to test with positive min :param bool finite: True to only test finite values """ data = numpy.array(data, copy=False) if data.size == 0: raise ValueError('Zero-sized array') minimum = None argmin = None maximum = None argmax = None min_pos = None argmin_pos = None if finite: filtered_data = data[numpy.isfinite(data)] else: filtered_data = data if filtered_data.size > 0: minimum = numpy.nanmin(filtered_data) if numpy.isnan(minimum): argmin = 0 else: # nanargmin equivalent argmin = numpy.where(data == minimum)[0][0] maximum = numpy.nanmax(filtered_data) if numpy.isnan(maximum): argmax = 0 else: # nanargmax equivalent argmax = numpy.where(data == maximum)[0][0] if min_positive: pos_data = filtered_data[filtered_data > 0] if pos_data.size > 0: min_pos = numpy.min(pos_data) argmin_pos = numpy.where(data == min_pos)[0][0] return minimum, min_pos, maximum, argmin, argmin_pos, argmax def _test_min_max(self, data, min_positive, finite=False): """Compare min_max with numpy for the given dataset :param numpy.ndarray data: Data set to use for test :param bool min_positive: True to test with positive min :param bool finite: True to only test finite values """ minimum, min_pos, maximum, argmin, argmin_pos, argmax = \ self._numpy_min_max(data, min_positive, finite) result = min_max(data, min_positive, finite) self.assertSimilar(minimum, result.minimum) self.assertSimilar(min_pos, result.min_positive) self.assertSimilar(maximum, result.maximum) self.assertSimilar(argmin, result.argmin) self.assertSimilar(argmin_pos, result.argmin_positive) self.assertSimilar(argmax, result.argmax) def assertSimilar(self, a, b): """Assert that a and b are both None or NaN or that a == b.""" self.assertTrue((a is None and b is None) or (numpy.isnan(a) and numpy.isnan(b)) or a == b) def test_different_datasets(self): """Test min_max with different numpy.arange datasets.""" size = 1000 for dtype in self.DTYPES: tests = { '0 to N': (0, 1), 'N-1 to 0': (size - 1, -1)} if dtype not in self.UNSIGNED_INT_DTYPES: tests['N/2 to -N/2'] = size // 2, -1 tests['0 to -N'] = 0, -1 for name, (start, step) in tests.items(): for min_positive in (True, False): with self.subTest(dtype=dtype, min_positive=min_positive, data=name): data = numpy.arange( start, start + step * size, step, dtype=dtype) self._test_min_max(data, min_positive) def test_nodata(self): """Test min_max with None and empty array""" for dtype in self.DTYPES: with self.subTest(dtype=dtype): with self.assertRaises(TypeError): min_max(None) data = numpy.array((), dtype=dtype) with self.assertRaises(ValueError): min_max(data) NAN_TEST_DATA = [ (float('nan'), float('nan')), # All NaNs (float('nan'), 1.0), # NaN first and positive (float('nan'), -1.0), # NaN first and negative (1.0, 2.0, float('nan')), # NaN last and positive (-1.0, -2.0, float('nan')), # NaN last and negative (1.0, float('nan'), -1.0), # Some NaN ] def test_nandata(self): """Test min_max with NaN in data""" for dtype in self.FLOATING_DTYPES: for data in self.NAN_TEST_DATA: with self.subTest(dtype=dtype, data=data): data = numpy.array(data, dtype=dtype) self._test_min_max(data, min_positive=True) INF_TEST_DATA = [ [float('inf')] * 3, # All +inf [float('-inf')] * 3, # All -inf (float('inf'), float('-inf')), # + and - inf (float('inf'), float('-inf'), float('nan')), # +/-inf, nan last (float('nan'), float('-inf'), float('inf')), # +/-inf, nan first (float('inf'), float('nan'), float('-inf')), # +/-inf, nan center ] def test_infdata(self): """Test min_max with inf.""" for dtype in self.FLOATING_DTYPES: for data in self.INF_TEST_DATA: with self.subTest(dtype=dtype, data=data): data = numpy.array(data, dtype=dtype) self._test_min_max(data, min_positive=True) def test_finite(self): """Test min_max with finite=True""" tests = [ (-1., 2., 0.), # Basic test (float('nan'), float('inf'), float('-inf')), # NaN + Inf (float('nan'), float('inf'), -2, float('-inf')), # NaN + Inf + 1 value (float('inf'), -3, -2), # values + inf ] tests += self.INF_TEST_DATA tests += self.NAN_TEST_DATA for dtype in self.FLOATING_DTYPES: for data in tests: with self.subTest(dtype=dtype, data=data): data = numpy.array(data, dtype=dtype) self._test_min_max(data, min_positive=True, finite=True) def suite(): test_suite = unittest.TestSuite() test_suite.addTests( unittest.defaultTestLoader.loadTestsFromTestCase(TestMinMax)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/test_marchingcubes.py0000644023630100076410000001546513202530306022260 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests of the marchingcubes module""" from __future__ import division __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "05/12/2016" import unittest import numpy from silx.test.utils import ParametricTestCase from silx.math import marchingcubes class TestMarchingCubes(ParametricTestCase): """Tests of marching cubes""" def assertAllClose(self, array1, array2, msg=None, rtol=1e-05, atol=1e-08): """Assert that the 2 numpy.ndarrays are almost equal. :param str msg: Message to provide when assert fails :param float rtol: Relative tolerance, see :func:`numpy.allclose` :param float atol: Absolute tolerance, see :func:`numpy.allclose` """ if not numpy.allclose(array1, array2, rtol, atol): raise self.failureException(msg) def test_cube(self): """Unit tests with a single cube""" # No isosurface cube_zero = numpy.zeros((2, 2, 2), dtype=numpy.float32) result = marchingcubes.MarchingCubes(cube_zero, 1.) self.assertEqual(result.shape, cube_zero.shape) self.assertEqual(result.isolevel, 1.) self.assertEqual(result.invert_normals, True) vertices, normals, indices = result self.assertEqual(len(vertices), 0) self.assertEqual(len(normals), 0) self.assertEqual(len(indices), 0) # Cube array dimensions: shape = (dim 0, dim 1, dim2) # # dim 0 (Z) # ^ # | # 4 +------+ 5 # /| /| # / | / | # 6 +------+ 7| # | | | | # |0 +---|--+ 1 -> dim 2 (X) # | / | / # |/ |/ # 2 +------+ 3 # / # dim 1 (Y) # isosurface perpendicular to dim 0 (Z) cube = numpy.array( (((0., 0.), (0., 0.)), ((1., 1.), (1., 1.))), dtype=numpy.float32) level = 0.5 vertices, normals, indices = marchingcubes.MarchingCubes( cube, level, invert_normals=False) self.assertAllClose(vertices[:, 0], level) self.assertAllClose(normals, (1., 0., 0.)) self.assertEqual(len(indices), 2) # isosurface perpendicular to dim 1 (Y) cube = numpy.array( (((0., 0.), (1., 1.)), ((0., 0.), (1., 1.))), dtype=numpy.float32) level = 0.2 vertices, normals, indices = marchingcubes.MarchingCubes(cube, level) self.assertAllClose(vertices[:, 1], level) self.assertAllClose(normals, (0., -1., 0.)) self.assertEqual(len(indices), 2) # isosurface perpendicular to dim 2 (X) cube = numpy.array( (((0., 1.), (0., 1.)), ((0., 1.), (0., 1.))), dtype=numpy.float32) level = 0.9 vertices, normals, indices = marchingcubes.MarchingCubes( cube, level, invert_normals=False) self.assertAllClose(vertices[:, 2], level) self.assertAllClose(normals, (0., 0., 1.)) self.assertEqual(len(indices), 2) # isosurface normal in dim1, dim 0 (Y, Z) plane cube = numpy.array( (((0., 0.), (0., 0.)), ((0., 0.), (1., 1.))), dtype=numpy.float32) level = 0.5 vertices, normals, indices = marchingcubes.MarchingCubes(cube, level) self.assertAllClose(normals[:, 2], 0.) self.assertEqual(len(indices), 2) def test_sampling(self): """Test different sampling, comparing to reference without sampling""" isolevel = 0.5 size = 9 chessboard = numpy.zeros((size, size, size), dtype=numpy.float32) chessboard.reshape(-1)[::2] = 1 # OK as long as dimensions are odd ref_result = marchingcubes.MarchingCubes(chessboard, isolevel) samplings = [ (2, 1, 1), (1, 2, 1), (1, 1, 2), (2, 2, 2), (3, 3, 3), (1, 3, 1), (1, 1, 3), ] for sampling in samplings: with self.subTest(sampling=sampling): sampling = numpy.array(sampling) data = 1e6 * numpy.ones( sampling * size, dtype=numpy.float32) # Copy ref chessboard in data according to sampling data[::sampling[0], ::sampling[1], ::sampling[2]] = chessboard result = marchingcubes.MarchingCubes(data, isolevel, sampling=sampling) # Compare vertices normalized with shape self.assertAllClose( ref_result.get_vertices() / ref_result.shape, result.get_vertices() / result.shape, atol=0., rtol=0.) # Compare normals # This comparison only works for normals aligned with axes # otherwise non uniform sampling would make different normals self.assertAllClose(ref_result.get_normals(), result.get_normals(), atol=0., rtol=0.) self.assertAllClose(ref_result.get_indices(), result.get_indices(), atol=0., rtol=0.) test_cases = (TestMarchingCubes,) def suite(): test_suite = unittest.TestSuite() for test_class in test_cases: test_suite.addTests( unittest.defaultTestLoader.loadTestsFromTestCase(test_class)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/test_histogramnd_nominal.py0000644023630100076410000010362713202530432023500 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Nominal tests of the histogramnd function. """ import unittest import numpy as np from silx.math.chistogramnd import chistogramnd as histogramnd from silx.math import Histogramnd def _get_bin_edges(histo_range, n_bins, n_dims): edges = [] for i_dim in range(n_dims): edges.append(histo_range[i_dim, 0] + np.arange(n_bins[i_dim] + 1) * (histo_range[i_dim, 1] - histo_range[i_dim, 0]) / n_bins[i_dim]) return tuple(edges) # ============================================================== # ============================================================== # ============================================================== class _Test_chistogramnd_nominal(unittest.TestCase): """ Unit tests of the histogramnd function. """ ndims = None def setUp(self): ndims = self.ndims self.tested_dim = ndims-1 if ndims is None: raise ValueError('ndims class member not set.') sample = np.array([5.5, -3.3, 0., -0.5, 3.3, 8.8, -7.7, 6.0, -4.0]) weights = np.array([500.5, -300.3, 0.01, -0.5, 300.3, 800.8, -700.7, 600.6, -400.4]) n_elems = len(sample) if ndims == 1: shape = (n_elems,) else: shape = (n_elems, ndims) self.sample = np.zeros(shape=shape, dtype=sample.dtype) if ndims == 1: self.sample = sample else: self.sample[..., ndims-1] = sample self.weights = weights # the tests are performed along one dimension, # all the other bins indices along the other dimensions # are expected to be 2 # (e.g : when testing a 2D sample : [0, x] will go into # bin [2, y] because of the bin ranges [-2, 2] and n_bins = 4 # for the first dimension) self.other_axes_index = 2 self.histo_range = np.repeat([[-2., 2.]], ndims, axis=0) self.histo_range[ndims-1] = [-4., 6.] self.n_bins = np.array([4]*ndims) self.n_bins[ndims-1] = 5 if ndims == 1: def fill_histo(h, v, dim, op=None): if op: h[:] = op(h[:], v) else: h[:] = v self.fill_histo = fill_histo else: def fill_histo(h, v, dim, op=None): idx = [self.other_axes_index]*len(h.shape) idx[dim] = slice(0, None) if op: h[idx] = op(h[idx], v) else: h[idx] = v self.fill_histo = fill_histo def test_nominal(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul, bin_edges = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights) expected_edges = _get_bin_edges(self.histo_range, self.n_bins, self.ndims) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) for i_edges, edges in enumerate(expected_edges): self.assertTrue(np.array_equal(bin_edges[i_edges], expected_edges[i_edges]), msg='Testing bin_edges for dim {0}' ''.format(i_edges+1)) def test_nominal_wh_dtype(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.float32) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul, bin_edges = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, wh_dtype=np.float32) self.assertEqual(cumul.dtype, np.float32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.allclose(cumul, expected_c)) def test_nominal_uncontiguous_sample(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) shape = list(self.sample.shape) shape[0] *= 2 sample = np.zeros(shape, dtype=self.sample.dtype) uncontig_sample = sample[::2, ...] uncontig_sample[:] = self.sample self.assertFalse(uncontig_sample.flags['C_CONTIGUOUS'], msg='Making sure the array is not contiguous.') histo, cumul, bin_edges = histogramnd(uncontig_sample, self.histo_range, self.n_bins, weights=self.weights) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_nominal_uncontiguous_weights(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) shape = list(self.weights.shape) shape[0] *= 2 weights = np.zeros(shape, dtype=self.weights.dtype) uncontig_weights = weights[::2, ...] uncontig_weights[:] = self.weights self.assertFalse(uncontig_weights.flags['C_CONTIGUOUS'], msg='Making sure the array is not contiguous.') histo, cumul, bin_edges = histogramnd(self.sample, self.histo_range, self.n_bins, weights=uncontig_weights) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_nominal_wo_weights(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=None)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(cumul is None) def test_nominal_wo_weights_w_cumul(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) # creating an array of ones just to make sure that # it is not cleared by histogramnd cumul_in = np.ones(self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=None, weighted_histo=cumul_in)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(cumul is None) self.assertTrue(np.array_equal(cumul_in, np.ones(shape=self.n_bins, dtype=np.double))) def test_nominal_wo_weights_w_histo(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) # creating an array of ones just to make sure that # it is not cleared by histogramnd histo_in = np.ones(self.n_bins, dtype=np.uint32) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=None, histo=histo_in)[0:2] self.assertTrue(np.array_equal(histo, expected_h + 1)) self.assertTrue(cumul is None) self.assertEqual(id(histo), id(histo_in)) def test_nominal_last_bin_closed(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 2]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 1101.1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_int32_weights_double_weights_range(self): """ """ weight_min = -299.9 # ===> will be cast to -299 weight_max = 499.9 # ===> will be cast to 499 expected_h_tpl = np.array([0, 1, 1, 1, 0]) expected_c_tpl = np.array([0., 0., 0., 300., 0.]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights.astype(np.int32), weight_min=weight_min, weight_max=weight_max)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_reuse_histo(self): """ """ expected_h_tpl = np.array([2, 3, 2, 2, 2]) expected_c_tpl = np.array([0.0, -7007, -5.0, 0.1, 3003.0]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights)[0:2] sample_2 = self.sample[:] if len(sample_2.shape) == 1: idx = [slice(0, None)] else: idx = [slice(0, None), self.tested_dim] sample_2[idx] += 2 histo_2, cumul = histogramnd(sample_2, # <==== !! self.histo_range, self.n_bins, weights=10 * self.weights, # <==== !! histo=histo)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) self.assertEqual(id(histo), id(histo_2)) def test_reuse_cumul(self): """ """ expected_h_tpl = np.array([0, 2, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -7007.5, -4.99, 300.4, 3503.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights)[0:2] sample_2 = self.sample[:] if len(sample_2.shape) == 1: idx = [slice(0, None)] else: idx = [slice(0, None), self.tested_dim] sample_2[idx] += 2 histo, cumul_2 = histogramnd(sample_2, # <==== !! self.histo_range, self.n_bins, weights=10 * self.weights, # <==== !! weighted_histo=cumul)[0:2] self.assertEqual(cumul.dtype, np.float64) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.allclose(cumul, expected_c, rtol=10e-15)) self.assertEqual(id(cumul), id(cumul_2)) def test_reuse_cumul_float(self): """ """ expected_h_tpl = np.array([0, 2, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -7007.5, -4.99, 300.4, 3503.5], dtype=np.float32) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights)[0:2] # converting the cumul array to float cumul = cumul.astype(np.float32) sample_2 = self.sample[:] if len(sample_2.shape) == 1: idx = [slice(0, None)] else: idx = [slice(0, None), self.tested_dim] sample_2[idx] += 2 histo, cumul_2 = histogramnd(sample_2, # <==== !! self.histo_range, self.n_bins, weights=10 * self.weights, # <==== !! weighted_histo=cumul)[0:2] self.assertEqual(cumul.dtype, np.float32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertEqual(id(cumul), id(cumul_2)) self.assertTrue(np.allclose(cumul, expected_c, rtol=10e-15)) class _Test_Histogramnd_nominal(unittest.TestCase): """ Unit tests of the Histogramnd class. """ ndims = None def setUp(self): ndims = self.ndims self.tested_dim = ndims-1 if ndims is None: raise ValueError('ndims class member not set.') sample = np.array([5.5, -3.3, 0., -0.5, 3.3, 8.8, -7.7, 6.0, -4.0]) weights = np.array([500.5, -300.3, 0.01, -0.5, 300.3, 800.8, -700.7, 600.6, -400.4]) n_elems = len(sample) if ndims == 1: shape = (n_elems,) else: shape = (n_elems, ndims) self.sample = np.zeros(shape=shape, dtype=sample.dtype) if ndims == 1: self.sample = sample else: self.sample[..., ndims-1] = sample self.weights = weights # the tests are performed along one dimension, # all the other bins indices along the other dimensions # are expected to be 2 # (e.g : when testing a 2D sample : [0, x] will go into # bin [2, y] because of the bin ranges [-2, 2] and n_bins = 4 # for the first dimension) self.other_axes_index = 2 self.histo_range = np.repeat([[-2., 2.]], ndims, axis=0) self.histo_range[ndims-1] = [-4., 6.] self.n_bins = np.array([4]*ndims) self.n_bins[ndims-1] = 5 if ndims == 1: def fill_histo(h, v, dim, op=None): if op: h[:] = op(h[:], v) else: h[:] = v self.fill_histo = fill_histo else: def fill_histo(h, v, dim, op=None): idx = [self.other_axes_index]*len(h.shape) idx[dim] = slice(0, None) if op: h[idx] = op(h[idx], v) else: h[idx] = v self.fill_histo = fill_histo def test_nominal(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights) histo, cumul, bin_edges = histo expected_edges = _get_bin_edges(self.histo_range, self.n_bins, self.ndims) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) for i_edges, edges in enumerate(expected_edges): self.assertTrue(np.array_equal(bin_edges[i_edges], expected_edges[i_edges]), msg='Testing bin_edges for dim {0}' ''.format(i_edges+1)) def test_nominal_wh_dtype(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.float32) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul, bin_edges = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, wh_dtype=np.float32) self.assertEqual(cumul.dtype, np.float32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.allclose(cumul, expected_c)) def test_nominal_uncontiguous_sample(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) shape = list(self.sample.shape) shape[0] *= 2 sample = np.zeros(shape, dtype=self.sample.dtype) uncontig_sample = sample[::2, ...] uncontig_sample[:] = self.sample self.assertFalse(uncontig_sample.flags['C_CONTIGUOUS'], msg='Making sure the array is not contiguous.') histo, cumul, bin_edges = Histogramnd(uncontig_sample, self.histo_range, self.n_bins, weights=self.weights) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_nominal_uncontiguous_weights(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) shape = list(self.weights.shape) shape[0] *= 2 weights = np.zeros(shape, dtype=self.weights.dtype) uncontig_weights = weights[::2, ...] uncontig_weights[:] = self.weights self.assertFalse(uncontig_weights.flags['C_CONTIGUOUS'], msg='Making sure the array is not contiguous.') histo, cumul, bin_edges = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=uncontig_weights) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_nominal_wo_weights(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) histo, cumul = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=None)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(cumul is None) def test_nominal_last_bin_closed(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 2]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 1101.1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_int32_weights_double_weights_range(self): """ """ weight_min = -299.9 # ===> will be cast to -299 weight_max = 499.9 # ===> will be cast to 499 expected_h_tpl = np.array([0, 1, 1, 1, 0]) expected_c_tpl = np.array([0., 0., 0., 300., 0.]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo, cumul = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights.astype(np.int32), weight_min=weight_min, weight_max=weight_max)[0:2] self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def test_nominal_no_sample(self): """ """ histo_inst = Histogramnd(None, self.histo_range, self.n_bins) histo, weighted_histo, edges = histo_inst self.assertIsNone(histo) self.assertIsNone(weighted_histo) self.assertIsNone(edges) self.assertIsNone(histo_inst.histo) self.assertIsNone(histo_inst.weighted_histo) self.assertIsNone(histo_inst.edges) def test_empty_init_accumulate(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo_inst = Histogramnd(None, self.histo_range, self.n_bins) histo_inst.accumulate(self.sample, weights=self.weights) histo = histo_inst.histo cumul = histo_inst.weighted_histo bin_edges = histo_inst.edges expected_edges = _get_bin_edges(self.histo_range, self.n_bins, self.ndims) self.assertEqual(cumul.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) for i_edges, edges in enumerate(expected_edges): self.assertTrue(np.array_equal(bin_edges[i_edges], expected_edges[i_edges]), msg='Testing bin_edges for dim {0}' ''.format(i_edges+1)) def test_accumulate(self): """ """ expected_h_tpl = np.array([2, 3, 2, 2, 2]) expected_c_tpl = np.array([-700.7, -7007.5, -4.99, 300.4, 3503.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo_inst = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights) sample_2 = self.sample[:] if len(sample_2.shape) == 1: idx = [slice(0, None)] else: idx = [slice(0, None), self.tested_dim] sample_2[idx] += 2 histo_inst.accumulate(sample_2, # <==== !! weights=10 * self.weights) # <==== !! histo = histo_inst.histo cumul = histo_inst.weighted_histo bin_edges = histo_inst.edges self.assertEqual(cumul.dtype, np.float64) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.allclose(cumul, expected_c, rtol=10e-15)) def test_accumulate_no_weights(self): """ """ expected_h_tpl = np.array([2, 3, 2, 2, 2]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo_inst = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights) sample_2 = self.sample[:] if len(sample_2.shape) == 1: idx = [slice(0, None)] else: idx = [slice(0, None), self.tested_dim] sample_2[idx] += 2 histo_inst.accumulate(sample_2) # <==== !! histo = histo_inst.histo cumul = histo_inst.weighted_histo bin_edges = histo_inst.edges self.assertEqual(cumul.dtype, np.float64) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.allclose(cumul, expected_c, rtol=10e-15)) def test_accumulate_no_weights_at_init(self): """ """ expected_h_tpl = np.array([2, 3, 2, 2, 2]) expected_c_tpl = np.array([0.0, -700.7, -0.5, 0.01, 300.3]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) histo_inst = Histogramnd(self.sample, self.histo_range, self.n_bins, weights=None) # <==== !! cumul = histo_inst.weighted_histo self.assertIsNone(cumul) sample_2 = self.sample[:] if len(sample_2.shape) == 1: idx = [slice(0, None)] else: idx = [slice(0, None), self.tested_dim] sample_2[idx] += 2 histo_inst.accumulate(sample_2, weights=self.weights) # <==== !! histo = histo_inst.histo cumul = histo_inst.weighted_histo bin_edges = histo_inst.edges self.assertEqual(cumul.dtype, np.float64) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(cumul, expected_c)) def testNoneNativeTypes(self): type = self.sample.dtype.newbyteorder("B") sampleB = self.sample.astype(type) type = self.sample.dtype.newbyteorder("L") sampleL = self.sample.astype(type) histo_inst = Histogramnd(sampleB, self.histo_range, self.n_bins, weights=self.weights) histo_inst = Histogramnd(sampleL, self.histo_range, self.n_bins, weights=self.weights) class Test_chistogram_nominal_1d(_Test_chistogramnd_nominal): ndims = 1 class Test_chistogram_nominal_2d(_Test_chistogramnd_nominal): ndims = 2 class Test_chistogram_nominal_3d(_Test_chistogramnd_nominal): ndims = 3 class Test_Histogramnd_nominal_1d(_Test_Histogramnd_nominal): ndims = 1 class Test_Histogramnd_nominal_2d(_Test_Histogramnd_nominal): ndims = 2 class Test_Histogramnd_nominal_3d(_Test_Histogramnd_nominal): ndims = 3 # ============================================================== # ============================================================== # ============================================================== test_cases = (Test_chistogram_nominal_1d, Test_chistogram_nominal_2d, Test_chistogram_nominal_3d, Test_Histogramnd_nominal_1d, # Test_Histogramnd_nominal_2d, # Test_Histogramnd_nominal_3d ) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/__init__.py0000644023630100076410000000441413202530432020136 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "04/07/2016" import unittest from .test_histogramnd_error import suite as test_histo_error from .test_histogramnd_nominal import suite as test_histo_nominal from .test_histogramnd_vs_np import suite as test_histo_vs_np from .test_HistogramndLut_nominal import suite as test_histolut_nominal from ..fit.test import suite as test_fit_suite from .test_marchingcubes import suite as test_marchingcubes_suite from ..medianfilter.test import suite as test_medianfilter_suite from .test_combo import suite as test_combo_suite def suite(): test_suite = unittest.TestSuite() test_suite.addTest(test_histo_nominal()) test_suite.addTest(test_histo_error()) test_suite.addTest(test_histo_vs_np()) test_suite.addTest(test_fit_suite()) test_suite.addTest(test_histolut_nominal()) test_suite.addTest(test_marchingcubes_suite()) test_suite.addTest(test_medianfilter_suite()) test_suite.addTest(test_combo_suite()) return test_suite silx-0.6.1/silx/math/test/test_histogramnd_error.py0000644023630100076410000004732513202530432023176 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "01/02/2016" """ Tests of the histogramnd function, error cases. """ import sys import platform import unittest import numpy as np from silx.math.chistogramnd import chistogramnd as histogramnd from silx.math import Histogramnd # ============================================================== # ============================================================== # ============================================================== class _Test_chistogramnd_errors(unittest.TestCase): """ Unit tests of the chistogramnd error cases. """ def setUp(self): raise NotImplementedError('') def test_weights_shape(self): """ """ for err_w_shape in self.err_weights_shapes: test_msg = ('Testing invalid weights shape : {0}' ''.format(err_w_shape)) err_weights = np.random.randint(0, high=10, size=err_w_shape) err_weights = err_weights.astype(np.double) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=err_weights)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, ' must be an array whose length ' 'is equal to the number of samples.') def test_histo_range_shape(self): """ """ n_dims = 1 if len(self.s_shape) == 1 else self.s_shape[1] expected_txt_tpl = (' error : expected {n_dims} sets ' 'of lower and upper bin edges, ' 'got the following instead : {histo_range}. ' '(provided contains ' '{n_dims}D values)') for err_histo_range in self.err_histo_range_shapes: test_msg = ('Testing invalid histo_range shape : {0}' ''.format(err_histo_range)) expected_txt = expected_txt_tpl.format(histo_range=err_histo_range, n_dims=n_dims) ex_str = None try: histo, cumul = histogramnd(self.sample, err_histo_range, self.n_bins, weights=self.weights)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_nbins_shape(self): """ """ expected_txt = ('n_bins must be either a scalar (same number ' 'of bins for all dimensions) or ' 'an array (number of bins for each ' 'dimension).') for err_n_bins in self.err_n_bins_shapes: test_msg = ('Testing invalid n_bins shape : {0}' ''.format(err_n_bins)) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, err_n_bins, weights=self.weights)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_nbins_values(self): """ """ expected_txt = (' : only positive values allowed.') for err_n_bins in self.err_n_bins_values: test_msg = ('Testing invalid n_bins value : {0}' ''.format(err_n_bins)) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, err_n_bins, weights=self.weights)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_histo_shape(self): """ """ for err_h_shape in self.err_histo_shapes: # windows & python 2.7 : numpy shapes are long values if platform.system() == 'Windows': version = (sys.version_info.major, sys.version_info.minor) if version <= (2, 7): err_h_shape = tuple([long(val) for val in err_h_shape]) test_msg = ('Testing invalid histo shape : {0}' ''.format(err_h_shape)) expected_txt = ('Provided array doesn\'t have ' 'a shape compatible with ' ': should be {0} instead of {1}.' ''.format(self.h_shape, err_h_shape)) histo = np.zeros(shape=err_h_shape, dtype=np.uint32) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, histo=histo)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_histo_dtype(self): """ """ for err_h_dtype in self.err_histo_dtypes: test_msg = ('Testing invalid histo dtype : {0}' ''.format(err_h_dtype)) histo = np.zeros(shape=self.h_shape, dtype=err_h_dtype) expected_txt = ('Provided array doesn\'t have ' 'the expected type ' ': should be {0} instead of {1}.' ''.format(np.uint32, histo.dtype)) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, histo=histo)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_weighted_histo_shape(self): """ """ # using the same values as histo for err_h_shape in self.err_histo_shapes: # windows & python 2.7 : numpy shapes are long values if platform.system() == 'Windows': version = (sys.version_info.major, sys.version_info.minor) if version <= (2, 7): err_h_shape = tuple([long(val) for val in err_h_shape]) test_msg = ('Testing invalid weighted_histo shape : {0}' ''.format(err_h_shape)) expected_txt = ('Provided array doesn\'t have ' 'a shape compatible with ' ': should be {0} instead of {1}.' ''.format(self.h_shape, err_h_shape)) cumul = np.zeros(shape=err_h_shape, dtype=np.double) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, weighted_histo=cumul)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_cumul_dtype(self): """ """ # using the same values as histo for err_h_dtype in self.err_histo_dtypes: test_msg = ('Testing invalid weighted_histo dtype : {0}' ''.format(err_h_dtype)) cumul = np.zeros(shape=self.h_shape, dtype=err_h_dtype) expected_txt = ('Provided array doesn\'t have ' 'the expected type ' ': should be {0} or {1} instead of {2}.' ''.format(np.float64, np.float32, cumul.dtype)) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, weighted_histo=cumul)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_wh_histo_dtype(self): """ """ # using the same values as histo for err_h_dtype in self.err_histo_dtypes: test_msg = ('Testing invalid wh_dtype dtype : {0}' ''.format(err_h_dtype)) expected_txt = (' type not supported : {0}.' ''.format(err_h_dtype)) ex_str = None try: histo, cumul = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, wh_dtype=err_h_dtype)[0:2] except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_unmanaged_dtypes(self): """ """ for err_unmanaged_dtype in self.err_unmanaged_dtypes: test_msg = ('Testing unmanaged dtypes : {0}' ''.format(err_unmanaged_dtype)) sample = self.sample.astype(err_unmanaged_dtype[0]) weights = self.weights.astype(err_unmanaged_dtype[1]) expected_txt = ('Case not supported - sample:{0} ' 'and weights:{1}.' ''.format(sample.dtype, weights.dtype)) ex_str = None try: histogramnd(sample, self.histo_range, self.n_bins, weights=weights) except TypeError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str, msg=test_msg) self.assertEqual(ex_str, expected_txt, msg=test_msg) def test_uncontiguous_histo(self): """ """ # non contiguous array shape = np.array(self.n_bins, ndmin=1) shape[0] *= 2 histo_tmp = np.zeros(shape) histo = histo_tmp[::2, ...] expected_txt = (' must be a C_CONTIGUOUS numpy array.') ex_str = None try: histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, histo=histo) except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str) self.assertEqual(ex_str, expected_txt) def test_uncontiguous_weighted_histo(self): """ """ # non contiguous array shape = np.array(self.n_bins, ndmin=1) shape[0] *= 2 cumul_tmp = np.zeros(shape) cumul = cumul_tmp[::2, ...] expected_txt = (' must be a C_CONTIGUOUS numpy array.') ex_str = None try: histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, weighted_histo=cumul) except ValueError as ex: ex_str = str(ex) self.assertIsNotNone(ex_str) self.assertEqual(ex_str, expected_txt) class Test_chistogramnd_1D_errors(_Test_chistogramnd_errors): """ Unit tests of the 1D histogramnd error cases. """ def setUp(self): # nominal values self.n_elements = 1000 self.s_shape = (self.n_elements,) self.w_shape = (self.n_elements,) self.histo_range = [0., 100.] self.n_bins = 10 self.h_shape = (self.n_bins,) self.sample = np.random.randint(0, high=10, size=self.s_shape) self.sample = self.sample.astype(np.double) self.weights = np.random.randint(0, high=10, size=self.w_shape) self.weights = self.weights.astype(np.double) self.err_weights_shapes = ((self.n_elements+1,), (self.n_elements-1,), (self.n_elements-1, 3)) self.err_histo_range_shapes = ([0.], [0., 1., 2.], [[0.], [1.]]) self.err_n_bins_shapes = ([10, 2], [[10], [2]]) self.err_n_bins_values = (0, [-10], None) self.err_histo_shapes = ((self.n_bins+1,), (self.n_bins-1,), (self.n_bins, self.n_bins)) # these are used for testing the histo parameter as well # as the weighted_histo parameter. self.err_histo_dtypes = (np.uint16, np.float16) self.err_unmanaged_dtypes = ((np.double, np.uint16), (np.uint16, np.double), (np.uint16, np.uint16)) class Test_chistogramnd_ND_range(unittest.TestCase): """ """ def test_invalid_histo_range(self): data = np.random.random((60, 60)) nbins = 10 with self.assertRaises(ValueError): histo_range = data.min(), np.inf Histogramnd(sample=data.ravel(), histo_range=histo_range, n_bins=nbins) histo_range = data.min(), np.nan Histogramnd(sample=data.ravel(), histo_range=histo_range, n_bins=nbins) class Test_chistogramnd_ND_errors(_Test_chistogramnd_errors): """ Unit tests of the 3D histogramnd error cases. """ def setUp(self): # nominal values self.n_elements = 1000 self.s_shape = (self.n_elements, 3) self.w_shape = (self.n_elements,) self.histo_range = [[0., 100.], [0., 100.], [0., 100.]] self.n_bins = (10, 20, 30) self.h_shape = self.n_bins self.sample = np.random.randint(0, high=10, size=self.s_shape) self.sample = self.sample.astype(np.double) self.weights = np.random.randint(0, high=10, size=self.w_shape) self.weights = self.weights.astype(np.double) self.err_weights_shapes = ((self.n_elements+1,), (self.n_elements-1,), (self.n_elements-1, 3)) self.err_histo_range_shapes = ([0.], [0., 1.], [[0., 10.], [0., 10.]], [0., 10., 0, 10., 0, 10.]) self.err_n_bins_shapes = ([10, 2], [[10], [20], [30]]) self.err_n_bins_values = (0, [-10], [10, 20, -4], None, [10, None, 30]) self.err_histo_shapes = ((self.n_bins[0]+1, self.n_bins[1], self.n_bins[2]), (self.n_bins[0], self.n_bins[1], self.n_bins[2]-1), (self.n_bins[0], self.n_bins[1]), (self.n_bins[1], self.n_bins[0], self.n_bins[2]), (self.n_bins[0], self.n_bins[1], self.n_bins[2], 10) ) # these are used for testing the histo parameter as well # as the weighted_histo parameter. self.err_histo_dtypes = (np.uint16, np.float16) self.err_unmanaged_dtypes = ((np.double, np.uint16), (np.uint16, np.double), (np.uint16, np.uint16)) # ============================================================== # ============================================================== # ============================================================== test_cases = (Test_chistogramnd_1D_errors, Test_chistogramnd_ND_errors, Test_chistogramnd_ND_range) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/benchmark_combo.py0000644023630100076410000001741513202530432021515 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Benchmarks of the combo module""" from __future__ import division __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "15/05/2017" import logging import os.path import time import unittest import numpy from silx.test.utils import ParametricTestCase, temp_dir from silx.math import combo _logger = logging.getLogger(__name__) _logger.setLevel(logging.DEBUG) class BenchmarkMinMax(ParametricTestCase): """Benchmark of min max combo""" DTYPES = ('float32', 'float64', 'int8', 'int16', 'int32', 'int64', 'uint8', 'uint16', 'uint32', 'uint64') ARANGE = 'ascent', 'descent', 'random' EXPONENT = 3, 4, 5, 6, 7 def test_benchmark_min_max(self): """Benchmark min_max without min positive. Compares with: - numpy.nanmin, numpy.nanmax and - numpy.argmin, numpy.argmax It runs bench for different types, different data size and 3 data sets: increasing , decreasing and random data. """ durations = {'min/max': [], 'argmin/max': [], 'combo': []} _logger.info('Benchmark against argmin/argmax and nanmin/nanmax') for dtype in self.DTYPES: for arange in self.ARANGE: for exponent in self.EXPONENT: size = 10**exponent with self.subTest(dtype=dtype, size=size, arange=arange): if arange == 'ascent': data = numpy.arange(0, size, 1, dtype=dtype) elif arange == 'descent': data = numpy.arange(size, 0, -1, dtype=dtype) else: if dtype in ('float32', 'float64'): data = numpy.random.random(size) else: data = numpy.random.randint(10**6, size=size) data = numpy.array(data, dtype=dtype) start = time.time() ref_min = numpy.nanmin(data) ref_max = numpy.nanmax(data) durations['min/max'].append(time.time() - start) start = time.time() ref_argmin = numpy.argmin(data) ref_argmax = numpy.argmax(data) durations['argmin/max'].append(time.time() - start) start = time.time() result = combo.min_max(data, min_positive=False) durations['combo'].append(time.time() - start) _logger.info( '%s-%s-10**%d\tx%.2f argmin/max x%.2f min/max', dtype, arange, exponent, durations['argmin/max'][-1] / durations['combo'][-1], durations['min/max'][-1] / durations['combo'][-1]) self.assertEqual(result.minimum, ref_min) self.assertEqual(result.maximum, ref_max) self.assertEqual(result.argmin, ref_argmin) self.assertEqual(result.argmax, ref_argmax) self.show_results('min/max', durations, 'combo') def test_benchmark_min_pos(self): """Benchmark min_max wit min positive. Compares with: - numpy.nanmin(data[data > 0]); numpy.nanmin(pos); numpy.nanmax(pos) It runs bench for different types, different data size and 3 data sets: increasing , decreasing and random data. """ durations = {'min/max': [], 'combo': []} _logger.info('Benchmark against min, max, positive min') for dtype in self.DTYPES: for arange in self.ARANGE: for exponent in self.EXPONENT: size = 10**exponent with self.subTest(dtype=dtype, size=size, arange=arange): if arange == 'ascent': data = numpy.arange(0, size, 1, dtype=dtype) elif arange == 'descent': data = numpy.arange(size, 0, -1, dtype=dtype) else: if dtype in ('float32', 'float64'): data = numpy.random.random(size) else: data = numpy.random.randint(10**6, size=size) data = numpy.array(data, dtype=dtype) start = time.time() ref_min_positive = numpy.nanmin(data[data > 0]) ref_min = numpy.nanmin(data) ref_max = numpy.nanmax(data) durations['min/max'].append(time.time() - start) start = time.time() result = combo.min_max(data, min_positive=True) durations['combo'].append(time.time() - start) _logger.info( '%s-%s-10**%d\tx%.2f min/minpos/max', dtype, arange, exponent, durations['min/max'][-1] / durations['combo'][-1]) self.assertEqual(result.min_positive, ref_min_positive) self.assertEqual(result.minimum, ref_min) self.assertEqual(result.maximum, ref_max) self.show_results('min/max/min positive', durations, 'combo') def show_results(self, title, durations, ref_key): try: from matplotlib import pyplot except ImportError: _logger.warning('matplotlib not available') return pyplot.title(title) pyplot.xlabel('-'.join(self.DTYPES)) pyplot.ylabel('duration (sec)') for label, values in durations.items(): pyplot.semilogy(values, label=label) pyplot.legend() pyplot.show() pyplot.title(title) pyplot.xlabel('-'.join(self.DTYPES)) pyplot.ylabel('Duration ratio') ref = numpy.array(durations[ref_key]) for label, values in durations.items(): values = numpy.array(values) pyplot.plot(values/ref, label=label + ' / ' + ref_key) pyplot.legend() pyplot.show() def suite(): test_suite = unittest.TestSuite() test_suite.addTests( unittest.defaultTestLoader.loadTestsFromTestCase(BenchmarkMinMax)) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/test_HistogramndLut_nominal.py0000644023630100076410000005071313202530432024122 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Nominal tests of the HistogramndLut function. """ import unittest import numpy as np from silx.math import HistogramndLut def _get_bin_edges(histo_range, n_bins, n_dims): edges = [] for i_dim in range(n_dims): edges.append(histo_range[i_dim, 0] + np.arange(n_bins[i_dim] + 1) * (histo_range[i_dim, 1] - histo_range[i_dim, 0]) / n_bins[i_dim]) return tuple(edges) # ============================================================== # ============================================================== # ============================================================== class _TestHistogramndLut_nominal(unittest.TestCase): """ Unit tests of the HistogramndLut class. """ ndims = None def setUp(self): ndims = self.ndims self.tested_dim = ndims-1 if ndims is None: raise ValueError('ndims class member not set.') sample = np.array([5.5, -3.3, 0., -0.5, 3.3, 8.8, -7.7, 6.0, -4.0]) weights = np.array([500.5, -300.3, 0.01, -0.5, 300.3, 800.8, -700.7, 600.6, -400.4]) n_elems = len(sample) if ndims == 1: shape = (n_elems,) else: shape = (n_elems, ndims) self.sample = np.zeros(shape=shape, dtype=sample.dtype) if ndims == 1: self.sample = sample else: self.sample[..., ndims-1] = sample self.weights = weights # the tests are performed along one dimension, # all the other bins indices along the other dimensions # are expected to be 2 # (e.g : when testing a 2D sample : [0, x] will go into # bin [2, y] because of the bin ranges [-2, 2] and n_bins = 4 # for the first dimension) self.other_axes_index = 2 self.histo_range = np.repeat([[-2., 2.]], ndims, axis=0) self.histo_range[ndims-1] = [-4., 6.] self.n_bins = np.array([4]*ndims) self.n_bins[ndims-1] = 5 if ndims == 1: def fill_histo(h, v, dim, op=None): if op: h[:] = op(h[:], v) else: h[:] = v self.fill_histo = fill_histo else: def fill_histo(h, v, dim, op=None): idx = [self.other_axes_index]*len(h.shape) idx[dim] = slice(0, None) if op: h[idx] = op(h[idx], v) else: h[idx] = v self.fill_histo = fill_histo def test_nominal_bin_edges(self): instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) bin_edges = instance.bins_edges expected_edges = _get_bin_edges(self.histo_range, self.n_bins, self.ndims) for i_edges, edges in enumerate(expected_edges): self.assertTrue(np.array_equal(bin_edges[i_edges], expected_edges[i_edges]), msg='Testing bin_edges for dim {0}' ''.format(i_edges+1)) def test_nominal_histo_range(self): instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) histo_range = instance.histo_range self.assertTrue(np.array_equal(histo_range, self.histo_range)) def test_nominal_last_bin_closed(self): instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) last_bin_closed = instance.last_bin_closed self.assertEqual(last_bin_closed, False) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins, last_bin_closed=True) last_bin_closed = instance.last_bin_closed self.assertEqual(last_bin_closed, True) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins, last_bin_closed=False) last_bin_closed = instance.last_bin_closed self.assertEqual(last_bin_closed, False) def test_nominal_n_bins_array(self): test_n_bins = np.arange(self.ndims) + 10 instance = HistogramndLut(self.sample, self.histo_range, test_n_bins) n_bins = instance.n_bins self.assertTrue(np.array_equal(test_n_bins, n_bins)) def test_nominal_n_bins_scalar(self): test_n_bins = 10 expected_n_bins = np.array([test_n_bins] * self.ndims) instance = HistogramndLut(self.sample, self.histo_range, test_n_bins) n_bins = instance.n_bins self.assertTrue(np.array_equal(expected_n_bins, n_bins)) def test_nominal_histo_ref(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) instance.accumulate(self.weights) histo = instance.histo() w_histo = instance.weighted_histo() histo_ref = instance.histo(copy=False) w_histo_ref = instance.weighted_histo(copy=False) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) self.assertTrue(np.array_equal(histo_ref, expected_h)) self.assertTrue(np.array_equal(w_histo_ref, expected_c)) histo_ref[0, ...] = histo_ref[0, ...] + 10 w_histo_ref[0, ...] = w_histo_ref[0, ...] + 20 self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) self.assertFalse(np.array_equal(histo_ref, expected_h)) self.assertFalse(np.array_equal(w_histo_ref, expected_c)) histo_2 = instance.histo() w_histo_2 = instance.weighted_histo() self.assertFalse(np.array_equal(histo_2, expected_h)) self.assertFalse(np.array_equal(w_histo_2, expected_c)) self.assertTrue(np.array_equal(histo_2, histo_ref)) self.assertTrue(np.array_equal(w_histo_2, w_histo_ref)) def test_nominal_accumulate_once(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) instance.accumulate(self.weights) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) self.assertTrue(np.array_equal(instance.histo(), expected_h)) self.assertTrue(np.array_equal(instance.weighted_histo(), expected_c)) def test_nominal_accumulate_twice(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) # calling accumulate twice expected_h *= 2 expected_c *= 2 instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) instance.accumulate(self.weights) instance.accumulate(self.weights) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) self.assertTrue(np.array_equal(instance.histo(), expected_h)) self.assertTrue(np.array_equal(instance.weighted_histo(), expected_c)) def test_nominal_apply_lut_once(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) histo, w_histo = instance.apply_lut(self.weights) self.assertEqual(w_histo.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) self.assertEqual(instance.histo(), None) self.assertEqual(instance.weighted_histo(), None) def test_nominal_apply_lut_twice(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 500.5]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) # calling apply_lut twice expected_h *= 2 expected_c *= 2 instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) histo, w_histo = instance.apply_lut(self.weights) histo_2, w_histo_2 = instance.apply_lut(self.weights, histo=histo, weighted_histo=w_histo) self.assertEqual(id(histo), id(histo_2)) self.assertEqual(id(w_histo), id(w_histo_2)) self.assertEqual(w_histo.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) self.assertEqual(instance.histo(), None) self.assertEqual(instance.weighted_histo(), None) def test_nominal_accumulate_last_bin_closed(self): """ """ expected_h_tpl = np.array([2, 1, 1, 1, 2]) expected_c_tpl = np.array([-700.7, -0.5, 0.01, 300.3, 1101.1]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins, last_bin_closed=True) instance.accumulate(self.weights) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) def test_nominal_accumulate_weight_min_max(self): """ """ weight_min = -299.9 weight_max = 499.9 expected_h_tpl = np.array([0, 1, 1, 1, 0]) expected_c_tpl = np.array([0., -0.5, 0.01, 300.3, 0.]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) instance.accumulate(self.weights, weight_min=weight_min, weight_max=weight_max) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.float64) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) def test_nominal_accumulate_forced_int32(self): """ double weights, int32 weighted_histogram """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700, 0, 0, 300, 500]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.double) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins, dtype=np.int32) instance.accumulate(self.weights) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.int32) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) def test_nominal_accumulate_forced_float32(self): """ int32 weights, float32 weighted_histogram """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700., 0., 0., 300., 500.]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.float32) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins, dtype=np.float32) instance.accumulate(self.weights.astype(np.int32)) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.float32) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) def test_nominal_accumulate_int32(self): """ int32 weights """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700, 0, 0, 300, 500]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.int32) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) instance.accumulate(self.weights.astype(np.int32)) histo = instance.histo() w_histo = instance.weighted_histo() self.assertEqual(w_histo.dtype, np.int32) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) def test_nominal_accumulate_int32_double(self): """ int32 weights """ expected_h_tpl = np.array([2, 1, 1, 1, 1]) expected_c_tpl = np.array([-700, 0, 0, 300, 500]) expected_h = np.zeros(shape=self.n_bins, dtype=np.double) expected_c = np.zeros(shape=self.n_bins, dtype=np.int32) self.fill_histo(expected_h, expected_h_tpl, self.ndims-1) self.fill_histo(expected_c, expected_c_tpl, self.ndims-1) instance = HistogramndLut(self.sample, self.histo_range, self.n_bins) instance.accumulate(self.weights.astype(np.int32)) instance.accumulate(self.weights) histo = instance.histo() w_histo = instance.weighted_histo() expected_h *= 2 expected_c *= 2 self.assertEqual(w_histo.dtype, np.int32) self.assertEqual(histo.dtype, np.uint32) self.assertTrue(np.array_equal(histo, expected_h)) self.assertTrue(np.array_equal(w_histo, expected_c)) def testNoneNativeTypes(self): type = self.sample.dtype.newbyteorder("B") sampleB = self.sample.astype(type) type = self.sample.dtype.newbyteorder("L") sampleL = self.sample.astype(type) histo_inst = HistogramndLut(sampleB, self.histo_range, self.n_bins) histo_inst = HistogramndLut(sampleL, self.histo_range, self.n_bins) class TestHistogramndLut_nominal_1d(_TestHistogramndLut_nominal): ndims = 1 class TestHistogramndLut_nominal_2d(_TestHistogramndLut_nominal): ndims = 2 class TestHistogramndLut_nominal_3d(_TestHistogramndLut_nominal): ndims = 3 # ============================================================== # ============================================================== # ============================================================== test_cases = (TestHistogramndLut_nominal_1d, TestHistogramndLut_nominal_2d, TestHistogramndLut_nominal_3d,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/test_histogramnd_vs_np.py0000644023630100076410000007270613202530306023173 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Tests for the histogramnd function. Results are compared to numpy's histogramdd. """ import unittest import operator import numpy as np from silx.math.chistogramnd import chistogramnd as histogramnd # ============================================================== # ============================================================== # ============================================================== _RTOL_DICT = {np.float64: 10**-13, np.float32: 10**-5} # ============================================================== # ============================================================== # ============================================================== def _add_values_to_array_if_missing(array, values, n_values): max_in_col = np.any(array[:, ...] == values, axis=0) if len(array.shape) == 1: if not max_in_col: rnd_idx = np.random.randint(0, high=len(array)-1, size=(n_values,)) array[rnd_idx] = values else: for i in range(len(max_in_col)): if not max_in_col[i]: rnd_idx = np.random.randint(0, high=len(array)-1, size=(n_values,)) array[rnd_idx, i] = values[i] def _get_values_index(array, values, op=operator.lt): idx = op(array[:, ...], values) if array.ndim > 1: idx = np.all(idx, axis=1) return np.where(idx)[0] def _get_in_range_indices(array, minvalues, maxvalues, minop=operator.ge, maxop=operator.lt): idx = np.logical_and(minop(array, minvalues), maxop(array, maxvalues)) if array.ndim > 1: idx = np.all(idx, axis=1) return np.where(idx)[0] class _TestHistogramnd(unittest.TestCase): """ Unit tests of the histogramnd function. """ sample_rng = None weights_rng = None n_dims = None filter_min = None filter_max = None histo_range = None n_bins = None dtype_sample = None dtype_weights = None def generate_data(self): self.longMessage = True int_min = 0 int_max = 100000 n_elements = 10**5 if self.n_dims == 1: shape = (n_elements,) else: shape = (n_elements, self.n_dims,) self.rng_state = np.random.get_state() self.state_msg = ('Current RNG state :\n' '{0}'.format(self.rng_state)) sample = np.random.randint(int_min, high=int_max, size=shape) sample = sample.astype(self.dtype_sample) sample = (self.sample_rng[0] + (sample-int_min) * (self.sample_rng[1]-self.sample_rng[0]) / (int_max-int_min)).astype(self.dtype_sample) weights = np.random.randint(int_min, high=int_max, size=(n_elements,)) weights = weights.astype(self.dtype_weights) weights = (self.weights_rng[0] + (weights-int_min) * (self.weights_rng[1]-self.weights_rng[0]) / (int_max-int_min)).astype(self.dtype_weights) # !!!!!!!!!!!!!!!!!!!!!!!!!!!! # !!!!!!!!!!!!!!!!!!!!!!!!!!!! # the bins range are cast to the same type as the sample # in order to get the same results as numpy # (which doesnt cast the range) self.histo_range = np.array(self.histo_range).astype(self.dtype_sample) # adding some values that are equal to the max # in order to test the opened/closed last bin bins_max = [b[1] for b in self.histo_range] _add_values_to_array_if_missing(sample, bins_max, 100) # adding some values that are equal to the min weight value # in order to test the filters _add_values_to_array_if_missing(weights, self.weights_rng[0], 100) # adding some values that are equal to the max weight value # in order to test the filters _add_values_to_array_if_missing(weights, self.weights_rng[1], 100) return sample, weights def setUp(self): self.sample, self.weights = self.generate_data() self.rtol = _RTOL_DICT.get(self.dtype_weights, None) def array_compare(self, ar_a, ar_b): if self.rtol is None: return np.array_equal(ar_a, ar_b) return np.allclose(ar_a, ar_b, self.rtol) def test_bin_ranges(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True) result_np = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range) for i_edges, edges in enumerate(result_c[2]): # allclose for now until I can try with the latest version (TBD) # of numpy self.assertTrue(np.allclose(edges, result_np[1][i_edges]), msg='{0}. Testing bin_edges for dim {1}.' ''.format(self.state_msg, i_edges+1)) def test_last_bin_closed(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True) result_np = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range) result_np_w = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range, weights=self.weights) # comparing "hits" hits_cmp = np.array_equal(result_c[0], result_np[0]) # comparing weights weights_cmp = np.array_equal(result_c[1], result_np_w[0]) self.assertTrue(hits_cmp, msg=self.state_msg) self.assertTrue(weights_cmp, msg=self.state_msg) bins_min = [rng[0] for rng in self.histo_range] bins_max = [rng[1] for rng in self.histo_range] inrange_idx = _get_in_range_indices(self.sample, bins_min, bins_max, minop=operator.ge, maxop=operator.le) self.assertEqual(result_c[0].sum(), inrange_idx.shape[0], msg=self.state_msg) # we have to sum the weights using the same precision as the # histogramnd function weights_sum = self.weights[inrange_idx].astype(result_c[1].dtype).sum() self.assertTrue(self.array_compare(result_c[1].sum(), weights_sum), msg=self.state_msg) def test_last_bin_open(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=False) bins_max = [rng[1] for rng in self.histo_range] filtered_idx = _get_values_index(self.sample, bins_max) result_np = np.histogramdd(self.sample[filtered_idx], bins=self.n_bins, range=self.histo_range) result_np_w = np.histogramdd(self.sample[filtered_idx], bins=self.n_bins, range=self.histo_range, weights=self.weights[filtered_idx]) # comparing "hits" hits_cmp = np.array_equal(result_c[0], result_np[0]) # comparing weights weights_cmp = np.array_equal(result_c[1], result_np_w[0]) self.assertTrue(hits_cmp, msg=self.state_msg) self.assertTrue(weights_cmp, msg=self.state_msg) bins_min = [rng[0] for rng in self.histo_range] bins_max = [rng[1] for rng in self.histo_range] inrange_idx = _get_in_range_indices(self.sample, bins_min, bins_max, minop=operator.ge, maxop=operator.lt) self.assertEqual(result_c[0].sum(), len(inrange_idx), msg=self.state_msg) # we have to sum the weights using the same precision as the # histogramnd function weights_sum = self.weights[inrange_idx].astype(result_c[1].dtype).sum() self.assertTrue(self.array_compare(result_c[1].sum(), weights_sum), msg=self.state_msg) def test_filter_min(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True, weight_min=self.filter_min) # !!!!!!!!!!!!!!!!!!!!!!!!!!!! filter_min = self.dtype_weights(self.filter_min) weight_idx = _get_values_index(self.weights, filter_min, # <------ !!! operator.ge) result_np = np.histogramdd(self.sample[weight_idx], bins=self.n_bins, range=self.histo_range) result_np_w = np.histogramdd(self.sample[weight_idx], bins=self.n_bins, range=self.histo_range, weights=self.weights[weight_idx]) # comparing "hits" hits_cmp = np.array_equal(result_c[0], result_np[0]) # comparing weights weights_cmp = np.array_equal(result_c[1], result_np_w[0]) self.assertTrue(hits_cmp, msg=self.state_msg) self.assertTrue(weights_cmp, msg=self.state_msg) bins_min = [rng[0] for rng in self.histo_range] bins_max = [rng[1] for rng in self.histo_range] inrange_idx = _get_in_range_indices(self.sample[weight_idx], bins_min, bins_max, minop=operator.ge, maxop=operator.le) inrange_idx = weight_idx[inrange_idx] self.assertEqual(result_c[0].sum(), len(inrange_idx), msg=self.state_msg) # we have to sum the weights using the same precision as the # histogramnd function weights_sum = self.weights[inrange_idx].astype(result_c[1].dtype).sum() self.assertTrue(self.array_compare(result_c[1].sum(), weights_sum), msg=self.state_msg) def test_filter_max(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True, weight_max=self.filter_max) # !!!!!!!!!!!!!!!!!!!!!!!!!!!! filter_max = self.dtype_weights(self.filter_max) weight_idx = _get_values_index(self.weights, filter_max, # <------ !!! operator.le) result_np = np.histogramdd(self.sample[weight_idx], bins=self.n_bins, range=self.histo_range) result_np_w = np.histogramdd(self.sample[weight_idx], bins=self.n_bins, range=self.histo_range, weights=self.weights[weight_idx]) # comparing "hits" hits_cmp = np.array_equal(result_c[0], result_np[0]) # comparing weights weights_cmp = np.array_equal(result_c[1], result_np_w[0]) self.assertTrue(hits_cmp, msg=self.state_msg) self.assertTrue(weights_cmp, msg=self.state_msg) bins_min = [rng[0] for rng in self.histo_range] bins_max = [rng[1] for rng in self.histo_range] inrange_idx = _get_in_range_indices(self.sample[weight_idx], bins_min, bins_max, minop=operator.ge, maxop=operator.le) inrange_idx = weight_idx[inrange_idx] self.assertEqual(result_c[0].sum(), len(inrange_idx), msg=self.state_msg) # we have to sum the weights using the same precision as the # histogramnd function weights_sum = self.weights[inrange_idx].astype(result_c[1].dtype).sum() self.assertTrue(self.array_compare(result_c[1].sum(), weights_sum), msg=self.state_msg) def test_filter_minmax(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True, weight_min=self.filter_min, weight_max=self.filter_max) # !!!!!!!!!!!!!!!!!!!!!!!!!!!! filter_min = self.dtype_weights(self.filter_min) filter_max = self.dtype_weights(self.filter_max) weight_idx = _get_in_range_indices(self.weights, filter_min, # <------ !!! filter_max, # <------ !!! minop=operator.ge, maxop=operator.le) result_np = np.histogramdd(self.sample[weight_idx], bins=self.n_bins, range=self.histo_range) result_np_w = np.histogramdd(self.sample[weight_idx], bins=self.n_bins, range=self.histo_range, weights=self.weights[weight_idx]) # comparing "hits" hits_cmp = np.array_equal(result_c[0], result_np[0]) # comparing weights weights_cmp = np.array_equal(result_c[1], result_np_w[0]) self.assertTrue(hits_cmp) self.assertTrue(weights_cmp) bins_min = [rng[0] for rng in self.histo_range] bins_max = [rng[1] for rng in self.histo_range] inrange_idx = _get_in_range_indices(self.sample[weight_idx], bins_min, bins_max, minop=operator.ge, maxop=operator.le) inrange_idx = weight_idx[inrange_idx] self.assertEqual(result_c[0].sum(), len(inrange_idx), msg=self.state_msg) # we have to sum the weights using the same precision as the # histogramnd function weights_sum = self.weights[inrange_idx].astype(result_c[1].dtype).sum() self.assertTrue(self.array_compare(result_c[1].sum(), weights_sum), msg=self.state_msg) def test_reuse_histo(self): """ """ result_c_1 = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True) result_np_1 = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range) np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range, weights=self.weights) sample_2, weights_2 = self.generate_data() result_c_2 = histogramnd(sample_2, self.histo_range, self.n_bins, weights=weights_2, last_bin_closed=True, histo=result_c_1[0]) result_np_2 = np.histogramdd(sample_2, bins=self.n_bins, range=self.histo_range) result_np_w_2 = np.histogramdd(sample_2, bins=self.n_bins, range=self.histo_range, weights=weights_2) # comparing "hits" hits_cmp = np.array_equal(result_c_2[0], result_np_1[0] + result_np_2[0]) # comparing weights weights_cmp = np.array_equal(result_c_2[1], result_np_w_2[0]) self.assertTrue(hits_cmp, msg=self.state_msg) self.assertTrue(weights_cmp, msg=self.state_msg) def test_reuse_cumul(self): """ """ result_c = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True) np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range) result_np_w = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range, weights=self.weights) sample_2, weights_2 = self.generate_data() result_c_2 = histogramnd(sample_2, self.histo_range, self.n_bins, weights=weights_2, last_bin_closed=True, weighted_histo=result_c[1]) result_np_2 = np.histogramdd(sample_2, bins=self.n_bins, range=self.histo_range) result_np_w_2 = np.histogramdd(sample_2, bins=self.n_bins, range=self.histo_range, weights=weights_2) # comparing "hits" hits_cmp = np.array_equal(result_c_2[0], result_np_2[0]) # comparing weights self.assertTrue(hits_cmp, msg=self.state_msg) self.assertTrue(self.array_compare(result_c_2[1], result_np_w[0] + result_np_w_2[0]), msg=self.state_msg) def test_reuse_cumul_float(self): """ """ n_bins = np.array(self.n_bins, ndmin=1) if len(self.sample.shape) == 2: if len(n_bins) == self.sample.shape[1]: shp = tuple([x for x in n_bins]) else: shp = (self.n_bins,) * self.sample.shape[1] cumul = np.zeros(shp, dtype=np.float32) else: shp = (self.n_bins,) cumul = np.zeros(shp, dtype=np.float32) result_c_1 = histogramnd(self.sample, self.histo_range, self.n_bins, weights=self.weights, last_bin_closed=True, weighted_histo=cumul) result_np_1 = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range) result_np_w_1 = np.histogramdd(self.sample, bins=self.n_bins, range=self.histo_range, weights=self.weights) # comparing "hits" hits_cmp = np.array_equal(result_c_1[0], result_np_1[0]) self.assertTrue(hits_cmp, msg=self.state_msg) self.assertEqual(result_c_1[1].dtype, np.float32, msg=self.state_msg) bins_min = [rng[0] for rng in self.histo_range] bins_max = [rng[1] for rng in self.histo_range] inrange_idx = _get_in_range_indices(self.sample, bins_min, bins_max, minop=operator.ge, maxop=operator.le) weights_sum = \ self.weights[inrange_idx].astype(np.float32).sum(dtype=np.float64) self.assertTrue(np.allclose(result_c_1[1].sum(dtype=np.float64), weights_sum), msg=self.state_msg) self.assertTrue(np.allclose(result_c_1[1].sum(dtype=np.float64), result_np_w_1[0].sum(dtype=np.float64)), msg=self.state_msg) class _TestHistogramnd_1d(_TestHistogramnd): """ Unit tests of the 1D histogramnd function. """ sample_rng = [-55., 100.] weights_rng = [-70., 150.] n_dims = 1 filter_min = -15.6 filter_max = 85.7 histo_range = [[-30.2, 90.3]] n_bins = 30 dtype = None class _TestHistogramnd_2d(_TestHistogramnd): """ Unit tests of the 1D histogramnd function. """ sample_rng = [-50.2, 100.99] weights_rng = [70., 150.] n_dims = 2 filter_min = 81.7 filter_max = 135.3 histo_range = [[10., 90.], [20., 70.]] n_bins = 30 dtype = None class _TestHistogramnd_3d(_TestHistogramnd): """ Unit tests of the 1D histogramnd function. """ sample_rng = [10.2, 200.9] weights_rng = [0., 100.] n_dims = 3 filter_min = 31.5 filter_max = 83.7 histo_range = [[30.8, 150.2], [20.1, 90.9], [10.1, 195.]] n_bins = 30 dtype = None # ################################################################ # ################################################################ # ################################################################ # ################################################################ class TestHistogramnd_1d_double_double(_TestHistogramnd_1d): dtype_sample = np.double dtype_weights = np.double class TestHistogramnd_1d_double_float(_TestHistogramnd_1d): dtype_sample = np.double dtype_weights = np.float32 class TestHistogramnd_1d_double_int32(_TestHistogramnd_1d): dtype_sample = np.double dtype_weights = np.int32 class TestHistogramnd_1d_float_double(_TestHistogramnd_1d): dtype_sample = np.float32 dtype_weights = np.double class TestHistogramnd_1d_float_float(_TestHistogramnd_1d): dtype_sample = np.float32 dtype_weights = np.float32 class TestHistogramnd_1d_float_int32(_TestHistogramnd_1d): dtype_sample = np.float32 dtype_weights = np.int32 class TestHistogramnd_1d_int32_double(_TestHistogramnd_1d): dtype_sample = np.int32 dtype_weights = np.double class TestHistogramnd_1d_int32_float(_TestHistogramnd_1d): dtype_sample = np.int32 dtype_weights = np.float32 class TestHistogramnd_1d_int32_int32(_TestHistogramnd_1d): dtype_sample = np.int32 dtype_weights = np.int32 class TestHistogramnd_2d_double_double(_TestHistogramnd_2d): dtype_sample = np.double dtype_weights = np.double class TestHistogramnd_2d_double_float(_TestHistogramnd_2d): dtype_sample = np.double dtype_weights = np.float32 class TestHistogramnd_2d_double_int32(_TestHistogramnd_2d): dtype_sample = np.double dtype_weights = np.int32 class TestHistogramnd_2d_float_double(_TestHistogramnd_2d): dtype_sample = np.float32 dtype_weights = np.double class TestHistogramnd_2d_float_float(_TestHistogramnd_2d): dtype_sample = np.float32 dtype_weights = np.float32 class TestHistogramnd_2d_float_int32(_TestHistogramnd_2d): dtype_sample = np.float32 dtype_weights = np.int32 class TestHistogramnd_2d_int32_double(_TestHistogramnd_2d): dtype_sample = np.int32 dtype_weights = np.double class TestHistogramnd_2d_int32_float(_TestHistogramnd_2d): dtype_sample = np.int32 dtype_weights = np.float32 class TestHistogramnd_2d_int32_int32(_TestHistogramnd_2d): dtype_sample = np.int32 dtype_weights = np.int32 class TestHistogramnd_3d_double_double(_TestHistogramnd_3d): dtype_sample = np.double dtype_weights = np.double class TestHistogramnd_3d_double_float(_TestHistogramnd_3d): dtype_sample = np.double dtype_weights = np.float32 class TestHistogramnd_3d_double_int32(_TestHistogramnd_3d): dtype_sample = np.double dtype_weights = np.int32 class TestHistogramnd_3d_float_double(_TestHistogramnd_3d): dtype_sample = np.float32 dtype_weights = np.double class TestHistogramnd_3d_float_float(_TestHistogramnd_3d): dtype_sample = np.float32 dtype_weights = np.float32 class TestHistogramnd_3d_float_int32(_TestHistogramnd_3d): dtype_sample = np.float32 dtype_weights = np.int32 class TestHistogramnd_3d_int32_double(_TestHistogramnd_3d): dtype_sample = np.int32 dtype_weights = np.double class TestHistogramnd_3d_int32_float(_TestHistogramnd_3d): dtype_sample = np.int32 dtype_weights = np.float32 class TestHistogramnd_3d_int32_int32(_TestHistogramnd_3d): dtype_sample = np.int32 dtype_weights = np.int32 # ============================================================== # ============================================================== # ============================================================== test_cases = (TestHistogramnd_1d_double_double, TestHistogramnd_1d_double_float, TestHistogramnd_1d_double_int32, TestHistogramnd_1d_float_double, TestHistogramnd_1d_float_float, TestHistogramnd_1d_float_int32, TestHistogramnd_1d_int32_double, TestHistogramnd_1d_int32_float, TestHistogramnd_1d_int32_int32, TestHistogramnd_2d_double_double, TestHistogramnd_2d_double_float, TestHistogramnd_2d_double_int32, TestHistogramnd_2d_float_double, TestHistogramnd_2d_float_float, TestHistogramnd_2d_float_int32, TestHistogramnd_2d_int32_double, TestHistogramnd_2d_int32_float, TestHistogramnd_2d_int32_int32, TestHistogramnd_3d_double_double, TestHistogramnd_3d_double_float, TestHistogramnd_3d_double_int32, TestHistogramnd_3d_float_double, TestHistogramnd_3d_float_float, TestHistogramnd_3d_float_int32, TestHistogramnd_3d_int32_double, TestHistogramnd_3d_int32_float, TestHistogramnd_3d_int32_int32,) def suite(): loader = unittest.defaultTestLoader test_suite = unittest.TestSuite() for test_class in test_cases: tests = loader.loadTestsFromTestCase(test_class) test_suite.addTests(tests) return test_suite if __name__ == '__main__': unittest.main(defaultTest="suite") silx-0.6.1/silx/math/test/histo_benchmarks.py0000644023630100076410000002123413202530306021721 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ histogramnd benchmarks, vs numpy.histogramdd (bin counts and weights). """ import numpy as np import time from silx.math import histogramnd def print_times(t0s, t1s, t2s, t3s): c_times = t1s - t0s np_times = t2s - t1s np_w_times = t3s - t2s time_txt = 'min : {0: <7.3f}; max : {1: <7.3f}; avg : {2: <7.3f}' print('\tTimes :') print('\tC : ' + time_txt.format(c_times.min(), c_times.max(), c_times.mean())) print('\tNP : ' + time_txt.format(np_times.min(), np_times.max(), np_times.mean())) print('\tNP(W) : ' + time_txt.format(np_w_times.min(), np_w_times.max(), np_w_times.mean())) def commpare_results(txt, times, result_c, result_np, result_np_w, sample, weights, raise_ex=False): if result_np: hits_cmp = np.array_equal(result_c[0], result_np[0]) else: hits_cmp = None if result_np_w and result_c[1] is not None: weights_cmp = np.array_equal(result_c[1], result_np_w[0]) else: weights_cmp = None if((hits_cmp is not None and not hits_cmp) or (weights_cmp is not None and not weights_cmp)): err_txt = (txt + ' : results arent the same : ' 'hits : {0}, ' 'weights : {1}.' ''.format('OK' if hits_cmp else 'NOK', 'OK' if weights_cmp else 'NOK')) print('\t' + err_txt) if raise_ex: raise ValueError(err_txt) return False result_txt = ' : results OK. c : {0: <7.3f};'.format(times[0]) if result_np or result_np_w: result_txt += (' np : {0: <7.3f}; ' 'np (weights) {1: <7.3f}.' ''.format(times[1], times[2])) print('\t' + txt + result_txt) return True def benchmark(n_loops, sample_shape, sample_rng, weights_rng, histo_range, n_bins, weight_min, weight_max, last_bin_closed, dtype=np.double, do_weights=True, do_numpy=True): int_min = 0 int_max = 100000 sample = np.random.randint(int_min, high=int_max, size=sample_shape).astype(np.double) sample = (sample_rng[0] + (sample - int_min) * (sample_rng[1] - sample_rng[0]) / (int_max - int_min)) sample = sample.astype(dtype) if do_weights: weights = np.random.randint(int_min, high=int_max, size=(ssetup.pyample_shape[0],)) weights = weights.astype(np.double) weights = (weights_rng[0] + (weights - int_min) * (weights_rng[1] - weights_rng[0]) / (int_max - int_min)) else: weights = None t0s = [] t1s = [] t2s = [] t3s = [] for i in range(n_loops): t0s.append(time.time()) result_c = histogramnd(sample, histo_range, n_bins, weights=weights, weight_min=weight_min, weight_max=weight_max, last_bin_closed=last_bin_closed) t1s.append(time.time()) if do_numpy: result_np = np.histogramdd(sample, bins=n_bins, range=histo_range) t2s.append(time.time()) result_np_w = np.histogramdd(sample, bins=n_bins, range=histo_range, weights=weights) t3s.append(time.time()) else: result_np = None result_np_w = None t2s.append(0) t3s.append(0) commpare_results('Run {0}'.format(i), [t1s[-1] - t0s[-1], t2s[-1] - t1s[-1], t3s[-1] - t2s[-1]], result_c, result_np, result_np_w, sample, weights) print_times(np.array(t0s), np.array(t1s), np.array(t2s), np.array(t3s)) def run_benchmark(dtype=np.double, do_weights=True, do_numpy=True): n_loops = 5 weights_rng = [0., 100.] sample_rng = [0., 100.] weight_min = None weight_max = None last_bin_closed = True # ==================================================== # ==================================================== # 1D # ==================================================== # ==================================================== print('==========================') print(' 1D [{0}]'.format(dtype)) print('==========================') sample_shape = (10**7,) histo_range = [[0., 100.]] n_bins = 30 benchmark(n_loops, sample_shape, sample_rng, weights_rng, histo_range, n_bins, weight_min, weight_max, last_bin_closed, dtype=dtype, do_weights=True, do_numpy=do_numpy) # ==================================================== # ==================================================== # 2D # ==================================================== # ==================================================== print('==========================') print(' 2D [{0}]'.format(dtype)) print('==========================') sample_shape = (10**7, 2) histo_range = [[0., 100.], [0., 100.]] n_bins = 30 benchmark(n_loops, sample_shape, sample_rng, weights_rng, histo_range, n_bins, weight_min, weight_max, last_bin_closed, dtype=dtype, do_weights=True, do_numpy=do_numpy) # ==================================================== # ==================================================== # 3D # ==================================================== # ==================================================== print('==========================') print(' 3D [{0}]'.format(dtype)) print('==========================') sample_shape = (10**7, 3) histo_range = np.array([[0., 100.], [0., 100.], [0., 100.]]) n_bins = 30 benchmark(n_loops, sample_shape, sample_rng, weights_rng, histo_range, n_bins, weight_min, weight_max, last_bin_closed, dtype=dtype, do_weights=True, do_numpy=do_numpy) if __name__ == '__main__': types = (np.double, np.int32, np.float32,) for t in types: run_benchmark(t, do_weights=True, do_numpy=True) silx-0.6.1/silx/math/combo.c0000644023630100076410000525551313202530432016326 0ustar knobelusers00000000000000/* Generated by Cython 0.21.1 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS #ifdef PYLONG_BITS_IN_DIGIT #define CYTHON_USE_PYLONG_INTERNALS 0 #else #include "pyconfig.h" #ifdef PYLONG_BITS_IN_DIGIT #define CYTHON_USE_PYLONG_INTERNALS 1 #else #define CYTHON_USE_PYLONG_INTERNALS 0 #endif #endif #endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_21_1" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 #define Py_OptimizeFlag 0 #endif #define __PYX_BUILD_PY_SSIZE_T "n" #define CYTHON_FORMAT_SSIZE_T "z" #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyType_Type #endif #if PY_MAJOR_VERSION >= 3 #define Py_TPFLAGS_CHECKTYPES 0 #define Py_TPFLAGS_HAVE_INDEX 0 #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif #if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) #define Py_TPFLAGS_HAVE_FINALIZE 0 #endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) #endif #if CYTHON_COMPILING_IN_PYPY #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) #define __Pyx_PyFrozenSet_Size(s) PyObject_Size(s) #else #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) #define __Pyx_PyFrozenSet_Size(s) PySet_Size(s) #endif #define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? 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#if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview) \ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview) \ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview) \ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview) \ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /*--- Type declarations ---*/ struct __pyx_array_obj; struct __pyx_MemviewEnum_obj; struct __pyx_memoryview_obj; struct __pyx_memoryviewslice_obj; struct __pyx_defaults; typedef struct __pyx_defaults __pyx_defaults; struct __pyx_defaults1; typedef struct __pyx_defaults1 __pyx_defaults1; struct __pyx_defaults2; typedef struct __pyx_defaults2 __pyx_defaults2; struct __pyx_defaults3; typedef struct __pyx_defaults3 __pyx_defaults3; struct __pyx_defaults4; typedef struct __pyx_defaults4 __pyx_defaults4; struct __pyx_defaults5; typedef struct __pyx_defaults5 __pyx_defaults5; struct __pyx_defaults6; typedef struct __pyx_defaults6 __pyx_defaults6; struct __pyx_defaults7; typedef struct __pyx_defaults7 __pyx_defaults7; struct __pyx_defaults8; typedef struct __pyx_defaults8 __pyx_defaults8; struct __pyx_defaults9; typedef struct __pyx_defaults9 __pyx_defaults9; struct __pyx_defaults10; typedef struct __pyx_defaults10 __pyx_defaults10; struct __pyx_defaults11; typedef struct __pyx_defaults11 __pyx_defaults11; struct __pyx_defaults12; typedef struct __pyx_defaults12 __pyx_defaults12; struct __pyx_defaults13; typedef struct __pyx_defaults13 __pyx_defaults13; struct __pyx_defaults14; typedef struct __pyx_defaults14 __pyx_defaults14; struct __pyx_defaults15; typedef struct __pyx_defaults15 __pyx_defaults15; struct __pyx_defaults16; typedef struct __pyx_defaults16 __pyx_defaults16; struct __pyx_defaults17; typedef struct __pyx_defaults17 __pyx_defaults17; struct __pyx_defaults18; typedef struct __pyx_defaults18 __pyx_defaults18; struct __pyx_defaults19; typedef struct __pyx_defaults19 __pyx_defaults19; struct __pyx_defaults20; typedef struct __pyx_defaults20 __pyx_defaults20; struct __pyx_defaults21; typedef struct __pyx_defaults21 __pyx_defaults21; struct __pyx_defaults22; typedef struct __pyx_defaults22 __pyx_defaults22; struct __pyx_defaults23; typedef struct __pyx_defaults23 __pyx_defaults23; struct __pyx_defaults24; typedef struct __pyx_defaults24 __pyx_defaults24; struct __pyx_defaults25; typedef struct __pyx_defaults25 __pyx_defaults25; struct __pyx_defaults26; typedef struct __pyx_defaults26 __pyx_defaults26; struct __pyx_defaults27; typedef struct __pyx_defaults27 __pyx_defaults27; struct __pyx_defaults28; typedef struct __pyx_defaults28 __pyx_defaults28; struct __pyx_defaults29; typedef struct __pyx_defaults29 __pyx_defaults29; struct __pyx_defaults30; typedef struct __pyx_defaults30 __pyx_defaults30; struct __pyx_defaults31; typedef struct __pyx_defaults31 __pyx_defaults31; struct __pyx_defaults { int __pyx_arg_min_positive; }; struct __pyx_defaults1 { int __pyx_arg_min_positive; }; struct __pyx_defaults2 { int __pyx_arg_min_positive; }; struct __pyx_defaults3 { int __pyx_arg_min_positive; }; struct __pyx_defaults4 { int __pyx_arg_min_positive; }; struct __pyx_defaults5 { int __pyx_arg_min_positive; }; struct __pyx_defaults6 { int __pyx_arg_min_positive; }; struct __pyx_defaults7 { int __pyx_arg_min_positive; }; struct __pyx_defaults8 { int __pyx_arg_min_positive; }; struct __pyx_defaults9 { int __pyx_arg_min_positive; }; struct __pyx_defaults10 { int __pyx_arg_min_positive; }; struct __pyx_defaults11 { int __pyx_arg_min_positive; }; struct __pyx_defaults12 { int __pyx_arg_min_positive; }; struct __pyx_defaults13 { int __pyx_arg_min_positive; }; struct __pyx_defaults14 { int __pyx_arg_min_positive; }; struct __pyx_defaults15 { int __pyx_arg_min_positive; }; struct __pyx_defaults16 { int __pyx_arg_min_positive; }; struct __pyx_defaults17 { int __pyx_arg_min_positive; }; struct __pyx_defaults18 { int __pyx_arg_min_positive; }; struct __pyx_defaults19 { int __pyx_arg_min_positive; }; struct __pyx_defaults20 { int __pyx_arg_min_positive; }; struct __pyx_defaults21 { int __pyx_arg_min_positive; }; struct __pyx_defaults22 { int __pyx_arg_min_positive; }; struct __pyx_defaults23 { int __pyx_arg_min_positive; }; struct __pyx_defaults24 { int __pyx_arg_min_positive; }; struct __pyx_defaults25 { int __pyx_arg_min_positive; }; struct __pyx_defaults26 { int __pyx_arg_min_positive; }; struct __pyx_defaults27 { int __pyx_arg_min_positive; }; struct __pyx_defaults28 { int __pyx_arg_min_positive; }; struct __pyx_defaults29 { int __pyx_arg_min_positive; }; struct __pyx_defaults30 { int __pyx_arg_min_positive; }; struct __pyx_defaults31 { int __pyx_arg_min_positive; }; /* "View.MemoryView":99 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_array_obj { PyObject_HEAD char *data; Py_ssize_t len; char *format; int ndim; Py_ssize_t *_shape; Py_ssize_t *_strides; Py_ssize_t itemsize; PyObject *mode; PyObject *_format; void (*callback_free_data)(void *); int free_data; int dtype_is_object; }; /* "View.MemoryView":269 * * @cname('__pyx_MemviewEnum') * cdef class Enum(object): # <<<<<<<<<<<<<< * cdef object name * def __init__(self, name): */ struct __pyx_MemviewEnum_obj { PyObject_HEAD PyObject *name; }; /* "View.MemoryView":302 * * @cname('__pyx_memoryview') * cdef class memoryview(object): # <<<<<<<<<<<<<< * * cdef object obj */ struct __pyx_memoryview_obj { PyObject_HEAD struct __pyx_vtabstruct_memoryview *__pyx_vtab; PyObject *obj; PyObject *_size; PyObject *_array_interface; PyThread_type_lock lock; __pyx_atomic_int acquisition_count[2]; __pyx_atomic_int *acquisition_count_aligned_p; Py_buffer view; int flags; int dtype_is_object; __Pyx_TypeInfo *typeinfo; }; /* "View.MemoryView":922 * * @cname('__pyx_memoryviewslice') * cdef class _memoryviewslice(memoryview): # <<<<<<<<<<<<<< * "Internal class for passing memoryview slices to Python" * */ struct __pyx_memoryviewslice_obj { struct __pyx_memoryview_obj __pyx_base; __Pyx_memviewslice from_slice; PyObject *from_object; PyObject *(*to_object_func)(char *); int (*to_dtype_func)(char *, PyObject *); }; /* "View.MemoryView":302 * * @cname('__pyx_memoryview') * cdef class memoryview(object): # <<<<<<<<<<<<<< * * cdef object obj */ struct __pyx_vtabstruct_memoryview { char *(*get_item_pointer)(struct __pyx_memoryview_obj *, PyObject *); PyObject *(*is_slice)(struct __pyx_memoryview_obj *, PyObject *); PyObject *(*setitem_slice_assignment)(struct __pyx_memoryview_obj *, PyObject *, PyObject *); PyObject *(*setitem_slice_assign_scalar)(struct __pyx_memoryview_obj *, struct __pyx_memoryview_obj *, PyObject *); PyObject *(*setitem_indexed)(struct __pyx_memoryview_obj *, PyObject *, PyObject *); PyObject *(*convert_item_to_object)(struct __pyx_memoryview_obj *, char *); PyObject *(*assign_item_from_object)(struct __pyx_memoryview_obj *, char *, PyObject *); }; static struct __pyx_vtabstruct_memoryview *__pyx_vtabptr_memoryview; /* "View.MemoryView":922 * * @cname('__pyx_memoryviewslice') * cdef class _memoryviewslice(memoryview): # <<<<<<<<<<<<<< * "Internal class for passing memoryview slices to Python" * */ struct __pyx_vtabstruct__memoryviewslice { struct __pyx_vtabstruct_memoryview __pyx_base; 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static void __Pyx_RaiseDoubleKeywordsError(const char* func_name, PyObject* kw_name); static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, \ const char* function_name); #if CYTHON_COMPILING_IN_CPYTHON #define __Pyx_PyObject_DelAttrStr(o,n) __Pyx_PyObject_SetAttrStr(o,n,NULL) static CYTHON_INLINE int __Pyx_PyObject_SetAttrStr(PyObject* obj, PyObject* attr_name, PyObject* value) { PyTypeObject* tp = Py_TYPE(obj); if (likely(tp->tp_setattro)) return tp->tp_setattro(obj, attr_name, value); #if PY_MAJOR_VERSION < 3 if (likely(tp->tp_setattr)) return tp->tp_setattr(obj, PyString_AS_STRING(attr_name), value); #endif return PyObject_SetAttr(obj, attr_name, value); } #else #define __Pyx_PyObject_DelAttrStr(o,n) PyObject_DelAttr(o,n) #define __Pyx_PyObject_SetAttrStr(o,n,v) PyObject_SetAttr(o,n,v) #endif #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); static CYTHON_INLINE void __Pyx_ExceptionSave(PyObject **type, PyObject **value, PyObject **tb); static void __Pyx_ExceptionReset(PyObject *type, PyObject *value, PyObject *tb); static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); static CYTHON_INLINE int __Pyx_PyDict_Contains(PyObject* item, PyObject* dict, int eq) { int result = PyDict_Contains(dict, item); return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); } #if PY_MAJOR_VERSION >= 3 static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif #define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ (is_list ? 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static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); static void __Pyx_UnpackTupleError(PyObject *, Py_ssize_t index); static CYTHON_INLINE int __Pyx_unpack_tuple2(PyObject* tuple, PyObject** value1, PyObject** value2, int is_tuple, int has_known_size, int decref_tuple); static CYTHON_INLINE PyObject* __Pyx_dict_iterator(PyObject* dict, int is_dict, PyObject* method_name, Py_ssize_t* p_orig_length, int* p_is_dict); static CYTHON_INLINE int __Pyx_dict_iter_next(PyObject* dict_or_iter, Py_ssize_t orig_length, Py_ssize_t* ppos, PyObject** pkey, PyObject** pvalue, PyObject** pitem, int is_dict); #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; 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/* proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif #define UNARY_NEG_WOULD_OVERFLOW(x) (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *get_memview(PyObject *__pyx_v_self); /*proto*/ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) : \ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) : \ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) : \ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) : \ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *__pyx_memoryview_transpose(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview__get__base(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview_get_shape(PyObject *__pyx_v_self); /*proto*/ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif static PyObject *__pyx_memoryview_get_strides(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview_get_suboffsets(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview_get_ndim(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview_get_itemsize(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview_get_nbytes(PyObject *__pyx_v_self); /*proto*/ static PyObject *__pyx_memoryview_get_size(PyObject *__pyx_v_self); /*proto*/ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); static CYTHON_INLINE long __Pyx_div_long(long, long); /* proto */ static PyObject *__pyx_memoryviewslice__get__base(PyObject *__pyx_v_self); /*proto*/ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback); static int __Pyx_SetVtable(PyObject *dict, void *vtable); static PyObject *__Pyx_CalculateMetaclass(PyTypeObject *metaclass, PyObject *bases); static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type); #define __Pyx_CyFunction_USED 1 #include #define __Pyx_CYFUNCTION_STATICMETHOD 0x01 #define __Pyx_CYFUNCTION_CLASSMETHOD 0x02 #define __Pyx_CYFUNCTION_CCLASS 0x04 #define __Pyx_CyFunction_GetClosure(f) \ (((__pyx_CyFunctionObject *) (f))->func_closure) #define __Pyx_CyFunction_GetClassObj(f) \ (((__pyx_CyFunctionObject *) (f))->func_classobj) #define __Pyx_CyFunction_Defaults(type, f) \ ((type *)(((__pyx_CyFunctionObject *) (f))->defaults)) #define __Pyx_CyFunction_SetDefaultsGetter(f, g) \ ((__pyx_CyFunctionObject *) (f))->defaults_getter = (g) typedef struct { PyCFunctionObject func; #if PY_VERSION_HEX < 0x030500A0 PyObject *func_weakreflist; #endif PyObject *func_dict; PyObject *func_name; PyObject *func_qualname; PyObject *func_doc; PyObject *func_globals; PyObject *func_code; PyObject *func_closure; PyObject *func_classobj; void *defaults; int defaults_pyobjects; int flags; PyObject *defaults_tuple; PyObject *defaults_kwdict; PyObject *(*defaults_getter)(PyObject *); PyObject *func_annotations; } __pyx_CyFunctionObject; static PyTypeObject *__pyx_CyFunctionType = 0; #define __Pyx_CyFunction_NewEx(ml, flags, qualname, self, module, globals, code) \ __Pyx_CyFunction_New(__pyx_CyFunctionType, ml, flags, qualname, self, module, globals, code) static PyObject *__Pyx_CyFunction_New(PyTypeObject *, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject* code); static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *m, size_t size, int pyobjects); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *m, PyObject *tuple); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *m, PyObject *dict); static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *m, PyObject *dict); static int __Pyx_CyFunction_init(void); static PyObject *__Pyx_Py3MetaclassPrepare(PyObject *metaclass, PyObject *bases, PyObject *name, PyObject *qualname, PyObject *mkw, PyObject *modname, PyObject *doc); static PyObject *__Pyx_Py3ClassCreate(PyObject *metaclass, PyObject *name, PyObject *bases, PyObject *dict, PyObject *mkw, int calculate_metaclass, int allow_py2_metaclass); typedef struct { __pyx_CyFunctionObject func; PyObject *__signatures__; PyObject *type; PyObject *self; } __pyx_FusedFunctionObject; #define __pyx_FusedFunction_NewEx(ml, flags, qualname, self, module, globals, code) \ __pyx_FusedFunction_New(__pyx_FusedFunctionType, ml, flags, qualname, self, module, globals, code) static PyObject *__pyx_FusedFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject *qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject *code); static int __pyx_FusedFunction_clear(__pyx_FusedFunctionObject *self); static PyTypeObject *__pyx_FusedFunctionType = NULL; static int __pyx_FusedFunction_init(void); #define __Pyx_FusedFunction_USED typedef struct { int code_line; PyCodeObject* code_object; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_float(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_long_double(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_char(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_short(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_int(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_long(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_PY_LONG_LONG(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_char(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_short(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_int(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_long(PyObject *); static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_PY_LONG_LONG(PyObject *); static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); static CYTHON_INLINE int __Pyx_BytesContains(PyObject* bytes, char character); static PyObject *__pyx_memview_get_float(const char *itemp); static int __pyx_memview_set_float(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value); static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *); static PyObject *__pyx_memview_get_double(const char *itemp); static int __pyx_memview_set_double(const char *itemp, PyObject *obj); static PyObject *__pyx_memview_get_long_double(const char *itemp); static int __pyx_memview_set_long_double(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__char(signed char value); static CYTHON_INLINE signed char __Pyx_PyInt_As_signed__char(PyObject *); static PyObject *__pyx_memview_get_signed_char(const char *itemp); static int __pyx_memview_set_signed_char(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__short(signed short value); static CYTHON_INLINE signed short __Pyx_PyInt_As_signed__short(PyObject *); static PyObject *__pyx_memview_get_signed_short(const char *itemp); static int __pyx_memview_set_signed_short(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__int(signed int value); static CYTHON_INLINE signed int __Pyx_PyInt_As_signed__int(PyObject *); static PyObject *__pyx_memview_get_signed_int(const char *itemp); static int __pyx_memview_set_signed_int(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__long(signed long value); static CYTHON_INLINE signed long __Pyx_PyInt_As_signed__long(PyObject *); static PyObject *__pyx_memview_get_signed_long(const char *itemp); static int __pyx_memview_set_signed_long(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__PY_LONG_LONG(signed PY_LONG_LONG value); static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_As_signed__PY_LONG_LONG(PyObject *); static PyObject *__pyx_memview_get_signed_PY_LONG_LONG(const char *itemp); static int __pyx_memview_set_signed_PY_LONG_LONG(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_char(unsigned char value); static CYTHON_INLINE unsigned char __Pyx_PyInt_As_unsigned_char(PyObject *); static PyObject *__pyx_memview_get_unsigned_char(const char *itemp); static int __pyx_memview_set_unsigned_char(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_short(unsigned short value); static CYTHON_INLINE unsigned short __Pyx_PyInt_As_unsigned_short(PyObject *); static PyObject *__pyx_memview_get_unsigned_short(const char *itemp); static int __pyx_memview_set_unsigned_short(const char *itemp, PyObject *obj); static PyObject *__pyx_memview_get_unsigned_int(const char *itemp); static int __pyx_memview_set_unsigned_int(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value); static CYTHON_INLINE unsigned long __Pyx_PyInt_As_unsigned_long(PyObject *); static PyObject *__pyx_memview_get_unsigned_long(const char *itemp); static int __pyx_memview_set_unsigned_long(const char *itemp, PyObject *obj); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_PY_LONG_LONG(unsigned PY_LONG_LONG value); static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_As_unsigned_PY_LONG_LONG(PyObject *); static PyObject *__pyx_memview_get_unsigned_PY_LONG_LONG(const char *itemp); static int __pyx_memview_set_unsigned_PY_LONG_LONG(const char *itemp, PyObject *obj); static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice *mvs, char order, int ndim); static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'libc.float' */ /* Module declarations from 'silx.math.combo' */ static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static double __pyx_v_4silx_4math_5combo_INFINITY; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_long_double = { "long double", NULL, sizeof(long double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_signed_char = { "signed char", NULL, sizeof(signed char), { 0 }, 0, IS_UNSIGNED(signed char) ? 'U' : 'I', IS_UNSIGNED(signed char), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_signed_short = { "signed short", NULL, sizeof(signed short), { 0 }, 0, IS_UNSIGNED(signed short) ? 'U' : 'I', IS_UNSIGNED(signed short), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_signed_int = { "signed int", NULL, sizeof(signed int), { 0 }, 0, IS_UNSIGNED(signed int) ? 'U' : 'I', IS_UNSIGNED(signed int), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_signed_long = { "signed long", NULL, sizeof(signed long), { 0 }, 0, IS_UNSIGNED(signed long) ? 'U' : 'I', IS_UNSIGNED(signed long), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_signed_PY_LONG_LONG = { "signed long long", NULL, sizeof(signed PY_LONG_LONG), { 0 }, 0, IS_UNSIGNED(signed PY_LONG_LONG) ? 'U' : 'I', IS_UNSIGNED(signed PY_LONG_LONG), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_unsigned_char = { "unsigned char", NULL, sizeof(unsigned char), { 0 }, 0, IS_UNSIGNED(unsigned char) ? 'U' : 'I', IS_UNSIGNED(unsigned char), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_unsigned_short = { "unsigned short", NULL, sizeof(unsigned short), { 0 }, 0, IS_UNSIGNED(unsigned short) ? 'U' : 'I', IS_UNSIGNED(unsigned short), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_unsigned_int = { "unsigned int", NULL, sizeof(unsigned int), { 0 }, 0, IS_UNSIGNED(unsigned int) ? 'U' : 'I', IS_UNSIGNED(unsigned int), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_unsigned_long = { "unsigned long", NULL, sizeof(unsigned long), { 0 }, 0, IS_UNSIGNED(unsigned long) ? 'U' : 'I', IS_UNSIGNED(unsigned long), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_unsigned_PY_LONG_LONG = { "unsigned long long", NULL, sizeof(unsigned PY_LONG_LONG), { 0 }, 0, IS_UNSIGNED(unsigned PY_LONG_LONG) ? 'U' : 'I', IS_UNSIGNED(unsigned PY_LONG_LONG), 0 }; #define __Pyx_MODULE_NAME "silx.math.combo" int __pyx_module_is_main_silx__math__combo = 0; /* Implementation of 'silx.math.combo' */ static PyObject *__pyx_builtin_object; static PyObject *__pyx_builtin_property; static PyObject *__pyx_builtin_IndexError; static PyObject *__pyx_builtin_ImportError; static PyObject *__pyx_builtin_AttributeError; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_ord; static PyObject *__pyx_builtin_zip; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_xrange; static PyObject *__pyx_builtin_id; static PyObject *__pyx_lambda_funcdef_4silx_4math_5combo_13_MinMaxResult_lambda1(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_lambda_funcdef_4silx_4math_5combo_13_MinMaxResult_lambda2(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_lambda_funcdef_4silx_4math_5combo_13_MinMaxResult_lambda3(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_lambda_funcdef_4silx_4math_5combo_13_MinMaxResult_lambda4(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_lambda_funcdef_4silx_4math_5combo_13_MinMaxResult_lambda5(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_lambda_funcdef_4silx_4math_5combo_13_MinMaxResult_lambda6(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_13_MinMaxResult___init__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_minimum, PyObject *__pyx_v_min_pos, PyObject *__pyx_v_maximum, PyObject *__pyx_v_argmin, PyObject *__pyx_v_argmin_pos, PyObject *__pyx_v_argmax); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_13_MinMaxResult_2__getitem__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo__min_max(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_signatures, PyObject *__pyx_v_args, PyObject *__pyx_v_kwargs, CYTHON_UNUSED PyObject *__pyx_v_defaults); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_68__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_6_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_70__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_8_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_72__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_10_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_74__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_12_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_76__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_14_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_78__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_16_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_80__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_18_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_82__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_20_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_84__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_22_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_86__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_24_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_88__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_26_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_90__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_28_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_92__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_30_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_2_finite_min_max(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_signatures, PyObject *__pyx_v_args, PyObject *__pyx_v_kwargs, CYTHON_UNUSED PyObject *__pyx_v_defaults); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_100__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_34_finite_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_102__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_36_finite_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_104__defaults__(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_38_finite_min_max(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, int __pyx_v_min_positive); /* proto */ static PyObject *__pyx_pf_4silx_4math_5combo_4min_max(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_data, int __pyx_v_min_positive, int __pyx_v_finite); /* proto */ static int __pyx_array_MemoryView_5array___cinit__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_shape, Py_ssize_t __pyx_v_itemsize, PyObject *__pyx_v_format, PyObject *__pyx_v_mode, int __pyx_v_allocate_buffer); /* proto */ static int __pyx_array_getbuffer_MemoryView_5array_2__getbuffer__(struct __pyx_array_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_array_MemoryView_5array_4__dealloc__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *get_memview_MemoryView_5array_7memview___get__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_array_MemoryView_5array_6__getattr__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_attr); /* proto */ static PyObject *__pyx_array_MemoryView_5array_8__getitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item); /* proto */ static int __pyx_array_MemoryView_5array_10__setitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item, PyObject *__pyx_v_value); /* proto */ static int __pyx_MemviewEnum_MemoryView_4Enum___init__(struct __pyx_MemviewEnum_obj *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_MemviewEnum_MemoryView_4Enum_2__repr__(struct __pyx_MemviewEnum_obj *__pyx_v_self); /* proto */ static int __pyx_memoryview_MemoryView_10memoryview___cinit__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj, int __pyx_v_flags, int __pyx_v_dtype_is_object); /* proto */ static void __pyx_memoryview_MemoryView_10memoryview_2__dealloc__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_4__getitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto */ static int __pyx_memoryview_MemoryView_10memoryview_6__setitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto */ static int __pyx_memoryview_getbuffer_MemoryView_10memoryview_8__getbuffer__(struct __pyx_memoryview_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static PyObject *__pyx_memoryview_transpose_MemoryView_10memoryview_1T___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview__get__base_MemoryView_10memoryview_4base___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_shape_MemoryView_10memoryview_5shape___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_strides_MemoryView_10memoryview_7strides___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_suboffsets_MemoryView_10memoryview_10suboffsets___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_ndim_MemoryView_10memoryview_4ndim___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_itemsize_MemoryView_10memoryview_8itemsize___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_nbytes_MemoryView_10memoryview_6nbytes___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_get_size_MemoryView_10memoryview_4size___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static Py_ssize_t __pyx_memoryview_MemoryView_10memoryview_10__len__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_12__repr__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_14__str__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_16is_c_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_18is_f_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_20copy(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview_MemoryView_10memoryview_22copy_fortran(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static void __pyx_memoryviewslice_MemoryView_16_memoryviewslice___dealloc__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryviewslice__get__base_MemoryView_16_memoryviewslice_4base___get__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static char __pyx_k_N[] = "N"; static char __pyx_k_O[] = "O"; static char __pyx_k_c[] = "c"; static char __pyx_k_f[] = "f"; static char __pyx_k__3[] = "()"; static char __pyx_k__5[] = "|"; static char __pyx_k_id[] = "id"; static char __pyx_k_MIT[] = "MIT"; static char __pyx_k_doc[] = "doc"; static char __pyx_k_key[] = "key"; static char __pyx_k_obj[] = "obj"; static char __pyx_k_ord[] = "ord"; static char __pyx_k_zip[] = "zip"; static char __pyx_k_args[] = "args"; static char __pyx_k_base[] = "base"; static char __pyx_k_copy[] = "copy"; static char __pyx_k_data[] = "data"; static char __pyx_k_date[] = "__date__"; static char __pyx_k_init[] = "__init__"; static char __pyx_k_kind[] = "kind"; static char __pyx_k_main[] = "__main__"; static char __pyx_k_mode[] = "mode"; static char __pyx_k_name[] = "name"; static char __pyx_k_ndim[] = "ndim"; static char __pyx_k_pack[] = "pack"; static char __pyx_k_self[] = "self"; static char __pyx_k_size[] = "size"; static char __pyx_k_step[] = "step"; static char __pyx_k_stop[] = "stop"; static char __pyx_k_test[] = "__test__"; static char __pyx_k_array[] = "array"; static char __pyx_k_class[] = "__class__"; static char __pyx_k_doc_2[] = "__doc__"; static char __pyx_k_dtype[] = "dtype"; static char __pyx_k_error[] = "error"; static char __pyx_k_flags[] = "flags"; static char __pyx_k_float[] = "float"; static char __pyx_k_index[] = "index"; static char __pyx_k_numpy[] = "numpy"; static char __pyx_k_range[] = "range"; static char __pyx_k_ravel[] = "ravel"; static char __pyx_k_shape[] = "shape"; static char __pyx_k_split[] = "split"; static char __pyx_k_start[] = "start"; static char __pyx_k_strip[] = "strip"; static char __pyx_k_value[] = "value"; static char __pyx_k_argmax[] = "_argmax"; static char __pyx_k_argmin[] = "_argmin"; static char __pyx_k_double[] = "double"; static char __pyx_k_finite[] = "finite"; static char __pyx_k_format[] = "format"; static char __pyx_k_import[] = "__import__"; static char __pyx_k_kwargs[] = "kwargs"; static char __pyx_k_length[] = "length"; static char __pyx_k_module[] = "__module__"; static char __pyx_k_name_2[] = "__name__"; static char __pyx_k_object[] = "object"; static char __pyx_k_struct[] = "struct"; static char __pyx_k_unpack[] = "unpack"; static char __pyx_k_xrange[] = "xrange"; static char __pyx_k_authors[] = "__authors__"; static char __pyx_k_fortran[] = "fortran"; static char __pyx_k_getitem[] = "__getitem__"; static char __pyx_k_license[] = "__license__"; static char __pyx_k_maximum[] = "_maximum"; static char __pyx_k_memview[] = "memview"; static char __pyx_k_min_max[] = "_min_max"; static char __pyx_k_min_pos[] = "min_pos"; static char __pyx_k_minimum[] = "_minimum"; static char __pyx_k_ndarray[] = "ndarray"; static char __pyx_k_prepare[] = "__prepare__"; static char __pyx_k_Ellipsis[] = "Ellipsis"; static char __pyx_k_argmax_2[] = "argmax"; static char __pyx_k_argmin_2[] = "argmin"; static char __pyx_k_defaults[] = "defaults"; static char __pyx_k_itemsize[] = "itemsize"; static char __pyx_k_property[] = "property"; static char __pyx_k_qualname[] = "__qualname__"; static char __pyx_k_T_Vincent[] = "T. Vincent"; static char __pyx_k_TypeError[] = "TypeError"; static char __pyx_k_enumerate[] = "enumerate"; static char __pyx_k_max_index[] = "max_index"; static char __pyx_k_maximum_2[] = "maximum"; static char __pyx_k_metaclass[] = "__metaclass__"; static char __pyx_k_min_index[] = "min_index"; static char __pyx_k_min_max_2[] = "min_max"; static char __pyx_k_minimum_2[] = "minimum"; static char __pyx_k_18_10_2017[] = "18/10/2017"; static char __pyx_k_IndexError[] = "IndexError"; static char __pyx_k_ValueError[] = "ValueError"; static char __pyx_k_argmin_pos[] = "argmin_pos"; static char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static char __pyx_k_signatures[] = "signatures"; static char __pyx_k_signed_int[] = "signed int"; static char __pyx_k_ImportError[] = "ImportError"; static char __pyx_k_MemoryError[] = "MemoryError"; static char __pyx_k_long_double[] = "long double"; static char __pyx_k_signed_char[] = "signed char"; static char __pyx_k_signed_long[] = "signed long"; static char __pyx_k_MinMaxResult[] = "_MinMaxResult"; static char __pyx_k_min_positive[] = "_min_positive"; static char __pyx_k_newbyteorder[] = "newbyteorder"; static char __pyx_k_signed_short[] = "signed short"; static char __pyx_k_unsigned_int[] = "unsigned int"; static char __pyx_k_min_pos_index[] = "min_pos_index"; static char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static char __pyx_k_unsigned_char[] = "unsigned char"; static char __pyx_k_unsigned_long[] = "unsigned long"; static char __pyx_k_AttributeError[] = "AttributeError"; static char __pyx_k_finite_min_max[] = "_finite_min_max"; static char __pyx_k_min_positive_2[] = "min_positive"; static char __pyx_k_unsigned_short[] = "unsigned short"; static char __pyx_k_Zero_size_array[] = "Zero-size array"; static char __pyx_k_allocate_buffer[] = "allocate_buffer"; static char __pyx_k_argmin_positive[] = "_argmin_positive"; static char __pyx_k_dtype_is_object[] = "dtype_is_object"; static char __pyx_k_silx_math_combo[] = "silx.math.combo"; static char __pyx_k_min_max_line_276[] = "min_max (line 276)"; static char __pyx_k_signed_long_long[] = "signed long long"; static char __pyx_k_argmin_positive_2[] = "argmin_positive"; static char __pyx_k_ascontiguousarray[] = "ascontiguousarray"; static char __pyx_k_Index_out_of_range[] = "Index out of range"; static char __pyx_k_strided_and_direct[] = ""; static char __pyx_k_unsigned_long_long[] = "unsigned long long"; static char __pyx_k_MinMaxResult___init[] = "_MinMaxResult.__init__"; static char __pyx_k_MinMaxResult_lambda[] = "_MinMaxResult."; static char __pyx_k_native_endian_dtype[] = "native_endian_dtype"; static char __pyx_k_strided_and_indirect[] = ""; static char __pyx_k_contiguous_and_direct[] = ""; static char __pyx_k_MemoryView_of_r_object[] = ""; static char __pyx_k_MinMaxResult___getitem[] = "_MinMaxResult.__getitem__"; static char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static char __pyx_k_contiguous_and_indirect[] = ""; static char __pyx_k_Cannot_index_with_type_s[] 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__pyx_r = ((struct __pyx_memoryview_obj *)__pyx_t_3); __pyx_t_3 = 0; goto __pyx_L0; } /* "View.MemoryView":667 * * @cname('__pyx_memview_slice') * cdef memoryview memview_slice(memoryview memview, object indices): # <<<<<<<<<<<<<< * cdef int new_ndim = 0, suboffset_dim = -1, dim * cdef bint negative_step */ /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_3); __Pyx_XDECREF(__pyx_t_9); __Pyx_AddTraceback("View.MemoryView.memview_slice", __pyx_clineno, __pyx_lineno, __pyx_filename); __pyx_r = 0; __pyx_L0:; __Pyx_XDECREF((PyObject *)__pyx_v_memviewsliceobj); __Pyx_XDECREF(__pyx_v_index); __Pyx_XGIVEREF((PyObject *)__pyx_r); __Pyx_RefNannyFinishContext(); return __pyx_r; } /* "View.MemoryView":764 * * @cname('__pyx_memoryview_slice_memviewslice') * cdef int slice_memviewslice( # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * Py_ssize_t shape, Py_ssize_t stride, Py_ssize_t suboffset, */ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *__pyx_v_dst, Py_ssize_t __pyx_v_shape, Py_ssize_t __pyx_v_stride, Py_ssize_t __pyx_v_suboffset, int __pyx_v_dim, int __pyx_v_new_ndim, int *__pyx_v_suboffset_dim, Py_ssize_t __pyx_v_start, Py_ssize_t __pyx_v_stop, Py_ssize_t __pyx_v_step, int __pyx_v_have_start, int __pyx_v_have_stop, int __pyx_v_have_step, int __pyx_v_is_slice) { Py_ssize_t __pyx_v_new_shape; int __pyx_v_negative_step; int __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; int __pyx_lineno = 0; const char *__pyx_filename = NULL; int __pyx_clineno = 0; /* "View.MemoryView":784 * cdef bint negative_step * * if not is_slice: # <<<<<<<<<<<<<< * * if start < 0: */ __pyx_t_1 = ((!(__pyx_v_is_slice != 0)) != 0); if (__pyx_t_1) { /* "View.MemoryView":786 * if not is_slice: * * if start < 0: # <<<<<<<<<<<<<< * start += shape * if not 0 <= start < shape: */ __pyx_t_1 = ((__pyx_v_start < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":787 * * if start < 0: * start += shape # <<<<<<<<<<<<<< * if not 0 <= start < shape: * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) */ __pyx_v_start = (__pyx_v_start + __pyx_v_shape); goto __pyx_L4; } __pyx_L4:; /* "View.MemoryView":788 * if start < 0: * start += shape * if not 0 <= start < shape: # <<<<<<<<<<<<<< * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) * else: */ __pyx_t_1 = (0 <= __pyx_v_start); if (__pyx_t_1) { __pyx_t_1 = (__pyx_v_start < __pyx_v_shape); } __pyx_t_2 = ((!(__pyx_t_1 != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":789 * start += shape * if not 0 <= start < shape: * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) # <<<<<<<<<<<<<< * else: * */ __pyx_t_3 = __pyx_memoryview_err_dim(__pyx_builtin_IndexError, __pyx_k_Index_out_of_bounds_axis_d, __pyx_v_dim); if (unlikely(__pyx_t_3 == -1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 789; __pyx_clineno = __LINE__; goto __pyx_L1_error;} goto __pyx_L5; } __pyx_L5:; goto __pyx_L3; } /*else*/ { /* "View.MemoryView":792 * else: * * negative_step = have_step != 0 and step < 0 # <<<<<<<<<<<<<< * * if have_step and step == 0: */ __pyx_t_1 = ((__pyx_v_have_step != 0) != 0); if (__pyx_t_1) { } else { __pyx_t_2 = __pyx_t_1; goto __pyx_L6_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step < 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L6_bool_binop_done:; __pyx_v_negative_step = __pyx_t_2; /* "View.MemoryView":794 * negative_step = have_step != 0 and step < 0 * * if have_step and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ __pyx_t_1 = (__pyx_v_have_step != 0); if (__pyx_t_1) { } else { __pyx_t_2 = __pyx_t_1; goto __pyx_L9_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step == 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L9_bool_binop_done:; if (__pyx_t_2) { /* "View.MemoryView":795 * * if have_step and step == 0: * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) # <<<<<<<<<<<<<< * * */ __pyx_t_3 = __pyx_memoryview_err_dim(__pyx_builtin_ValueError, __pyx_k_Step_may_not_be_zero_axis_d, __pyx_v_dim); if (unlikely(__pyx_t_3 == -1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} goto __pyx_L8; } __pyx_L8:; /* "View.MemoryView":798 * * * if have_start: # <<<<<<<<<<<<<< * if start < 0: * start += shape */ __pyx_t_2 = (__pyx_v_have_start != 0); if (__pyx_t_2) { /* "View.MemoryView":799 * * if have_start: * if start < 0: # <<<<<<<<<<<<<< * start += shape * if start < 0: */ __pyx_t_2 = ((__pyx_v_start < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":800 * if have_start: * if start < 0: * start += shape # <<<<<<<<<<<<<< * if start < 0: * start = 0 */ __pyx_v_start = (__pyx_v_start + __pyx_v_shape); /* "View.MemoryView":801 * if start < 0: * start += shape * if start < 0: # <<<<<<<<<<<<<< * start = 0 * elif start >= shape: */ __pyx_t_2 = ((__pyx_v_start < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":802 * start += shape * if start < 0: * start = 0 # <<<<<<<<<<<<<< * elif start >= shape: * if negative_step: */ __pyx_v_start = 0; goto __pyx_L13; } __pyx_L13:; goto __pyx_L12; } /* "View.MemoryView":803 * if start < 0: * start = 0 * elif start >= shape: # <<<<<<<<<<<<<< * if negative_step: * start = shape - 1 */ __pyx_t_2 = ((__pyx_v_start >= __pyx_v_shape) != 0); if (__pyx_t_2) { /* "View.MemoryView":804 * start = 0 * elif start >= shape: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":805 * elif start >= shape: * if negative_step: * start = shape - 1 # <<<<<<<<<<<<<< * else: * start = shape */ __pyx_v_start = (__pyx_v_shape - 1); goto __pyx_L14; } /*else*/ { /* "View.MemoryView":807 * start = shape - 1 * else: * start = shape # <<<<<<<<<<<<<< * else: * if negative_step: */ __pyx_v_start = __pyx_v_shape; } __pyx_L14:; goto __pyx_L12; } __pyx_L12:; goto __pyx_L11; } /*else*/ { /* "View.MemoryView":809 * start = shape * else: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":810 * else: * if negative_step: * start = shape - 1 # <<<<<<<<<<<<<< * else: * start = 0 */ __pyx_v_start = (__pyx_v_shape - 1); goto __pyx_L15; } /*else*/ { /* "View.MemoryView":812 * start = shape - 1 * else: * start = 0 # <<<<<<<<<<<<<< * * if have_stop: */ __pyx_v_start = 0; } __pyx_L15:; } __pyx_L11:; /* "View.MemoryView":814 * start = 0 * * if have_stop: # <<<<<<<<<<<<<< * if stop < 0: * stop += shape */ __pyx_t_2 = (__pyx_v_have_stop != 0); if (__pyx_t_2) { /* "View.MemoryView":815 * * if have_stop: * if stop < 0: # <<<<<<<<<<<<<< * stop += shape * if stop < 0: */ __pyx_t_2 = ((__pyx_v_stop < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":816 * if have_stop: * if stop < 0: * stop += shape # <<<<<<<<<<<<<< * if stop < 0: * stop = 0 */ __pyx_v_stop = (__pyx_v_stop + __pyx_v_shape); /* "View.MemoryView":817 * if stop < 0: * stop += shape * if stop < 0: # <<<<<<<<<<<<<< * stop = 0 * elif stop > shape: */ __pyx_t_2 = ((__pyx_v_stop < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":818 * stop += shape * if stop < 0: * stop = 0 # <<<<<<<<<<<<<< * elif stop > shape: * stop = shape */ __pyx_v_stop = 0; goto __pyx_L18; } __pyx_L18:; goto __pyx_L17; } /* "View.MemoryView":819 * if stop < 0: * stop = 0 * elif stop > shape: # <<<<<<<<<<<<<< * stop = shape * else: */ __pyx_t_2 = ((__pyx_v_stop > __pyx_v_shape) != 0); if (__pyx_t_2) { /* "View.MemoryView":820 * stop = 0 * elif stop > shape: * stop = shape # <<<<<<<<<<<<<< * else: * if negative_step: */ __pyx_v_stop = __pyx_v_shape; goto __pyx_L17; } __pyx_L17:; goto __pyx_L16; } /*else*/ { /* "View.MemoryView":822 * stop = shape * else: * if negative_step: # <<<<<<<<<<<<<< * stop = -1 * else: */ __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":823 * else: * if negative_step: * stop = -1 # <<<<<<<<<<<<<< * else: * stop = shape */ __pyx_v_stop = -1; goto __pyx_L19; } /*else*/ { /* "View.MemoryView":825 * stop = -1 * else: * stop = shape # <<<<<<<<<<<<<< * * if not have_step: */ __pyx_v_stop = __pyx_v_shape; } __pyx_L19:; } __pyx_L16:; /* "View.MemoryView":827 * stop = shape * * if not have_step: # <<<<<<<<<<<<<< * step = 1 * */ __pyx_t_2 = ((!(__pyx_v_have_step != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":828 * * if not have_step: * step = 1 # <<<<<<<<<<<<<< * * */ __pyx_v_step = 1; goto __pyx_L20; } __pyx_L20:; /* "View.MemoryView":832 * * with cython.cdivision(True): * new_shape = (stop - start) // step # <<<<<<<<<<<<<< * * if (stop - start) - step * new_shape: */ __pyx_v_new_shape = ((__pyx_v_stop - __pyx_v_start) / __pyx_v_step); /* "View.MemoryView":834 * new_shape = (stop - start) // step * * if (stop - start) - step * new_shape: # <<<<<<<<<<<<<< * new_shape += 1 * */ __pyx_t_2 = (((__pyx_v_stop - __pyx_v_start) - (__pyx_v_step * __pyx_v_new_shape)) != 0); if (__pyx_t_2) { /* "View.MemoryView":835 * * if (stop - start) - step * new_shape: * new_shape += 1 # <<<<<<<<<<<<<< * * if new_shape < 0: */ __pyx_v_new_shape = (__pyx_v_new_shape + 1); goto __pyx_L21; } __pyx_L21:; /* "View.MemoryView":837 * new_shape += 1 * * if new_shape < 0: # <<<<<<<<<<<<<< * new_shape = 0 * */ __pyx_t_2 = ((__pyx_v_new_shape < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":838 * * if new_shape < 0: * new_shape = 0 # <<<<<<<<<<<<<< * * */ __pyx_v_new_shape = 0; goto __pyx_L22; } __pyx_L22:; /* "View.MemoryView":841 * * * dst.strides[new_ndim] = stride * step # <<<<<<<<<<<<<< * dst.shape[new_ndim] = new_shape * dst.suboffsets[new_ndim] = suboffset */ (__pyx_v_dst->strides[__pyx_v_new_ndim]) = (__pyx_v_stride * __pyx_v_step); /* "View.MemoryView":842 * * dst.strides[new_ndim] = stride * step * dst.shape[new_ndim] = new_shape # <<<<<<<<<<<<<< * dst.suboffsets[new_ndim] = suboffset * */ (__pyx_v_dst->shape[__pyx_v_new_ndim]) = __pyx_v_new_shape; /* "View.MemoryView":843 * dst.strides[new_ndim] = stride * step * dst.shape[new_ndim] = new_shape * dst.suboffsets[new_ndim] = suboffset # <<<<<<<<<<<<<< * * */ (__pyx_v_dst->suboffsets[__pyx_v_new_ndim]) = __pyx_v_suboffset; } __pyx_L3:; /* "View.MemoryView":846 * * * if suboffset_dim[0] < 0: # <<<<<<<<<<<<<< * dst.data += start * stride * else: */ __pyx_t_2 = (((__pyx_v_suboffset_dim[0]) < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":847 * * if suboffset_dim[0] < 0: * dst.data += start * stride # <<<<<<<<<<<<<< * else: * dst.suboffsets[suboffset_dim[0]] += start * stride */ __pyx_v_dst->data = (__pyx_v_dst->data + (__pyx_v_start * __pyx_v_stride)); goto __pyx_L23; } /*else*/ { /* "View.MemoryView":849 * dst.data += start * stride * else: * dst.suboffsets[suboffset_dim[0]] += start * stride # <<<<<<<<<<<<<< * * if suboffset >= 0: */ __pyx_t_3 = (__pyx_v_suboffset_dim[0]); (__pyx_v_dst->suboffsets[__pyx_t_3]) = ((__pyx_v_dst->suboffsets[__pyx_t_3]) + (__pyx_v_start * __pyx_v_stride)); } __pyx_L23:; /* "View.MemoryView":851 * dst.suboffsets[suboffset_dim[0]] += start * stride * * if suboffset >= 0: # <<<<<<<<<<<<<< * if not is_slice: * if 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/*else*/ { /* "View.MemoryView":877 * stride = itemsize * else: * shape = view.shape[dim] # <<<<<<<<<<<<<< * stride = view.strides[dim] * if view.suboffsets != NULL: */ __pyx_v_shape = (__pyx_v_view->shape[__pyx_v_dim]); /* "View.MemoryView":878 * else: * shape = view.shape[dim] * stride = view.strides[dim] # <<<<<<<<<<<<<< * if view.suboffsets != NULL: * suboffset = view.suboffsets[dim] */ __pyx_v_stride = (__pyx_v_view->strides[__pyx_v_dim]); /* "View.MemoryView":879 * shape = view.shape[dim] * stride = view.strides[dim] * if view.suboffsets != NULL: # <<<<<<<<<<<<<< * suboffset = view.suboffsets[dim] * */ __pyx_t_2 = ((__pyx_v_view->suboffsets != NULL) != 0); if (__pyx_t_2) { /* "View.MemoryView":880 * stride = view.strides[dim] * if view.suboffsets != NULL: * suboffset = view.suboffsets[dim] # <<<<<<<<<<<<<< * * if index < 0: */ __pyx_v_suboffset = (__pyx_v_view->suboffsets[__pyx_v_dim]); goto __pyx_L4; } __pyx_L4:; } __pyx_L3:; /* "View.MemoryView":882 * suboffset = 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memview).to_dtype_func */ __pyx_t_1 = __Pyx_TypeCheck(((PyObject *)__pyx_v_memview), ((PyObject *)__pyx_memoryviewslice_type)); __pyx_t_2 = (__pyx_t_1 != 0); if (__pyx_t_2) { /* "View.MemoryView":1048 * * if isinstance(memview, _memoryviewslice): * to_object_func = (<_memoryviewslice> memview).to_object_func # <<<<<<<<<<<<<< * to_dtype_func = (<_memoryviewslice> memview).to_dtype_func * else: */ __pyx_t_3 = ((struct __pyx_memoryviewslice_obj *)__pyx_v_memview)->to_object_func; __pyx_v_to_object_func = __pyx_t_3; /* "View.MemoryView":1049 * if isinstance(memview, _memoryviewslice): * to_object_func = (<_memoryviewslice> memview).to_object_func * to_dtype_func = (<_memoryviewslice> memview).to_dtype_func # <<<<<<<<<<<<<< * else: * to_object_func = NULL */ __pyx_t_4 = ((struct __pyx_memoryviewslice_obj *)__pyx_v_memview)->to_dtype_func; __pyx_v_to_dtype_func = __pyx_t_4; goto __pyx_L3; } /*else*/ { /* "View.MemoryView":1051 * to_dtype_func = (<_memoryviewslice> memview).to_dtype_func * else: * to_object_func = NULL # <<<<<<<<<<<<<< * to_dtype_func = NULL * */ __pyx_v_to_object_func = NULL; /* "View.MemoryView":1052 * else: * to_object_func = NULL * to_dtype_func = NULL # <<<<<<<<<<<<<< * * return memoryview_fromslice(memviewslice[0], memview.view.ndim, */ __pyx_v_to_dtype_func = NULL; } __pyx_L3:; /* "View.MemoryView":1054 * to_dtype_func = NULL * * return memoryview_fromslice(memviewslice[0], memview.view.ndim, # <<<<<<<<<<<<<< * to_object_func, to_dtype_func, * memview.dtype_is_object) */ __Pyx_XDECREF(__pyx_r); /* "View.MemoryView":1056 * return memoryview_fromslice(memviewslice[0], memview.view.ndim, * to_object_func, to_dtype_func, * memview.dtype_is_object) # <<<<<<<<<<<<<< * * */ __pyx_t_5 = __pyx_memoryview_fromslice((__pyx_v_memviewslice[0]), __pyx_v_memview->view.ndim, __pyx_v_to_object_func, __pyx_v_to_dtype_func, __pyx_v_memview->dtype_is_object); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1054; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_5); __pyx_r = __pyx_t_5; __pyx_t_5 = 0; goto __pyx_L0; /* "View.MemoryView":1040 * * @cname('__pyx_memoryview_copy_object_from_slice') * cdef memoryview_copy_from_slice(memoryview memview, __Pyx_memviewslice *memviewslice): # <<<<<<<<<<<<<< * """ * Create a new memoryview object from a given memoryview object and slice. */ /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_5); __Pyx_AddTraceback("View.MemoryView.memoryview_copy_from_slice", __pyx_clineno, __pyx_lineno, __pyx_filename); __pyx_r = 0; __pyx_L0:; __Pyx_XGIVEREF(__pyx_r); __Pyx_RefNannyFinishContext(); return __pyx_r; } /* "View.MemoryView":1062 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ static Py_ssize_t abs_py_ssize_t(Py_ssize_t __pyx_v_arg) { Py_ssize_t __pyx_r; int __pyx_t_1; /* "View.MemoryView":1063 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1064 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; } /*else*/ { /* "View.MemoryView":1066 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1062 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1069 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1074 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1075 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1077 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1078 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1079 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1080 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; } } __pyx_L4_break:; /* "View.MemoryView":1082 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1083 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1084 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1085 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; } } __pyx_L7_break:; /* "View.MemoryView":1087 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1088 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; } /*else*/ { /* "View.MemoryView":1090 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1069 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1093 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1100 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1101 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1102 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1103 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1105 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1106 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1107 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; if (__pyx_t_1) { /* "View.MemoryView":1108 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); goto __pyx_L4; } /*else*/ { /* "View.MemoryView":1110 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1111 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1112 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1113 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; goto __pyx_L3; } /*else*/ { /* "View.MemoryView":1115 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1116 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1120 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1121 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1093 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1123 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1126 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1123 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1130 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1133 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1135 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1136 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1138 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1130 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1141 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, Py_ssize_t __pyx_v_stride, int __pyx_v_ndim, char __pyx_v_order) { int __pyx_v_idx; Py_ssize_t __pyx_r; int __pyx_t_1; int __pyx_t_2; 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{__pyx_filename = __pyx_f[1]; __pyx_lineno = 1254; __pyx_clineno = __LINE__; goto __pyx_L1_error;} goto __pyx_L8; } __pyx_L8:; } /* "View.MemoryView":1256 * _err_dim(ValueError, "Dimension %d is not direct", i) * * if slices_overlap(&src, &dst, ndim, itemsize): # <<<<<<<<<<<<<< * * if not slice_is_contig(&src, order, ndim): */ __pyx_t_2 = (__pyx_slices_overlap((&__pyx_v_src), (&__pyx_v_dst), __pyx_v_ndim, __pyx_v_itemsize) != 0); if (__pyx_t_2) { /* "View.MemoryView":1258 * if slices_overlap(&src, &dst, ndim, itemsize): * * if not slice_is_contig(&src, order, ndim): # <<<<<<<<<<<<<< * order = get_best_order(&dst, ndim) * */ __pyx_t_2 = ((!(__pyx_memviewslice_is_contig((&__pyx_v_src), __pyx_v_order, __pyx_v_ndim) != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1259 * * if not slice_is_contig(&src, order, ndim): * order = get_best_order(&dst, ndim) # <<<<<<<<<<<<<< * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) */ __pyx_v_order = __pyx_get_best_slice_order((&__pyx_v_dst), __pyx_v_ndim); goto __pyx_L10; } __pyx_L10:; /* "View.MemoryView":1261 * order = get_best_order(&dst, ndim) * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) # <<<<<<<<<<<<<< * src = tmp * */ __pyx_t_6 = __pyx_memoryview_copy_data_to_temp((&__pyx_v_src), (&__pyx_v_tmp), __pyx_v_order, __pyx_v_ndim); if (unlikely(__pyx_t_6 == NULL)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1261; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_tmpdata = __pyx_t_6; /* "View.MemoryView":1262 * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) * src = tmp # <<<<<<<<<<<<<< * * if not broadcasting: */ __pyx_v_src = __pyx_v_tmp; goto __pyx_L9; } __pyx_L9:; /* "View.MemoryView":1264 * src = tmp * * if not broadcasting: # <<<<<<<<<<<<<< * * */ __pyx_t_2 = ((!(__pyx_v_broadcasting != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1267 * * * if slice_is_contig(&src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(&dst, 'C', ndim) * elif slice_is_contig(&src, 'F', ndim): */ __pyx_t_2 = (__pyx_memviewslice_is_contig((&__pyx_v_src), 'C', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1268 * * if slice_is_contig(&src, 'C', ndim): * direct_copy = slice_is_contig(&dst, 'C', ndim) # <<<<<<<<<<<<<< * elif slice_is_contig(&src, 'F', ndim): * direct_copy = slice_is_contig(&dst, 'F', ndim) */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig((&__pyx_v_dst), 'C', __pyx_v_ndim); goto __pyx_L12; } /* "View.MemoryView":1269 * if slice_is_contig(&src, 'C', ndim): * direct_copy = slice_is_contig(&dst, 'C', ndim) * elif slice_is_contig(&src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(&dst, 'F', ndim) * */ __pyx_t_2 = (__pyx_memviewslice_is_contig((&__pyx_v_src), 'F', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1270 * direct_copy = slice_is_contig(&dst, 'C', ndim) * elif slice_is_contig(&src, 'F', ndim): * direct_copy = slice_is_contig(&dst, 'F', ndim) # <<<<<<<<<<<<<< * * if direct_copy: */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig((&__pyx_v_dst), 'F', __pyx_v_ndim); goto __pyx_L12; } __pyx_L12:; /* "View.MemoryView":1272 * direct_copy = slice_is_contig(&dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ __pyx_t_2 = (__pyx_v_direct_copy != 0); if (__pyx_t_2) { /* "View.MemoryView":1274 * if direct_copy: * * refcount_copying(&dst, dtype_is_object, ndim, False) # <<<<<<<<<<<<<< * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1275 * * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) # <<<<<<<<<<<<<< * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) */ memcpy(__pyx_v_dst.data, __pyx_v_src.data, __pyx_memoryview_slice_get_size((&__pyx_v_src), __pyx_v_ndim)); /* "View.MemoryView":1276 * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * free(tmpdata) * return 0 */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1277 * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) # <<<<<<<<<<<<<< * return 0 * */ free(__pyx_v_tmpdata); /* "View.MemoryView":1278 * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) * return 0 # <<<<<<<<<<<<<< * * if order == 'F' == get_best_order(&dst, ndim): */ __pyx_r = 0; goto __pyx_L0; } goto __pyx_L11; } __pyx_L11:; /* "View.MemoryView":1280 * return 0 * * if order == 'F' == get_best_order(&dst, ndim): # <<<<<<<<<<<<<< * * */ __pyx_t_2 = (__pyx_v_order == 'F'); if (__pyx_t_2) { __pyx_t_2 = ('F' == 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PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.combo.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, 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/*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) { Py_DECREF(o); o = 0; } return o; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_memoryview_transpose(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_memoryview__get__base(o); } static 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result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON PyObject *tmp_type, *tmp_value, *tmp_tb; PyThreadState *tstate = PyThreadState_GET(); tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_Restore(type, value, tb); #endif } static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) { #if CYTHON_COMPILING_IN_CPYTHON PyThreadState *tstate = PyThreadState_GET(); *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(type, value, tb); #endif } #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { if (PyObject_IsSubclass(instance_class, type)) { type = instance_class; } else { instance_class = NULL; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(tmp_type, tmp_value, tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif static CYTHON_INLINE void __Pyx_ExceptionSave(PyObject **type, PyObject **value, PyObject **tb) { #if CYTHON_COMPILING_IN_CPYTHON PyThreadState *tstate = PyThreadState_GET(); *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); #else PyErr_GetExcInfo(type, value, tb); #endif } static void __Pyx_ExceptionReset(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON PyObject *tmp_type, *tmp_value, *tmp_tb; PyThreadState *tstate = PyThreadState_GET(); tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(type, value, tb); #endif } static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { PyObject *local_type, *local_value, *local_tb; #if CYTHON_COMPILING_IN_CPYTHON PyObject *tmp_type, *tmp_value, *tmp_tb; PyThreadState *tstate = PyThreadState_GET(); local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_COMPILING_IN_CPYTHON tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { int r; if (!j) return -1; r = PyObject_SetItem(o, j, v); Py_DECREF(j); return r; } static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, int wraparound, int boundscheck) { #if CYTHON_COMPILING_IN_CPYTHON if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { PyObject* old = PyList_GET_ITEM(o, n); Py_INCREF(v); PyList_SET_ITEM(o, n, v); Py_DECREF(old); return 1; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_ass_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (PyErr_ExceptionMatches(PyExc_OverflowError)) PyErr_Clear(); else return -1; } } return m->sq_ass_item(o, i, v); } } #else #if CYTHON_COMPILING_IN_PYPY if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { #else if (is_list || PySequence_Check(o)) { #endif return PySequence_SetItem(o, i, v); } #endif return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); } static CYTHON_INLINE int __Pyx_IterFinish(void) { #if CYTHON_COMPILING_IN_CPYTHON PyThreadState *tstate = PyThreadState_GET(); PyObject* exc_type = tstate->curexc_type; if (unlikely(exc_type)) { if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { PyObject *exc_value, *exc_tb; exc_value = tstate->curexc_value; exc_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; Py_DECREF(exc_type); Py_XDECREF(exc_value); Py_XDECREF(exc_tb); return 0; } else { return -1; } } return 0; #else if (unlikely(PyErr_Occurred())) { if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { PyErr_Clear(); return 0; } else { return -1; } } return 0; #endif } #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject* args = PyTuple_Pack(1, arg); return (likely(args)) ? __Pyx_PyObject_Call(func, args, NULL) : NULL; } #endif static PyObject* __Pyx_PyObject_CallMethod0(PyObject* obj, PyObject* method_name) { PyObject *method, *result = NULL; method = __Pyx_PyObject_GetAttrStr(obj, method_name); if (unlikely(!method)) goto bad; #if CYTHON_COMPILING_IN_CPYTHON if (likely(PyMethod_Check(method))) { PyObject *self = PyMethod_GET_SELF(method); if (likely(self)) { PyObject *function = PyMethod_GET_FUNCTION(method); result = __Pyx_PyObject_CallOneArg(function, self); Py_DECREF(method); return result; } } #endif result = __Pyx_PyObject_CallNoArg(method); Py_DECREF(method); bad: return result; } static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { if (unlikely(retval)) { Py_DECREF(retval); __Pyx_RaiseTooManyValuesError(expected); return -1; } else { return __Pyx_IterFinish(); } return 0; } static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } static void __Pyx_UnpackTupleError(PyObject *t, Py_ssize_t index) { if (t == Py_None) { __Pyx_RaiseNoneNotIterableError(); } else if (PyTuple_GET_SIZE(t) < index) { __Pyx_RaiseNeedMoreValuesError(PyTuple_GET_SIZE(t)); } else { __Pyx_RaiseTooManyValuesError(index); } } static CYTHON_INLINE int __Pyx_unpack_tuple2(PyObject* tuple, PyObject** pvalue1, PyObject** pvalue2, int is_tuple, int has_known_size, int decref_tuple) { Py_ssize_t index; PyObject *value1 = NULL, *value2 = NULL, *iter = NULL; if (!is_tuple && unlikely(!PyTuple_Check(tuple))) { iternextfunc iternext; iter = PyObject_GetIter(tuple); if (unlikely(!iter)) goto bad; if (decref_tuple) { Py_DECREF(tuple); tuple = NULL; } iternext = Py_TYPE(iter)->tp_iternext; value1 = iternext(iter); if (unlikely(!value1)) { index = 0; goto unpacking_failed; } value2 = iternext(iter); if (unlikely(!value2)) { index = 1; goto unpacking_failed; } if (!has_known_size && unlikely(__Pyx_IternextUnpackEndCheck(iternext(iter), 2))) goto bad; Py_DECREF(iter); } else { if (!has_known_size && unlikely(PyTuple_GET_SIZE(tuple) != 2)) { __Pyx_UnpackTupleError(tuple, 2); goto bad; } #if CYTHON_COMPILING_IN_PYPY value1 = PySequence_ITEM(tuple, 0); if (unlikely(!value1)) goto bad; value2 = PySequence_ITEM(tuple, 1); if (unlikely(!value2)) goto bad; #else value1 = PyTuple_GET_ITEM(tuple, 0); value2 = PyTuple_GET_ITEM(tuple, 1); Py_INCREF(value1); Py_INCREF(value2); #endif if (decref_tuple) { Py_DECREF(tuple); } } *pvalue1 = value1; *pvalue2 = value2; return 0; unpacking_failed: if (!has_known_size && __Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index); bad: Py_XDECREF(iter); Py_XDECREF(value1); Py_XDECREF(value2); if (decref_tuple) { Py_XDECREF(tuple); } return -1; } static CYTHON_INLINE PyObject* __Pyx_dict_iterator(PyObject* iterable, int is_dict, PyObject* method_name, Py_ssize_t* p_orig_length, int* p_source_is_dict) { is_dict = is_dict || likely(PyDict_CheckExact(iterable)); *p_source_is_dict = is_dict; #if !CYTHON_COMPILING_IN_PYPY if (is_dict) { *p_orig_length = PyDict_Size(iterable); Py_INCREF(iterable); return iterable; } #endif *p_orig_length = 0; if (method_name) { PyObject* iter; iterable = __Pyx_PyObject_CallMethod0(iterable, method_name); if (!iterable) return NULL; #if !CYTHON_COMPILING_IN_PYPY if (PyTuple_CheckExact(iterable) || PyList_CheckExact(iterable)) return iterable; #endif iter = PyObject_GetIter(iterable); Py_DECREF(iterable); return iter; } return PyObject_GetIter(iterable); } static CYTHON_INLINE int __Pyx_dict_iter_next(PyObject* iter_obj, Py_ssize_t orig_length, Py_ssize_t* ppos, PyObject** pkey, PyObject** pvalue, PyObject** pitem, int source_is_dict) { PyObject* next_item; #if !CYTHON_COMPILING_IN_PYPY if (source_is_dict) { PyObject *key, *value; if (unlikely(orig_length != PyDict_Size(iter_obj))) { PyErr_SetString(PyExc_RuntimeError, "dictionary changed size during iteration"); return -1; } if (unlikely(!PyDict_Next(iter_obj, ppos, &key, &value))) { return 0; } if (pitem) { PyObject* tuple = PyTuple_New(2); if (unlikely(!tuple)) { return -1; } Py_INCREF(key); Py_INCREF(value); PyTuple_SET_ITEM(tuple, 0, key); PyTuple_SET_ITEM(tuple, 1, value); *pitem = tuple; } else { if (pkey) { Py_INCREF(key); *pkey = key; } if (pvalue) { Py_INCREF(value); *pvalue = value; } } return 1; } else if (PyTuple_CheckExact(iter_obj)) { Py_ssize_t pos = *ppos; if (unlikely(pos >= PyTuple_GET_SIZE(iter_obj))) return 0; *ppos = pos + 1; next_item = PyTuple_GET_ITEM(iter_obj, pos); Py_INCREF(next_item); } else if (PyList_CheckExact(iter_obj)) { Py_ssize_t pos = *ppos; if (unlikely(pos >= PyList_GET_SIZE(iter_obj))) return 0; *ppos = pos + 1; next_item = PyList_GET_ITEM(iter_obj, pos); Py_INCREF(next_item); } else #endif { next_item = PyIter_Next(iter_obj); if (unlikely(!next_item)) { return __Pyx_IterFinish(); } } if (pitem) { *pitem = next_item; } else if (pkey && pvalue) { if (__Pyx_unpack_tuple2(next_item, pkey, pvalue, source_is_dict, source_is_dict, 1)) return -1; } else if (pkey) { *pkey = next_item; } else { *pvalue = next_item; } return 1; } static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if CYTHON_COMPILING_IN_CPYTHON result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; va_start(vargs, fmt); #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { length = strlen(cstring); if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; #if CYTHON_COMPILING_IN_CPYTHON PyThreadState *tstate = PyThreadState_GET(); tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; #else PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); #endif *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck) { #if CYTHON_COMPILING_IN_CPYTHON if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck) { #if CYTHON_COMPILING_IN_CPYTHON if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck) { #if CYTHON_COMPILING_IN_CPYTHON if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (PyErr_ExceptionMatches(PyExc_OverflowError)) PyErr_Clear(); else return NULL; } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } } static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } static PyObject *__Pyx_CalculateMetaclass(PyTypeObject *metaclass, PyObject *bases) { Py_ssize_t i, nbases = PyTuple_GET_SIZE(bases); for (i=0; i < nbases; i++) { PyTypeObject *tmptype; PyObject *tmp = PyTuple_GET_ITEM(bases, i); tmptype = Py_TYPE(tmp); #if PY_MAJOR_VERSION < 3 if (tmptype == &PyClass_Type) continue; #endif if (!metaclass) { metaclass = tmptype; continue; } if (PyType_IsSubtype(metaclass, tmptype)) continue; if (PyType_IsSubtype(tmptype, metaclass)) { metaclass = tmptype; continue; } PyErr_SetString(PyExc_TypeError, "metaclass conflict: " "the metaclass of a derived class " "must be a (non-strict) subclass " "of the metaclasses of all its bases"); return NULL; } if (!metaclass) { #if PY_MAJOR_VERSION < 3 metaclass = &PyClass_Type; #else metaclass = &PyType_Type; #endif } Py_INCREF((PyObject*) metaclass); return (PyObject*) metaclass; } static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type) { PyObject* fake_module; PyTypeObject* cached_type = NULL; fake_module = PyImport_AddModule((char*) "_cython_" CYTHON_ABI); if (!fake_module) return NULL; Py_INCREF(fake_module); cached_type = (PyTypeObject*) PyObject_GetAttrString(fake_module, type->tp_name); if (cached_type) { if (!PyType_Check((PyObject*)cached_type)) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s is not a type object", type->tp_name); goto bad; } if (cached_type->tp_basicsize != type->tp_basicsize) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s has the wrong size, try recompiling", type->tp_name); goto bad; } } else { if (!PyErr_ExceptionMatches(PyExc_AttributeError)) goto bad; PyErr_Clear(); if (PyType_Ready(type) < 0) goto bad; if (PyObject_SetAttrString(fake_module, type->tp_name, (PyObject*) type) < 0) goto bad; Py_INCREF(type); cached_type = type; } done: Py_DECREF(fake_module); return cached_type; bad: Py_XDECREF(cached_type); cached_type = NULL; goto done; } static PyObject * __Pyx_CyFunction_get_doc(__pyx_CyFunctionObject *op, CYTHON_UNUSED void *closure) { if (unlikely(op->func_doc == NULL)) { if (op->func.m_ml->ml_doc) { #if PY_MAJOR_VERSION >= 3 op->func_doc = PyUnicode_FromString(op->func.m_ml->ml_doc); #else op->func_doc = PyString_FromString(op->func.m_ml->ml_doc); #endif if (unlikely(op->func_doc == NULL)) return NULL; } else { Py_INCREF(Py_None); return Py_None; } } Py_INCREF(op->func_doc); return op->func_doc; } static int __Pyx_CyFunction_set_doc(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp = op->func_doc; if (value == NULL) { value = Py_None; } Py_INCREF(value); op->func_doc = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_name(__pyx_CyFunctionObject *op) { if (unlikely(op->func_name == NULL)) { #if PY_MAJOR_VERSION >= 3 op->func_name = PyUnicode_InternFromString(op->func.m_ml->ml_name); #else op->func_name = PyString_InternFromString(op->func.m_ml->ml_name); #endif if (unlikely(op->func_name == NULL)) return NULL; } Py_INCREF(op->func_name); return op->func_name; } static int __Pyx_CyFunction_set_name(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__name__ must be set to a string object"); return -1; } tmp = op->func_name; Py_INCREF(value); op->func_name = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_qualname(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_qualname); return op->func_qualname; } static int __Pyx_CyFunction_set_qualname(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__qualname__ must be set to a string object"); return -1; } tmp = op->func_qualname; Py_INCREF(value); op->func_qualname = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_self(__pyx_CyFunctionObject *m, CYTHON_UNUSED void *closure) { PyObject *self; self = m->func_closure; if (self == NULL) self = Py_None; Py_INCREF(self); return self; } static PyObject * __Pyx_CyFunction_get_dict(__pyx_CyFunctionObject *op) { if (unlikely(op->func_dict == NULL)) { op->func_dict = PyDict_New(); if (unlikely(op->func_dict == NULL)) return NULL; } Py_INCREF(op->func_dict); return op->func_dict; } static int __Pyx_CyFunction_set_dict(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; if (unlikely(value == NULL)) { PyErr_SetString(PyExc_TypeError, "function's dictionary may not be deleted"); return -1; } if (unlikely(!PyDict_Check(value))) { PyErr_SetString(PyExc_TypeError, "setting function's dictionary to a non-dict"); return -1; } tmp = op->func_dict; Py_INCREF(value); op->func_dict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_globals(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_globals); return op->func_globals; } static PyObject * __Pyx_CyFunction_get_closure(CYTHON_UNUSED __pyx_CyFunctionObject *op) { Py_INCREF(Py_None); return Py_None; } static PyObject * __Pyx_CyFunction_get_code(__pyx_CyFunctionObject *op) { PyObject* result = (op->func_code) ? op->func_code : Py_None; Py_INCREF(result); return result; } static int __Pyx_CyFunction_init_defaults(__pyx_CyFunctionObject *op) { PyObject *res = op->defaults_getter((PyObject *) op); if (unlikely(!res)) return -1; op->defaults_tuple = PyTuple_GET_ITEM(res, 0); Py_INCREF(op->defaults_tuple); op->defaults_kwdict = PyTuple_GET_ITEM(res, 1); Py_INCREF(op->defaults_kwdict); Py_DECREF(res); return 0; } static int __Pyx_CyFunction_set_defaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyTuple_Check(value)) { PyErr_SetString(PyExc_TypeError, "__defaults__ must be set to a tuple object"); return -1; } Py_INCREF(value); tmp = op->defaults_tuple; op->defaults_tuple = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_defaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_tuple; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_tuple; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_kwdefaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__kwdefaults__ must be set to a dict object"); return -1; } Py_INCREF(value); tmp = op->defaults_kwdict; op->defaults_kwdict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_kwdefaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_kwdict; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_kwdict; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_annotations(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value || value == Py_None) { value = NULL; } else if (!PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__annotations__ must be set to a dict object"); return -1; } Py_XINCREF(value); tmp = op->func_annotations; op->func_annotations = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_annotations(__pyx_CyFunctionObject *op) { PyObject* result = op->func_annotations; if (unlikely(!result)) { result = PyDict_New(); if (unlikely(!result)) return NULL; op->func_annotations = result; } Py_INCREF(result); return result; } static PyGetSetDef __pyx_CyFunction_getsets[] = { {(char *) "func_doc", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "__doc__", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "func_name", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__name__", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__qualname__", (getter)__Pyx_CyFunction_get_qualname, (setter)__Pyx_CyFunction_set_qualname, 0, 0}, {(char *) "__self__", (getter)__Pyx_CyFunction_get_self, 0, 0, 0}, {(char *) "func_dict", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "__dict__", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "func_globals", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "__globals__", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "func_closure", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "__closure__", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "func_code", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "__code__", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "func_defaults", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__defaults__", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__kwdefaults__", (getter)__Pyx_CyFunction_get_kwdefaults, (setter)__Pyx_CyFunction_set_kwdefaults, 0, 0}, {(char *) "__annotations__", (getter)__Pyx_CyFunction_get_annotations, (setter)__Pyx_CyFunction_set_annotations, 0, 0}, {0, 0, 0, 0, 0} }; #ifndef PY_WRITE_RESTRICTED #define PY_WRITE_RESTRICTED WRITE_RESTRICTED #endif static PyMemberDef __pyx_CyFunction_members[] = { {(char *) "__module__", T_OBJECT, offsetof(__pyx_CyFunctionObject, func.m_module), PY_WRITE_RESTRICTED, 0}, {0, 0, 0, 0, 0} }; static PyObject * __Pyx_CyFunction_reduce(__pyx_CyFunctionObject *m, CYTHON_UNUSED PyObject *args) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromString(m->func.m_ml->ml_name); #else return PyString_FromString(m->func.m_ml->ml_name); #endif } static PyMethodDef __pyx_CyFunction_methods[] = { {"__reduce__", (PyCFunction)__Pyx_CyFunction_reduce, METH_VARARGS, 0}, {0, 0, 0, 0} }; #if PY_VERSION_HEX < 0x030500A0 #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func_weakreflist) #else #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func.m_weakreflist) #endif static PyObject *__Pyx_CyFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *closure, PyObject *module, PyObject* globals, PyObject* code) { __pyx_CyFunctionObject *op = PyObject_GC_New(__pyx_CyFunctionObject, type); if (op == NULL) return NULL; op->flags = flags; __Pyx_CyFunction_weakreflist(op) = NULL; op->func.m_ml = ml; op->func.m_self = (PyObject *) op; Py_XINCREF(closure); op->func_closure = closure; Py_XINCREF(module); op->func.m_module = module; op->func_dict = NULL; op->func_name = NULL; Py_INCREF(qualname); op->func_qualname = qualname; op->func_doc = NULL; op->func_classobj = NULL; op->func_globals = globals; Py_INCREF(op->func_globals); Py_XINCREF(code); op->func_code = code; op->defaults_pyobjects = 0; op->defaults = NULL; op->defaults_tuple = NULL; op->defaults_kwdict = NULL; op->defaults_getter = NULL; op->func_annotations = NULL; PyObject_GC_Track(op); return (PyObject *) op; } static int __Pyx_CyFunction_clear(__pyx_CyFunctionObject *m) { Py_CLEAR(m->func_closure); Py_CLEAR(m->func.m_module); Py_CLEAR(m->func_dict); Py_CLEAR(m->func_name); Py_CLEAR(m->func_qualname); Py_CLEAR(m->func_doc); Py_CLEAR(m->func_globals); Py_CLEAR(m->func_code); Py_CLEAR(m->func_classobj); Py_CLEAR(m->defaults_tuple); Py_CLEAR(m->defaults_kwdict); Py_CLEAR(m->func_annotations); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_XDECREF(pydefaults[i]); PyMem_Free(m->defaults); m->defaults = NULL; } return 0; } static void __Pyx_CyFunction_dealloc(__pyx_CyFunctionObject *m) { PyObject_GC_UnTrack(m); if (__Pyx_CyFunction_weakreflist(m) != NULL) PyObject_ClearWeakRefs((PyObject *) m); __Pyx_CyFunction_clear(m); PyObject_GC_Del(m); } static int __Pyx_CyFunction_traverse(__pyx_CyFunctionObject *m, visitproc visit, void *arg) { Py_VISIT(m->func_closure); Py_VISIT(m->func.m_module); Py_VISIT(m->func_dict); Py_VISIT(m->func_name); Py_VISIT(m->func_qualname); Py_VISIT(m->func_doc); Py_VISIT(m->func_globals); Py_VISIT(m->func_code); Py_VISIT(m->func_classobj); Py_VISIT(m->defaults_tuple); Py_VISIT(m->defaults_kwdict); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_VISIT(pydefaults[i]); } return 0; } static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; if (m->flags & __Pyx_CYFUNCTION_STATICMETHOD) { Py_INCREF(func); return func; } if (m->flags & __Pyx_CYFUNCTION_CLASSMETHOD) { if (type == NULL) type = (PyObject *)(Py_TYPE(obj)); return __Pyx_PyMethod_New(func, type, (PyObject *)(Py_TYPE(type))); } if (obj == Py_None) obj = NULL; return __Pyx_PyMethod_New(func, obj, type); } static PyObject* __Pyx_CyFunction_repr(__pyx_CyFunctionObject *op) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromFormat("", op->func_qualname, (void *)op); #else return PyString_FromFormat("", PyString_AsString(op->func_qualname), (void *)op); #endif } #if CYTHON_COMPILING_IN_PYPY static PyObject * __Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyCFunctionObject* f = (PyCFunctionObject*)func; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); Py_ssize_t size; switch (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST)) { case METH_VARARGS: if (likely(kw == NULL) || PyDict_Size(kw) == 0) return (*meth)(self, arg); break; case METH_VARARGS | METH_KEYWORDS: return (*(PyCFunctionWithKeywords)meth)(self, arg, kw); case METH_NOARGS: if (likely(kw == NULL) || PyDict_Size(kw) == 0) { size = PyTuple_GET_SIZE(arg); if (size == 0) return (*meth)(self, NULL); PyErr_Format(PyExc_TypeError, "%.200s() takes no arguments (%zd given)", f->m_ml->ml_name, size); return NULL; } break; case METH_O: if (likely(kw == NULL) || PyDict_Size(kw) == 0) { size = PyTuple_GET_SIZE(arg); if (size == 1) return (*meth)(self, PyTuple_GET_ITEM(arg, 0)); PyErr_Format(PyExc_TypeError, "%.200s() takes exactly one argument (%zd given)", f->m_ml->ml_name, size); return NULL; } break; default: PyErr_SetString(PyExc_SystemError, "Bad call flags in " "__Pyx_CyFunction_Call. METH_OLDARGS is no " "longer supported!"); return NULL; } PyErr_Format(PyExc_TypeError, "%.200s() takes no keyword arguments", f->m_ml->ml_name); return NULL; } #else static PyObject * __Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { return PyCFunction_Call(func, arg, kw); } #endif static PyTypeObject __pyx_CyFunctionType_type = { PyVarObject_HEAD_INIT(0, 0) "cython_function_or_method", sizeof(__pyx_CyFunctionObject), 0, (destructor) __Pyx_CyFunction_dealloc, 0, 0, 0, #if PY_MAJOR_VERSION < 3 0, #else 0, #endif (reprfunc) __Pyx_CyFunction_repr, 0, 0, 0, 0, __Pyx_CyFunction_Call, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC, 0, (traverseproc) __Pyx_CyFunction_traverse, (inquiry) __Pyx_CyFunction_clear, 0, #if PY_VERSION_HEX < 0x030500A0 offsetof(__pyx_CyFunctionObject, func_weakreflist), #else offsetof(PyCFunctionObject, m_weakreflist), #endif 0, 0, __pyx_CyFunction_methods, __pyx_CyFunction_members, __pyx_CyFunction_getsets, 0, 0, __Pyx_CyFunction_descr_get, 0, offsetof(__pyx_CyFunctionObject, func_dict), 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #endif }; static int __Pyx_CyFunction_init(void) { #if !CYTHON_COMPILING_IN_PYPY __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; #endif __pyx_CyFunctionType = __Pyx_FetchCommonType(&__pyx_CyFunctionType_type); if (__pyx_CyFunctionType == NULL) { return -1; } return 0; } static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *func, size_t size, int pyobjects) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults = PyMem_Malloc(size); if (!m->defaults) return PyErr_NoMemory(); memset(m->defaults, 0, size); m->defaults_pyobjects = pyobjects; return m->defaults; } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *func, PyObject *tuple) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_tuple = tuple; Py_INCREF(tuple); } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_kwdict = dict; Py_INCREF(dict); } static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->func_annotations = dict; Py_INCREF(dict); } static PyObject *__Pyx_Py3MetaclassPrepare(PyObject *metaclass, PyObject *bases, PyObject *name, PyObject *qualname, PyObject *mkw, PyObject *modname, PyObject *doc) { PyObject *ns; if (metaclass) { PyObject *prep = __Pyx_PyObject_GetAttrStr(metaclass, __pyx_n_s_prepare); if (prep) { PyObject *pargs = PyTuple_Pack(2, name, bases); if (unlikely(!pargs)) { Py_DECREF(prep); return NULL; } ns = PyObject_Call(prep, pargs, mkw); Py_DECREF(prep); Py_DECREF(pargs); } else { if (unlikely(!PyErr_ExceptionMatches(PyExc_AttributeError))) return NULL; PyErr_Clear(); ns = PyDict_New(); } } else { ns = PyDict_New(); } if (unlikely(!ns)) return NULL; if (unlikely(PyObject_SetItem(ns, __pyx_n_s_module, modname) < 0)) goto bad; if (unlikely(PyObject_SetItem(ns, __pyx_n_s_qualname, qualname) < 0)) goto bad; if (unlikely(doc && PyObject_SetItem(ns, __pyx_n_s_doc_2, doc) < 0)) goto bad; return ns; bad: Py_DECREF(ns); return NULL; } static PyObject *__Pyx_Py3ClassCreate(PyObject *metaclass, PyObject *name, PyObject *bases, PyObject *dict, PyObject *mkw, int calculate_metaclass, int allow_py2_metaclass) { PyObject *result, *margs; PyObject *owned_metaclass = NULL; if (allow_py2_metaclass) { owned_metaclass = PyObject_GetItem(dict, __pyx_n_s_metaclass); if (owned_metaclass) { metaclass = owned_metaclass; } else if (likely(PyErr_ExceptionMatches(PyExc_KeyError))) { PyErr_Clear(); } else { return NULL; } } if (calculate_metaclass && (!metaclass || PyType_Check(metaclass))) { metaclass = __Pyx_CalculateMetaclass((PyTypeObject*) metaclass, bases); Py_XDECREF(owned_metaclass); if (unlikely(!metaclass)) return NULL; owned_metaclass = metaclass; } margs = PyTuple_Pack(3, name, bases, dict); if (unlikely(!margs)) { result = NULL; } else { result = PyObject_Call(metaclass, margs, mkw); Py_DECREF(margs); } Py_XDECREF(owned_metaclass); return result; } static PyObject * __pyx_FusedFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject *qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject *code) { __pyx_FusedFunctionObject *fusedfunc = (__pyx_FusedFunctionObject *) __Pyx_CyFunction_New(type, ml, flags, qualname, self, module, globals, code); if (!fusedfunc) return NULL; fusedfunc->__signatures__ = NULL; fusedfunc->type = NULL; fusedfunc->self = NULL; return (PyObject *) fusedfunc; } static void __pyx_FusedFunction_dealloc(__pyx_FusedFunctionObject *self) { __pyx_FusedFunction_clear(self); __pyx_FusedFunctionType->tp_free((PyObject *) self); } static int __pyx_FusedFunction_traverse(__pyx_FusedFunctionObject *self, visitproc visit, void *arg) { Py_VISIT(self->self); Py_VISIT(self->type); Py_VISIT(self->__signatures__); return __Pyx_CyFunction_traverse((__pyx_CyFunctionObject *) self, visit, arg); } static int __pyx_FusedFunction_clear(__pyx_FusedFunctionObject *self) { Py_CLEAR(self->self); Py_CLEAR(self->type); Py_CLEAR(self->__signatures__); return __Pyx_CyFunction_clear((__pyx_CyFunctionObject *) self); } static PyObject * __pyx_FusedFunction_descr_get(PyObject *self, PyObject *obj, PyObject *type) { __pyx_FusedFunctionObject *func, *meth; func = (__pyx_FusedFunctionObject *) self; if (func->self || func->func.flags & __Pyx_CYFUNCTION_STATICMETHOD) { Py_INCREF(self); return self; } if (obj == Py_None) obj = NULL; meth = (__pyx_FusedFunctionObject *) __pyx_FusedFunction_NewEx( ((PyCFunctionObject *) func)->m_ml, ((__pyx_CyFunctionObject *) func)->flags, ((__pyx_CyFunctionObject *) func)->func_qualname, ((__pyx_CyFunctionObject *) func)->func_closure, ((PyCFunctionObject *) func)->m_module, ((__pyx_CyFunctionObject *) func)->func_globals, ((__pyx_CyFunctionObject *) func)->func_code); if (!meth) return NULL; Py_XINCREF(func->func.func_classobj); meth->func.func_classobj = func->func.func_classobj; Py_XINCREF(func->__signatures__); meth->__signatures__ = func->__signatures__; Py_XINCREF(type); meth->type = type; Py_XINCREF(func->func.defaults_tuple); meth->func.defaults_tuple = func->func.defaults_tuple; if (func->func.flags & __Pyx_CYFUNCTION_CLASSMETHOD) obj = type; Py_XINCREF(obj); meth->self = obj; return (PyObject *) meth; } static PyObject * _obj_to_str(PyObject *obj) { if (PyType_Check(obj)) return PyObject_GetAttr(obj, __pyx_n_s_name_2); else return PyObject_Str(obj); } static PyObject * __pyx_FusedFunction_getitem(__pyx_FusedFunctionObject *self, PyObject *idx) { PyObject *signature = NULL; PyObject *unbound_result_func; PyObject *result_func = NULL; if (self->__signatures__ == NULL) { PyErr_SetString(PyExc_TypeError, "Function is not fused"); return NULL; } if (PyTuple_Check(idx)) { PyObject *list = PyList_New(0); Py_ssize_t n = PyTuple_GET_SIZE(idx); PyObject *string = NULL; PyObject *sep = NULL; int i; if (!list) return NULL; for (i = 0; i < n; i++) { PyObject *item = PyTuple_GET_ITEM(idx, i); string = _obj_to_str(item); if (!string || PyList_Append(list, string) < 0) goto __pyx_err; Py_DECREF(string); } sep = PyUnicode_FromString("|"); if (sep) signature = PyUnicode_Join(sep, list); __pyx_err: ; Py_DECREF(list); Py_XDECREF(sep); } else { signature = _obj_to_str(idx); } if (!signature) return NULL; unbound_result_func = PyObject_GetItem(self->__signatures__, signature); if (unbound_result_func) { if (self->self || self->type) { __pyx_FusedFunctionObject *unbound = (__pyx_FusedFunctionObject *) unbound_result_func; Py_CLEAR(unbound->func.func_classobj); Py_XINCREF(self->func.func_classobj); unbound->func.func_classobj = self->func.func_classobj; result_func = __pyx_FusedFunction_descr_get(unbound_result_func, self->self, self->type); } else { result_func = unbound_result_func; Py_INCREF(result_func); } } Py_DECREF(signature); Py_XDECREF(unbound_result_func); return result_func; } static PyObject * __pyx_FusedFunction_callfunction(PyObject *func, PyObject *args, PyObject *kw) { __pyx_CyFunctionObject *cyfunc = (__pyx_CyFunctionObject *) func; PyObject *result; int static_specialized = (cyfunc->flags & __Pyx_CYFUNCTION_STATICMETHOD && !((__pyx_FusedFunctionObject *) func)->__signatures__); if (cyfunc->flags & __Pyx_CYFUNCTION_CCLASS && !static_specialized) { Py_ssize_t argc; PyObject *new_args; PyObject *self; PyObject *m_self; argc = PyTuple_GET_SIZE(args); new_args = PyTuple_GetSlice(args, 1, argc); if (!new_args) return NULL; self = PyTuple_GetItem(args, 0); if (!self) return NULL; m_self = cyfunc->func.m_self; cyfunc->func.m_self = self; result = __Pyx_CyFunction_Call(func, new_args, kw); cyfunc->func.m_self = m_self; Py_DECREF(new_args); } else { result = __Pyx_CyFunction_Call(func, args, kw); } return result; } static PyObject * __pyx_FusedFunction_call(PyObject *func, PyObject *args, PyObject *kw) { __pyx_FusedFunctionObject *binding_func = (__pyx_FusedFunctionObject *) func; Py_ssize_t argc = PyTuple_GET_SIZE(args); PyObject *new_args = NULL; __pyx_FusedFunctionObject *new_func = NULL; PyObject *result = NULL; PyObject *self = NULL; int is_staticmethod = binding_func->func.flags & __Pyx_CYFUNCTION_STATICMETHOD; int is_classmethod = binding_func->func.flags & __Pyx_CYFUNCTION_CLASSMETHOD; if (binding_func->self) { Py_ssize_t i; new_args = PyTuple_New(argc + 1); if (!new_args) return NULL; self = binding_func->self; Py_INCREF(self); PyTuple_SET_ITEM(new_args, 0, self); for (i = 0; i < argc; i++) { PyObject *item = PyTuple_GET_ITEM(args, i); Py_INCREF(item); PyTuple_SET_ITEM(new_args, i + 1, item); } args = new_args; } else if (binding_func->type) { if (argc < 1) { PyErr_SetString(PyExc_TypeError, "Need at least one argument, 0 given."); return NULL; } self = PyTuple_GET_ITEM(args, 0); } if (self && !is_classmethod && !is_staticmethod && !PyObject_IsInstance(self, binding_func->type)) { PyErr_Format(PyExc_TypeError, "First argument should be of type %.200s, got %.200s.", ((PyTypeObject *) binding_func->type)->tp_name, self->ob_type->tp_name); goto __pyx_err; } if (binding_func->__signatures__) { PyObject *tup = PyTuple_Pack(4, binding_func->__signatures__, args, kw == NULL ? Py_None : kw, binding_func->func.defaults_tuple); if (!tup) goto __pyx_err; new_func = (__pyx_FusedFunctionObject *) __pyx_FusedFunction_callfunction(func, tup, NULL); Py_DECREF(tup); if (!new_func) goto __pyx_err; Py_XINCREF(binding_func->func.func_classobj); Py_CLEAR(new_func->func.func_classobj); new_func->func.func_classobj = binding_func->func.func_classobj; func = (PyObject *) new_func; } result = __pyx_FusedFunction_callfunction(func, args, kw); __pyx_err: Py_XDECREF(new_args); Py_XDECREF((PyObject *) new_func); return result; } static PyMemberDef __pyx_FusedFunction_members[] = { {(char *) "__signatures__", T_OBJECT, offsetof(__pyx_FusedFunctionObject, __signatures__), READONLY, 0}, {0, 0, 0, 0, 0}, }; static PyMappingMethods __pyx_FusedFunction_mapping_methods = { 0, (binaryfunc) __pyx_FusedFunction_getitem, 0, }; static PyTypeObject __pyx_FusedFunctionType_type = { PyVarObject_HEAD_INIT(0, 0) "fused_cython_function", sizeof(__pyx_FusedFunctionObject), 0, (destructor) __pyx_FusedFunction_dealloc, 0, 0, 0, #if PY_MAJOR_VERSION < 3 0, #else 0, #endif 0, 0, 0, &__pyx_FusedFunction_mapping_methods, 0, (ternaryfunc) __pyx_FusedFunction_call, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC | Py_TPFLAGS_BASETYPE, 0, (traverseproc) __pyx_FusedFunction_traverse, (inquiry) __pyx_FusedFunction_clear, 0, 0, 0, 0, 0, __pyx_FusedFunction_members, __pyx_CyFunction_getsets, &__pyx_CyFunctionType_type, 0, __pyx_FusedFunction_descr_get, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #endif }; static int __pyx_FusedFunction_init(void) { __pyx_FusedFunctionType = __Pyx_FetchCommonType(&__pyx_FusedFunctionType_type); if (__pyx_FusedFunctionType == NULL) { return -1; } return 0; } static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = (start + end) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; py_frame->f_lineno = py_line; PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_long_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_long_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_char(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_signed_char, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_short(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_signed_short, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_int(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_signed_int, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_long(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_signed_long, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_signed_PY_LONG_LONG(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_signed_PY_LONG_LONG, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_char(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_unsigned_char, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_short(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_unsigned_short, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_int(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_unsigned_int, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_long(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_unsigned_long, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_unsigned_PY_LONG_LONG(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_unsigned_PY_LONG_LONG, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } Py_DECREF(obj); view->obj = NULL; } #endif static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(long) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value) \ { \ func_type value = func_value; \ if (sizeof(target_type) < sizeof(func_type)) { \ if (unlikely(value != (func_type) (target_type) value)) { \ func_type zero = 0; \ if (is_unsigned && unlikely(value < zero)) \ goto raise_neg_overflow; \ else \ goto raise_overflow; \ } \ } \ return (target_type) value; \ } #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #endif #endif static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(char, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(char) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(char, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyLong_AsLong(x)) } else if (sizeof(char) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(char, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } static CYTHON_INLINE int __Pyx_BytesContains(PyObject* bytes, char character) { const Py_ssize_t length = PyBytes_GET_SIZE(bytes); char* char_start = PyBytes_AS_STRING(bytes); char* pos; for (pos=char_start; pos < char_start+length; pos++) { if (character == pos[0]) return 1; } return 0; } static PyObject *__pyx_memview_get_float(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(float *) itemp); } static int __pyx_memview_set_float(const char *itemp, PyObject *obj) { float value = __pyx_PyFloat_AsFloat(obj); if ((value == (float)-1) && PyErr_Occurred()) return 0; *(float *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value) { const unsigned int neg_one = (unsigned int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(unsigned int) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(unsigned int) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned int) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned int), little, !is_unsigned); } } static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *x) { const unsigned int neg_one = (unsigned int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned int, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(unsigned int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(unsigned int) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned int, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(unsigned int, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(unsigned int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned int, long, PyLong_AsLong(x)) } else if (sizeof(unsigned int) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(unsigned int, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned int val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned int) -1; } } else { unsigned int val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (unsigned int) -1; val = __Pyx_PyInt_As_unsigned_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned int"); return (unsigned int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned int"); return (unsigned int) -1; } static PyObject *__pyx_memview_get_double(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(double *) itemp); } static int __pyx_memview_set_double(const char *itemp, PyObject *obj) { double value = __pyx_PyFloat_AsDouble(obj); if ((value == (double)-1) && PyErr_Occurred()) return 0; *(double *) itemp = value; return 1; } static PyObject *__pyx_memview_get_long_double(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(long double *) itemp); } static int __pyx_memview_set_long_double(const char *itemp, PyObject *obj) { long double value = __pyx_PyFloat_AsDouble(obj); if ((value == (long double)-1) && PyErr_Occurred()) return 0; *(long double *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__char(signed char value) { const signed char neg_one = (signed char) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(signed char) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed char) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(signed char) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(signed char) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed char) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(signed char), little, !is_unsigned); } } static CYTHON_INLINE signed char __Pyx_PyInt_As_signed__char(PyObject *x) { const signed char neg_one = (signed char) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(signed char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (signed char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed char, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(signed char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(signed char, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(signed char) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(signed char, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed char, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(signed char, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(signed char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed char, long, PyLong_AsLong(x)) } else if (sizeof(signed char) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(signed char, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else signed char val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (signed char) -1; } } else { signed char val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (signed char) -1; val = __Pyx_PyInt_As_signed__char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to signed char"); return (signed char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to signed char"); return (signed char) -1; } static PyObject *__pyx_memview_get_signed_char(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_signed__char(*(signed char *) itemp); } static int __pyx_memview_set_signed_char(const char *itemp, PyObject *obj) { signed char value = __Pyx_PyInt_As_signed__char(obj); if ((value == (signed char)-1) && PyErr_Occurred()) return 0; *(signed char *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__short(signed short value) { const signed short neg_one = (signed short) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(signed short) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed short) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(signed short) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(signed short) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed short) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(signed short), little, !is_unsigned); } } static CYTHON_INLINE signed short __Pyx_PyInt_As_signed__short(PyObject *x) { const signed short neg_one = (signed short) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(signed short) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed short, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (signed short) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed short, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(signed short) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(signed short, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(signed short) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(signed short, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed short, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(signed short, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(signed short) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed short, long, PyLong_AsLong(x)) } else if (sizeof(signed short) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(signed short, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else signed short val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (signed short) -1; } } else { signed short val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (signed short) -1; val = __Pyx_PyInt_As_signed__short(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to signed short"); return (signed short) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to signed short"); return (signed short) -1; } static PyObject *__pyx_memview_get_signed_short(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_signed__short(*(signed short *) itemp); } static int __pyx_memview_set_signed_short(const char *itemp, PyObject *obj) { signed short value = __Pyx_PyInt_As_signed__short(obj); if ((value == (signed short)-1) && PyErr_Occurred()) return 0; *(signed short *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__int(signed int value) { const signed int neg_one = (signed int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(signed int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(signed int) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(signed int) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed int) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(signed int), little, !is_unsigned); } } static CYTHON_INLINE signed int __Pyx_PyInt_As_signed__int(PyObject *x) { const signed int neg_one = (signed int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(signed int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (signed int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed int, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(signed int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(signed int, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(signed int) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(signed int, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed int, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(signed int, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(signed int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed int, long, PyLong_AsLong(x)) } else if (sizeof(signed int) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(signed int, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else signed int val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (signed int) -1; } } else { signed int val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (signed int) -1; val = __Pyx_PyInt_As_signed__int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to signed int"); return (signed int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to signed int"); return (signed int) -1; } static PyObject *__pyx_memview_get_signed_int(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_signed__int(*(signed int *) itemp); } static int __pyx_memview_set_signed_int(const char *itemp, PyObject *obj) { signed int value = __Pyx_PyInt_As_signed__int(obj); if ((value == (signed int)-1) && PyErr_Occurred()) return 0; *(signed int *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__long(signed long value) { const signed long neg_one = (signed long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(signed long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(signed long) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(signed long) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed long) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(signed long), little, !is_unsigned); } } static CYTHON_INLINE signed long __Pyx_PyInt_As_signed__long(PyObject *x) { const signed long neg_one = (signed long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(signed long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (signed long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed long, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(signed long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(signed long, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(signed long) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(signed long, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed long, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(signed long, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(signed long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed long, long, PyLong_AsLong(x)) } else if (sizeof(signed long) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(signed long, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else signed long val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (signed long) -1; } } else { signed long val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (signed long) -1; val = __Pyx_PyInt_As_signed__long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to signed long"); return (signed long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to signed long"); return (signed long) -1; } static PyObject *__pyx_memview_get_signed_long(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_signed__long(*(signed long *) itemp); } static int __pyx_memview_set_signed_long(const char *itemp, PyObject *obj) { signed long value = __Pyx_PyInt_As_signed__long(obj); if ((value == (signed long)-1) && PyErr_Occurred()) return 0; *(signed long *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_signed__PY_LONG_LONG(signed PY_LONG_LONG value) { const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(signed PY_LONG_LONG) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed PY_LONG_LONG) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(signed PY_LONG_LONG) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(signed PY_LONG_LONG) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(signed PY_LONG_LONG) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(signed PY_LONG_LONG), little, !is_unsigned); } } static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_As_signed__PY_LONG_LONG(PyObject *x) { const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(signed PY_LONG_LONG) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (signed PY_LONG_LONG) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(signed PY_LONG_LONG) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(signed PY_LONG_LONG) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(signed PY_LONG_LONG) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, long, PyLong_AsLong(x)) } else if (sizeof(signed PY_LONG_LONG) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(signed PY_LONG_LONG, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else signed PY_LONG_LONG val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (signed PY_LONG_LONG) -1; } } else { signed PY_LONG_LONG val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (signed PY_LONG_LONG) -1; val = __Pyx_PyInt_As_signed__PY_LONG_LONG(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to signed PY_LONG_LONG"); return (signed PY_LONG_LONG) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to signed PY_LONG_LONG"); return (signed PY_LONG_LONG) -1; } static PyObject *__pyx_memview_get_signed_PY_LONG_LONG(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_signed__PY_LONG_LONG(*(signed PY_LONG_LONG *) itemp); } static int __pyx_memview_set_signed_PY_LONG_LONG(const char *itemp, PyObject *obj) { signed PY_LONG_LONG value = __Pyx_PyInt_As_signed__PY_LONG_LONG(obj); if ((value == (signed PY_LONG_LONG)-1) && PyErr_Occurred()) return 0; *(signed PY_LONG_LONG *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_char(unsigned char value) { const unsigned char neg_one = (unsigned char) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned char) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned char) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(unsigned char) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(unsigned char) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned char) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned char), little, !is_unsigned); } } static CYTHON_INLINE unsigned char __Pyx_PyInt_As_unsigned_char(PyObject *x) { const unsigned char neg_one = (unsigned char) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned char, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(unsigned char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(unsigned char) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned char, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(unsigned char, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(unsigned char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned char, long, PyLong_AsLong(x)) } else if (sizeof(unsigned char) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(unsigned char, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned char val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned char) -1; } } else { unsigned char val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (unsigned char) -1; val = __Pyx_PyInt_As_unsigned_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned char"); return (unsigned char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned char"); return (unsigned char) -1; } static PyObject *__pyx_memview_get_unsigned_char(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_unsigned_char(*(unsigned char *) itemp); } static int __pyx_memview_set_unsigned_char(const char *itemp, PyObject *obj) { unsigned char value = __Pyx_PyInt_As_unsigned_char(obj); if ((value == (unsigned char)-1) && PyErr_Occurred()) return 0; *(unsigned char *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_short(unsigned short value) { const unsigned short neg_one = (unsigned short) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned short) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned short) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(unsigned short) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(unsigned short) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned short) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned short), little, !is_unsigned); } } static CYTHON_INLINE unsigned short __Pyx_PyInt_As_unsigned_short(PyObject *x) { const unsigned short neg_one = (unsigned short) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned short) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned short, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned short) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned short, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(unsigned short) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(unsigned short, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(unsigned short) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(unsigned short, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned short, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(unsigned short, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(unsigned short) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned short, long, PyLong_AsLong(x)) } else if (sizeof(unsigned short) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(unsigned short, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned short val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned short) -1; } } else { unsigned short val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (unsigned short) -1; val = __Pyx_PyInt_As_unsigned_short(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned short"); return (unsigned short) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned short"); return (unsigned short) -1; } static PyObject *__pyx_memview_get_unsigned_short(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_unsigned_short(*(unsigned short *) itemp); } static int __pyx_memview_set_unsigned_short(const char *itemp, PyObject *obj) { unsigned short value = __Pyx_PyInt_As_unsigned_short(obj); if ((value == (unsigned short)-1) && PyErr_Occurred()) return 0; *(unsigned short *) itemp = value; return 1; } static PyObject *__pyx_memview_get_unsigned_int(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_unsigned_int(*(unsigned int *) itemp); } static int __pyx_memview_set_unsigned_int(const char *itemp, PyObject *obj) { unsigned int value = __Pyx_PyInt_As_unsigned_int(obj); if ((value == (unsigned int)-1) && PyErr_Occurred()) return 0; *(unsigned int *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value) { const unsigned long neg_one = (unsigned long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(unsigned long) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(unsigned long) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned long) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned long), little, !is_unsigned); } } static CYTHON_INLINE unsigned long __Pyx_PyInt_As_unsigned_long(PyObject *x) { const unsigned long neg_one = (unsigned long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned long, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(unsigned long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(unsigned long, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(unsigned long) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(unsigned long, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned long, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(unsigned long, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(unsigned long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned long, long, PyLong_AsLong(x)) } else if (sizeof(unsigned long) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(unsigned long, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned long val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned long) -1; } } else { unsigned long val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (unsigned long) -1; val = __Pyx_PyInt_As_unsigned_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned long"); return (unsigned long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned long"); return (unsigned long) -1; } static PyObject *__pyx_memview_get_unsigned_long(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_unsigned_long(*(unsigned long *) itemp); } static int __pyx_memview_set_unsigned_long(const char *itemp, PyObject *obj) { unsigned long value = __Pyx_PyInt_As_unsigned_long(obj); if ((value == (unsigned long)-1) && PyErr_Occurred()) return 0; *(unsigned long *) itemp = value; return 1; } static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_PY_LONG_LONG(unsigned PY_LONG_LONG value) { const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned PY_LONG_LONG) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned PY_LONG_LONG) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); } else if (sizeof(unsigned PY_LONG_LONG) <= sizeof(unsigned long long)) { return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { if (sizeof(unsigned PY_LONG_LONG) <= sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned PY_LONG_LONG) <= sizeof(long long)) { return PyLong_FromLongLong((long long) value); } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned PY_LONG_LONG), little, !is_unsigned); } } static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_As_unsigned_PY_LONG_LONG(PyObject *x) { const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned PY_LONG_LONG) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned PY_LONG_LONG) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(unsigned PY_LONG_LONG) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(unsigned PY_LONG_LONG) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(unsigned PY_LONG_LONG) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, long, PyLong_AsLong(x)) } else if (sizeof(unsigned PY_LONG_LONG) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(unsigned PY_LONG_LONG, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned PY_LONG_LONG val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned PY_LONG_LONG) -1; } } else { unsigned PY_LONG_LONG val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (unsigned PY_LONG_LONG) -1; val = __Pyx_PyInt_As_unsigned_PY_LONG_LONG(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned PY_LONG_LONG"); return (unsigned PY_LONG_LONG) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned PY_LONG_LONG"); return (unsigned PY_LONG_LONG) -1; } static PyObject *__pyx_memview_get_unsigned_PY_LONG_LONG(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_unsigned_PY_LONG_LONG(*(unsigned PY_LONG_LONG *) itemp); } static int __pyx_memview_set_unsigned_PY_LONG_LONG(const char *itemp, PyObject *obj) { unsigned PY_LONG_LONG value = __Pyx_PyInt_As_unsigned_PY_LONG_LONG(obj); if ((value == (unsigned PY_LONG_LONG)-1) && PyErr_Occurred()) return 0; *(unsigned PY_LONG_LONG *) itemp = value; return 1; } static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice *mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs->memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs->suboffsets[index] >= 0 || mvs->strides[index] != itemsize) return 0; itemsize *= mvs->shape[index]; } return 1; } static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; 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if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; 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} } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong(x)) } else if (sizeof(long) <= sizeof(unsigned long long)) { __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong(x)) } } else { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(x)) { case 0: return 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, +(((PyLongObject*)x)->ob_digit[0])); case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); } #endif #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong(x)) } else if (sizeof(long) <= sizeof(long long)) { __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong(x)) } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_Int(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_Int(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); 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} } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if !CYTHON_COMPILING_IN_PYPY if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) return PyInt_AS_LONG(b); #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 #if CYTHON_USE_PYLONG_INTERNALS switch (Py_SIZE(b)) { case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; case 0: return 0; case 1: return ((PyLongObject*)b)->ob_digit[0]; } #endif #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/marchingcubes.pyx0000644023630100076410000001773613202530432020435 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module provides marching cubes implementation. It provides a :class:`MarchingCubes` class allowing to build an isosurface from data provided as a 3D data set or slice by slice. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "16/08/2017" import numpy cimport numpy as cnumpy cimport cython cimport mc # From numpy_common.pxi to avoid warnings while compiling C code # See this thread: # https://mail.python.org/pipermail//cython-devel/2012-March/002137.html cdef extern from *: bint FALSE "0" void import_array() void import_umath() if FALSE: import_array() import_umath() cdef class MarchingCubes: """Compute isosurface using marching cubes algorithm. It builds a surface from a 3D scalar dataset as a 3D contour at a given value. The resulting surface is not topologically correct. See: http://paulbourke.net/geometry/polygonise/ Lorensen, W. E. and Cline, H. E. Marching cubes: A high resolution 3D surface construction algorithm. Computer Graphics, 21, 4 (July 1987). ACM, 163-169. Generated vertex and normal coordinates are in the same order as input array, i.e., (dim 0, dim 1, dim 2). Expected indices in memory of a (2, 2, 2) dataset: dim 0 (depth) | | 4 +------+ 5 /| /| / | / | 6 +------+ 7| | | | | |0 +---|--+ 1 --- dim 2 (width) | / | / |/ |/ 2 +------+ 3 / / dim 1 (height) Example with a 3D data set: >>> vertices, normals, indices = MarchingCubes(data, isolevel=1.) Example of code for processing a list of images: >>> mc = MarchingCubes(isolevel=1.) # Create object with iso-level=1 >>> previous_image = images[0] >>> for image in images[1:]: ... mc.process_image(previous_image, image) # Process one slice ... previous_image = image >>> vertices = mc.get_vertices() # Array of vertex positions >>> normals = mc.get_normals() # Array of normals >>> triangle_indices = mc.get_indices() # Array of indices of vertices :param data: 3D dataset of float32 or None :type data: numpy.ndarray of float32 of dimension 3 :param float isolevel: The value for which to generate the isosurface :param bool invert_normals: True (default) for normals oriented in direction of gradient descent :param sampling: Sampling along each dimension (depth, height, width) """ cdef mc.MarchingCubes[float, float] * c_mc # Pointer to the C++ instance def __cinit__(self, data=None, isolevel=None, invert_normals=True, sampling=(1, 1, 1)): self.c_mc = new mc.MarchingCubes[float, float](isolevel) self.c_mc.invert_normals = bool(invert_normals) self.c_mc.sampling[0] = sampling[0] self.c_mc.sampling[1] = sampling[1] self.c_mc.sampling[2] = sampling[2] if data is not None: self.process(data) def __dealloc__(self): del self.c_mc def __getitem__(self, key): """Allows one to unpack object as a single liner: vertices, normals, indices = MarchingCubes(...) """ if key == 0: return self.get_vertices() elif key == 1: return self.get_normals() elif key == 2: return self.get_indices() else: raise IndexError("Index out of range") def process(self, cnumpy.ndarray[cnumpy.float32_t, ndim=3, mode='c'] data): """Compute an isosurface from a 3D scalar field. This builds vertices, normals and indices arrays. Vertices and normals coordinates are in the same order as input array, i.e., (dim 0, dim 1, dim 2). :param numpy.ndarray data: 3D scalar field """ cdef float[:] c_data = numpy.ravel(data) cdef unsigned int depth, height, width depth = data.shape[0] height = data.shape[1] width = data.shape[2] self.c_mc.process(&c_data[0], depth, height, width) def process_slice(self, cnumpy.ndarray[cnumpy.float32_t, ndim=2, mode='c'] slice0, cnumpy.ndarray[cnumpy.float32_t, ndim=2, mode='c'] slice1): """Process a new slice to build the isosurface. :param numpy.ndarray slice0: Slice previously provided as slice1. :param numpy.ndarray slice1: Slice to process. """ assert slice0.shape[0] == slice1.shape[0] assert slice0.shape[1] == slice1.shape[1] cdef float[:] c_slice0 = numpy.ravel(slice0) cdef float[:] c_slice1 = numpy.ravel(slice1) if self.c_mc.depth == 0: # Starts a new isosurface, bootstrap with slice size self.c_mc.set_slice_size(slice1.shape[0], slice1.shape[1]) assert slice1.shape[0] == self.c_mc.height assert slice1.shape[1] == self.c_mc.width self.c_mc.process_slice(&c_slice0[0], &c_slice1[0]) def finish_process(self): """Clear internal cache after processing slice by slice.""" self.c_mc.finish_process() def reset(self): """Reset internal resources including computed isosurface info.""" self.c_mc.reset() @cython.embedsignature(False) @property def shape(self): """The shape of the processed scalar field (depth, height, width).""" return self.c_mc.depth, self.c_mc.height, self.c_mc.width @cython.embedsignature(False) @property def sampling(self): """The sampling over each dimension (depth, height, width). Default: 1, 1, 1 """ return (self.c_mc.sampling[0], self.c_mc.sampling[1], self.c_mc.sampling[2]) @cython.embedsignature(False) @property def isolevel(self): """The iso-level at which to generate the isosurface""" return self.c_mc.isolevel @cython.embedsignature(False) @property def invert_normals(self): """True to use gradient descent as normals.""" return self.c_mc.invert_normals def get_vertices(self): """Vertices currently computed (ndarray of dim NbVertices x 3) Order is dim0, dim1, dim2 (i.e., z, y, x if dim0 is depth). """ return numpy.array(self.c_mc.vertices).reshape(-1, 3) def get_normals(self): """Normals currently computed (ndarray of dim NbVertices x 3) Order is dim0, dim1, dim2 (i.e., z, y, x if dim0 is depth). """ return numpy.array(self.c_mc.normals).reshape(-1, 3) def get_indices(self): """Triangle indices currently computed (ndarray of dim NbTriangles x 3) """ return numpy.array(self.c_mc.indices, dtype=numpy.uint32).reshape(-1, 3) silx-0.6.1/silx/math/histogramnd/0000755023630100076410000000000013202537043017367 5ustar knobelusers00000000000000silx-0.6.1/silx/math/histogramnd/include/0000755023630100076410000000000013202537043021012 5ustar knobelusers00000000000000silx-0.6.1/silx/math/histogramnd/include/msvc/0000755023630100076410000000000013202537043021762 5ustar knobelusers00000000000000silx-0.6.1/silx/math/histogramnd/include/msvc/stdint.h0000644023630100076410000001707213202530306023442 0ustar knobelusers00000000000000// ISO C9x compliant stdint.h for Microsoft Visual Studio // Based on ISO/IEC 9899:TC2 Committee draft (May 6, 2005) WG14/N1124 // // Copyright (c) 2006-2008 Alexander Chemeris // // Redistribution and use in source and binary forms, with or without // modification, are permitted provided that the following conditions are met: // // 1. Redistributions of source code must retain the above copyright notice, // this list of conditions and the following disclaimer. // // 2. Redistributions in binary form must reproduce the above copyright // notice, this list of conditions and the following disclaimer in the // documentation and/or other materials provided with the distribution. // // 3. The name of the author may be used to endorse or promote products // derived from this software without specific prior written permission. // // THIS SOFTWARE IS PROVIDED BY THE AUTHOR ``AS IS'' AND ANY EXPRESS OR IMPLIED // WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF // MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO // EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, // SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, // PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; // OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, // WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR // OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF // ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. // /////////////////////////////////////////////////////////////////////////////// #ifndef _MSC_VER // [ #error "Use this header only with Microsoft Visual C++ compilers!" #endif // _MSC_VER ] #ifndef _MSC_STDINT_H_ // [ #define _MSC_STDINT_H_ #if _MSC_VER > 1000 #pragma once #endif #include // For Visual Studio 6 in C++ mode and for many Visual Studio versions when // compiling for ARM we should wrap include with 'extern "C++" {}' // or compiler give many errors like this: // error C2733: second C linkage of overloaded function 'wmemchr' not allowed #ifdef __cplusplus extern "C" { #endif # include #ifdef __cplusplus } #endif // Define _W64 macros to mark types changing their size, like intptr_t. #ifndef _W64 # if !defined(__midl) && (defined(_X86_) || defined(_M_IX86)) && _MSC_VER >= 1300 # define _W64 __w64 # else # define _W64 # endif #endif // 7.18.1 Integer types // 7.18.1.1 Exact-width integer types // Visual Studio 6 and Embedded Visual C++ 4 doesn't // realize that, e.g. char has the same size as __int8 // so we give up on __intX for them. #if (_MSC_VER < 1300) typedef char int8_t; typedef short int16_t; typedef int int32_t; typedef unsigned char uint8_t; typedef unsigned short uint16_t; typedef unsigned int uint32_t; #else typedef __int8 int8_t; typedef __int16 int16_t; typedef __int32 int32_t; typedef unsigned __int8 uint8_t; typedef unsigned __int16 uint16_t; typedef unsigned __int32 uint32_t; #endif typedef __int64 int64_t; typedef unsigned __int64 uint64_t; // 7.18.1.2 Minimum-width integer types typedef int8_t int_least8_t; typedef int16_t int_least16_t; typedef int32_t int_least32_t; typedef int64_t int_least64_t; typedef uint8_t uint_least8_t; typedef uint16_t uint_least16_t; typedef uint32_t uint_least32_t; typedef uint64_t uint_least64_t; // 7.18.1.3 Fastest minimum-width integer types typedef int8_t int_fast8_t; typedef int16_t int_fast16_t; typedef int32_t int_fast32_t; typedef int64_t int_fast64_t; typedef uint8_t uint_fast8_t; typedef uint16_t uint_fast16_t; typedef uint32_t uint_fast32_t; typedef uint64_t uint_fast64_t; // 7.18.1.4 Integer types capable of holding object pointers #ifdef _WIN64 // [ typedef __int64 intptr_t; typedef unsigned __int64 uintptr_t; #else // _WIN64 ][ typedef _W64 int intptr_t; typedef _W64 unsigned int uintptr_t; #endif // _WIN64 ] // 7.18.1.5 Greatest-width integer types typedef int64_t intmax_t; typedef uint64_t uintmax_t; // 7.18.2 Limits of specified-width integer types #if !defined(__cplusplus) || defined(__STDC_LIMIT_MACROS) // [ See footnote 220 at page 257 and footnote 221 at page 259 // 7.18.2.1 Limits of exact-width integer types #define INT8_MIN ((int8_t)_I8_MIN) #define INT8_MAX _I8_MAX #define INT16_MIN ((int16_t)_I16_MIN) #define INT16_MAX _I16_MAX #define INT32_MIN ((int32_t)_I32_MIN) #define INT32_MAX _I32_MAX #define INT64_MIN ((int64_t)_I64_MIN) #define INT64_MAX _I64_MAX #define UINT8_MAX _UI8_MAX #define UINT16_MAX _UI16_MAX #define UINT32_MAX _UI32_MAX #define UINT64_MAX _UI64_MAX // 7.18.2.2 Limits of minimum-width integer types #define INT_LEAST8_MIN INT8_MIN #define INT_LEAST8_MAX INT8_MAX #define INT_LEAST16_MIN INT16_MIN #define INT_LEAST16_MAX INT16_MAX #define INT_LEAST32_MIN INT32_MIN #define INT_LEAST32_MAX INT32_MAX #define INT_LEAST64_MIN INT64_MIN #define INT_LEAST64_MAX INT64_MAX #define UINT_LEAST8_MAX UINT8_MAX #define UINT_LEAST16_MAX UINT16_MAX #define UINT_LEAST32_MAX UINT32_MAX #define UINT_LEAST64_MAX UINT64_MAX // 7.18.2.3 Limits of fastest minimum-width integer types #define INT_FAST8_MIN INT8_MIN #define INT_FAST8_MAX INT8_MAX #define INT_FAST16_MIN INT16_MIN #define INT_FAST16_MAX INT16_MAX #define INT_FAST32_MIN INT32_MIN #define INT_FAST32_MAX INT32_MAX #define INT_FAST64_MIN INT64_MIN #define INT_FAST64_MAX INT64_MAX #define UINT_FAST8_MAX UINT8_MAX #define UINT_FAST16_MAX UINT16_MAX #define UINT_FAST32_MAX UINT32_MAX #define UINT_FAST64_MAX UINT64_MAX // 7.18.2.4 Limits of integer types capable of holding object pointers #ifdef _WIN64 // [ # define INTPTR_MIN INT64_MIN # define INTPTR_MAX INT64_MAX # define UINTPTR_MAX UINT64_MAX #else // _WIN64 ][ # define INTPTR_MIN INT32_MIN # define INTPTR_MAX INT32_MAX # define UINTPTR_MAX UINT32_MAX #endif // _WIN64 ] // 7.18.2.5 Limits of greatest-width integer types #define INTMAX_MIN INT64_MIN #define INTMAX_MAX INT64_MAX #define UINTMAX_MAX UINT64_MAX // 7.18.3 Limits of other integer types #ifdef _WIN64 // [ # define PTRDIFF_MIN _I64_MIN # define PTRDIFF_MAX _I64_MAX #else // _WIN64 ][ # define PTRDIFF_MIN _I32_MIN # define PTRDIFF_MAX _I32_MAX #endif // _WIN64 ] #define SIG_ATOMIC_MIN INT_MIN #define SIG_ATOMIC_MAX INT_MAX #ifndef SIZE_MAX // [ # ifdef _WIN64 // [ # define SIZE_MAX _UI64_MAX # else // _WIN64 ][ # define SIZE_MAX _UI32_MAX # endif // _WIN64 ] #endif // SIZE_MAX ] // WCHAR_MIN and WCHAR_MAX are also defined in #ifndef WCHAR_MIN // [ # define WCHAR_MIN 0 #endif // WCHAR_MIN ] #ifndef WCHAR_MAX // [ # define WCHAR_MAX _UI16_MAX #endif // WCHAR_MAX ] #define WINT_MIN 0 #define WINT_MAX _UI16_MAX #endif // __STDC_LIMIT_MACROS ] // 7.18.4 Limits of other integer types #if !defined(__cplusplus) || defined(__STDC_CONSTANT_MACROS) // [ See footnote 224 at page 260 // 7.18.4.1 Macros for minimum-width integer constants #define INT8_C(val) val##i8 #define INT16_C(val) val##i16 #define INT32_C(val) val##i32 #define INT64_C(val) val##i64 #define UINT8_C(val) val##ui8 #define UINT16_C(val) val##ui16 #define UINT32_C(val) val##ui32 #define UINT64_C(val) val##ui64 // 7.18.4.2 Macros for greatest-width integer constants #define INTMAX_C INT64_C #define UINTMAX_C UINT64_C #endif // __STDC_CONSTANT_MACROS ] #endif // _MSC_STDINT_H_ ] silx-0.6.1/silx/math/histogramnd/include/templates.h0000644023630100076410000000261113202530306023154 0ustar knobelusers00000000000000/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ #ifndef TEMPLATES_H_ #define TEMPLATES_H_ #define CONCAT(X,Y,Z,T) X##_##Y##_##Z##_##T #define TEMPLATE(X,Y,Z,T) CONCAT(X,Y,Z,T) #endif silx-0.6.1/silx/math/histogramnd/include/histogramnd_c.h0000644023630100076410000003535113202530306024006 0ustar knobelusers00000000000000/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ #ifndef HISTOGRAMND_C_H #define HISTOGRAMND_C_H /* checking for MSVC version because VS 2008 doesnt fully support C99 so inttypes.h and stdint.h are not provided with the compiler. */ #if defined(_MSC_VER) && _MSC_VER < 1600 #include "msvc/stdint.h" #else #include #endif #include "templates.h" /** Allowed flag values for the i_opt_flags arguments. */ typedef enum { HISTO_NONE = 0, /**< No options. */ HISTO_WEIGHT_MIN = 1, /**< Filter weights with i_weight_min. */ HISTO_WEIGHT_MAX = 1<<1, /**< Filter weights with i_weight_max. */ HISTO_LAST_BIN_CLOSED = 1<<2 /**< Last bin is closed. */ } histo_opt_type; /** Return codees for the histogramnd function. */ typedef enum { HISTO_OK = 0, /**< No error. */ HISTO_ERR_ALLOC /**< Failed to allocate memory. */ } histo_rc_t; /*===================== * double sample, double cumul * ==================== */ int histogramnd_double_double_double(double *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max); int histogramnd_double_float_double(double *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max); int histogramnd_double_int32_t_double(double *i_sample, int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, int32_t i_weight_min, int32_t i_weight_max); /*===================== * float sample, double cumul * ==================== */ int histogramnd_float_double_double(float *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max); int histogramnd_float_float_double(float *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max); int histogramnd_float_int32_t_double(float *i_sample, int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, int32_t i_weight_min, int32_t i_weight_max); /*===================== * int32_t sample, double cumul * ==================== */ int histogramnd_int32_t_double_double(int32_t *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max); int histogramnd_int32_t_float_double(int32_t *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max); int histogramnd_int32_t_int32_t_double(int32_t *i_sample, int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, double *o_cumul, double *o_bin_edges, int i_opt_flags, int32_t i_weight_min, int32_t i_weight_max); /*===================== * double sample, float cumul * ==================== */ int histogramnd_double_double_float(double *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max); int histogramnd_double_float_float(double *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max); int histogramnd_double_int32_t_float(double *i_sample, int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, int32_t i_weight_min, int32_t i_weight_max); /*===================== * float sample, float cumul * ==================== */ int histogramnd_float_double_float(float *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max); int histogramnd_float_float_float(float *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max); int histogramnd_float_int32_t_float(float *i_sample, int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, int32_t i_weight_min, int32_t i_weight_max); /*===================== * int32_t sample, double cumul * ==================== */ int histogramnd_int32_t_double_float(int32_t *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max); int histogramnd_int32_t_float_float(int32_t *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max); int histogramnd_int32_t_int32_t_float(int32_t *i_sample, int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, uint32_t *o_histo, float *o_cumul, double *o_bin_edges, int i_opt_flags, int32_t i_weight_min, int32_t i_weight_max); #endif /* #define HISTOGRAMND_C_H */ silx-0.6.1/silx/math/histogramnd/src/0000755023630100076410000000000013202537043020156 5ustar knobelusers00000000000000silx-0.6.1/silx/math/histogramnd/src/histogramnd_template.c0000644023630100076410000002040613202530306024531 0ustar knobelusers00000000000000/*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ #include "templates.h" #include #include #include #include #ifdef HISTO_SAMPLE_T #ifdef HISTO_WEIGHT_T #ifdef HISTO_CUMUL_T int TEMPLATE(histogramnd, HISTO_SAMPLE_T, HISTO_WEIGHT_T, HISTO_CUMUL_T) (HISTO_SAMPLE_T *i_sample, HISTO_WEIGHT_T *i_weights, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bins, uint32_t *o_histo, HISTO_CUMUL_T *o_cumul, double *o_bin_edges, int i_opt_flags, HISTO_WEIGHT_T i_weight_min, HISTO_WEIGHT_T i_weight_max) { /* some counters */ int i = 0, j = 0; long elem_idx = 0; HISTO_WEIGHT_T * weight_ptr = 0; HISTO_SAMPLE_T elem_coord = 0.; /* computed bin index (i_sample -> grid) */ long bin_idx = 0; double * g_min = 0; double * g_max = 0; double * range = 0; /* ================================ * Parsing options, if any. * ================================ */ int filt_min_weight = 0; int filt_max_weight = 0; int last_bin_closed = 0; /* Testing the option flags */ if(i_opt_flags & HISTO_WEIGHT_MIN) { filt_min_weight = 1; } if(i_opt_flags & HISTO_WEIGHT_MAX) { filt_max_weight = 1; } if(i_opt_flags & HISTO_LAST_BIN_CLOSED) { last_bin_closed = 1; } /* storing the min & max bin coordinates in their own arrays because * i_bin_ranges = [[min0, max0], [min1, max1], ...] * (mostly for the sake of clarity) * (maybe faster access too?) */ g_min = (double *) malloc(i_n_dim *sizeof(double)); g_max = (double *) malloc(i_n_dim * sizeof(double)); /* range used to convert from i_coords to bin indices in the grid */ range = (double *) malloc(i_n_dim * sizeof(double)); if(!g_min || !g_max || !range) { free(g_min); free(g_max); free(range); return HISTO_ERR_ALLOC; } j = 0; for(i=0; ii_weight_max) { continue; } bin_idx = 0; for(i=0; i= than the minimum value * 2. coordinate is <= than the maximum value * 3. coordinate==maximum value and last_bin_closed is True * ===================== */ if(elem_coord elem_coord>=g_max[i] */ { /* if equal and the last bin is closed : * put it in the last bin * else : discard */ if(last_bin_closed && elem_coord==g_max[i]) { bin_idx = (bin_idx + 1) * i_n_bins[i] - 1; } else { bin_idx = -1; break; } } /* if(elem_coord>> import numpy as np >>> shape = (10**7, 3) >>> sample = np.random.random(shape) * 500 >>> weights = np.random.random((shape[0],)) Computing the histogram with Histogramnd : >>> from silx.math import Histogramnd >>> n_bins = 35 >>> ranges = [[40., 150.], [-130., 250.], [0., 505]] >>> histo, w_histo, edges = Histogramnd(sample, n_bins=n_bins, histo_range=ranges, weights=weights) Histogramnd can accumulate sets of data that don't have the same coordinates : >>> from silx.math import Histogramnd >>> histo_obj = Histogramnd(sample, n_bins=n_bins, histo_range=ranges, weights=weights) >>> sample_2 = np.random.random(shape) * 200 >>> weights_2 = np.random.random((shape[0],)) >>> histo_obj.accumulate(sample_2, weights=weights_2) And then access the results: >>> histo = histo_obj.histo >>> weighted_histo = histo_obj.weighted_histo or even: >>> histo, w_histo, edges = histo_obj Accumulating histograms (LUT) ----------------------------- In some situations we need to compute the weighted histogram of several sets of data (weights) that have the same coordinates (sample). Again, some data (2 sets of weights) : >>> import numpy as np >>> shape = (10**7, 3) >>> sample = np.random.random(shape) * 500 >>> weights_1 = np.random.random((shape[0],)) >>> weights_2 = np.random.random((shape[0],)) And getting the result with HistogramLut : >>> from silx.math import HistogramndLut >>> n_bins = 35 >>> ranges = [[40., 150.], [-130., 250.], [0., 505]] >>> histo_lut = HistogramndLut(sample, ranges, n_bins) First call, with weight_1 : >>> histo_lut.accumulate(weights_1) Second call, with weight_2 : >>> histo_lut.accumulate(weights_2) Retrieving the results (this is a copy of what's actually stored in this instance) : >>> histo = histo_lut.histo >>> w_histo = histo_lut.weighted_histo Note that the following code gives the same result, but the HistogramndLut instance does not store the accumulated weighted histogram. First call with weights_1 >>> histo, w_histo = histo_lut.apply_lut(weights_1) Second call with weights_2 >>> histo, w_histo = histo_lut.apply_lut(weights_2, histo=histo, weighted_histo=w_histo) Bin edges --------- When computing an histogram the caller is asked to provide the histogram range along each coordinates (parameter *histo_range*). This parameter must be given a [N, 2] array where N is the number of dimensions of the histogram. In other words, the caller must provide, for each dimension, the left edge of the first (*leftmost*) bin, and the right edge of the last (*rightmost*) bin. E.g. : for a 1D sample, for a histo_range equal to [0, 10] and n_bins=4, the bins ranges will be : * [0, 2.5[, [2.5, 5[, [5, 7.5[, [7.5, 10 **[** if last_bin_closed = **False** * [0, 2.5[, [2.5, 5[, [5, 7.5[, [7.5, 10 **]** if last_bin_closed = **True** .... """ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "02/10/2017" import numpy as np from .chistogramnd import chistogramnd as _chistogramnd # noqa from .chistogramnd_lut import histogramnd_get_lut as _histo_get_lut from .chistogramnd_lut import histogramnd_from_lut as _histo_from_lut class Histogramnd(object): """ Computes the multidimensional histogram of some data. """ def __init__(self, sample, histo_range, n_bins, weights=None, weight_min=None, weight_max=None, last_bin_closed=False, wh_dtype=None): """ :param sample: The data to be histogrammed. Its shape must be either (N,) if it contains one dimensional coordinates, or an (N,D) array where the rows are the coordinates of points in a D dimensional space. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. .. warning:: if sample is not a C_CONTIGUOUS ndarray (e.g : a non contiguous slice) then histogramnd will have to do make an internal copy. :type sample: :class:`numpy.array` :param histo_range: A (N, 2) array containing the histogram range along each dimension, where N is the sample's number of dimensions. :type histo_range: array_like :param n_bins: The number of bins : * a scalar (same number of bins for all dimensions) * a D elements array (number of bins for each dimensions) :type n_bins: scalar or array_like :param weights: A N elements numpy array of values associated with each sample. The values of the *weighted_histo* array returned by the function are equal to the sum of the weights associated with the samples falling into each bin. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. .. note:: If None, the weighted histogram returned will be None. :type weights: *optional*, :class:`numpy.array` :param weight_min: Use this parameter to filter out all samples whose weights are lower than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_min: *optional*, scalar :param weight_max: Use this parameter to filter out all samples whose weights are higher than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_max: *optional*, scalar :param last_bin_closed: By default the last bin is half open (i.e.: [x,y) ; x included, y excluded), like all the other bins. Set this parameter to true if you want the LAST bin to be closed. :type last_bin_closed: *optional*, :class:`python.boolean` :param wh_dtype: type of the weighted histogram array. If not provided, the weighted histogram array will contain values of type numpy.double. Allowed values are : `numpy.double` and `numpy.float32` :type wh_dtype: *optional*, numpy data type """ self.__histo_range = histo_range self.__n_bins = n_bins self.__last_bin_closed = last_bin_closed self.__wh_dtype = wh_dtype if sample is None: self.__data = [None, None, None] else: self.__data = _chistogramnd(sample, self.__histo_range, self.__n_bins, weights=weights, weight_min=weight_min, weight_max=weight_max, last_bin_closed=self.__last_bin_closed, wh_dtype=self.__wh_dtype) def __getitem__(self, key): """ If necessary, results can be unpacked from an instance of Histogramnd : *histogram*, *weighted histogram*, *bins edge*. Example : .. code-block:: python histo, w_histo, edges = Histogramnd(sample, histo_range, n_bins, weights) """ return self.__data[key] def accumulate(self, sample, weights=None, weight_min=None, weight_max=None): """ Computes the multidimensional histogram of some data and accumulates it into the histogram held by this instance of Histogramnd. :param sample: The data to be histogrammed. Its shape must be either (N,) if it contains one dimensional coordinates, or an (N,D) array where the rows are the coordinates of points in a D dimensional space. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. .. warning:: if sample is not a C_CONTIGUOUS ndarray (e.g : a non contiguous slice) then histogramnd will have to do make an internal copy. :type sample: :class:`numpy.array` :param weights: A N elements numpy array of values associated with each sample. The values of the *weighted_histo* array returned by the function are equal to the sum of the weights associated with the samples falling into each bin. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. .. note:: If None, the weighted histogram returned will be None. :type weights: *optional*, :class:`numpy.array` :param weight_min: Use this parameter to filter out all samples whose weights are lower than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_min: *optional*, scalar :param weight_max: Use this parameter to filter out all samples whose weights are higher than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_max: *optional*, scalar """ result = _chistogramnd(sample, self.__histo_range, self.__n_bins, weights=weights, weight_min=weight_min, weight_max=weight_max, last_bin_closed=self.__last_bin_closed, histo=self.__data[0], weighted_histo=self.__data[1], wh_dtype=self.__wh_dtype) if self.__data[0] is None: self.__data = result elif self.__data[1] is None and result[1] is not None: self.__data = result histo = property(lambda self: self[0]) """ Histogram array, or None if this instance was initialized without and accumulate has not been called yet. .. note:: this is a **reference** to the array store in this Histogramnd instance, use with caution. """ weighted_histo = property(lambda self: self[1]) """ Weighted Histogram, or None if this instance was initialized without , or no weights have been passed to __init__ nor accumulate. .. note:: this is a **reference** to the array store in this Histogramnd instance, use with caution. """ edges = property(lambda self: self[2]) """ Bins edges, or None if this instance was initialized without and accumulate has not been called yet. """ class HistogramndLut(object): """ The HistogramndLut class allows you to bin data onto a regular grid. The use of HistogramndLut is interesting when several sets of data that share the same coordinates (*sample*) have to be mapped onto the same grid. """ def __init__(self, sample, histo_range, n_bins, last_bin_closed=False, dtype=None): """ :param sample: The coordinates of the data to be histogrammed. Its shape must be either (N,) if it contains one dimensional coordinates, or an (N, D) array where the rows are the coordinates of points in a D dimensional space. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. :type sample: :class:`numpy.array` :param histo_range: A (N, 2) array containing the histogram range along each dimension, where N is the sample's number of dimensions. :type histo_range: array_like :param n_bins: The number of bins : * a scalar (same number of bins for all dimensions) * a D elements array (number of bins for each dimensions) :type n_bins: scalar or array_like :param dtype: data type of the weighted histogram. If None, the data type will be the same as the first weights array provided (on first call of the instance). :type dtype: `numpy.dtype` :param last_bin_closed: By default the last bin is half open (i.e.: [x,y) ; x included, y excluded), like all the other bins. Set this parameter to true if you want the LAST bin to be closed. :type last_bin_closed: *optional*, :class:`python.boolean` """ lut, histo, edges = _histo_get_lut(sample, histo_range, n_bins, last_bin_closed=last_bin_closed) self.__n_bins = np.array(histo.shape) self.__histo_range = histo_range self.__lut = lut self.__histo = None self.__weighted_histo = None self.__edges = edges self.__dtype = dtype self.__shape = histo.shape self.__last_bin_closed = last_bin_closed self.clear() def clear(self): """ Resets the instance (zeroes the histograms). """ self.__weighted_histo = None self.__histo = None @property def lut(self): """ Copy of the Lut """ return self.__lut.copy() def histo(self, copy=True): """ Histogram (a copy of it), or None if `~accumulate` has not been called yet (or clear was just called). If *copy* is set to False then the actual reference to the array is returned *(use with caution)*. """ if copy and self.__histo is not None: return self.__histo.copy() return self.__histo def weighted_histo(self, copy=True): """ Weighted histogram (a copy of it), or None if `~accumulate` has not been called yet (or clear was just called). If *copy* is set to False then the actual reference to the array is returned *(use with caution)*. """ if copy and self.__weighted_histo is not None: return self.__weighted_histo.copy() return self.__weighted_histo @property def histo_range(self): """ Bins ranges. """ return self.__histo_range.copy() @property def n_bins(self): """ Number of bins in each direction. """ return self.__n_bins.copy() @property def bins_edges(self): """ Bins edges of the histograms, one array for each dimensions. """ return tuple([edges[:] for edges in self.__edges]) @property def last_bin_closed(self): """ Returns True if the rightmost bin in each dimension is close (i.e : values equal to the rightmost bin edge is included in the bin). """ return self.__last_bin_closed def accumulate(self, weights, weight_min=None, weight_max=None): """ Computes the multidimensional histogram of some data and adds it to the current histogram stored by this instance. The results can be retrieved with the :attr:`~.histo` and :attr:`~.weighted_histo` properties. :param weights: A numpy array of values associated with each sample. The number of elements in the array must be the same as the number of samples provided at instantiation time. :type histo_range: array_like :param weight_min: Use this parameter to filter out all samples whose weights are lower than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_min: *optional*, scalar :param weight_max: Use this parameter to filter out all samples whose weights are higher than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_max: *optional*, scalar """ if self.__dtype is None: self.__dtype = weights.dtype histo, w_histo = _histo_from_lut(weights, self.__lut, histo=self.__histo, weighted_histo=self.__weighted_histo, shape=self.__shape, dtype=self.__dtype, weight_min=weight_min, weight_max=weight_max) if self.__histo is None: self.__histo = histo if self.__weighted_histo is None: self.__weighted_histo = w_histo def apply_lut(self, weights, histo=None, weighted_histo=None, weight_min=None, weight_max=None): """ Computes the multidimensional histogram of some data and returns the result (it is NOT added to the current histogram stored by this instance). :param weights: A numpy array of values associated with each sample. The number of elements in the array must be the same as the number of samples provided at instantiation time. :type histo_range: array_like :param histo: Use this parameter if you want to pass your own histogram array instead of the one created by this function. New values will be added to this array. The returned array will then be this one. :type histo: *optional*, :class:`numpy.array` :param weighted_histo: Use this parameter if you want to pass your own weighted histogram array instead of the created by this function. New values will be added to this array. The returned array will then be this one (same reference). :type weighted_histo: *optional*, :class:`numpy.array` :param weight_min: Use this parameter to filter out all samples whose weights are lower than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_min: *optional*, scalar :param weight_max: Use this parameter to filter out all samples whose weights are higher than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_max: *optional*, scalar """ histo, w_histo = _histo_from_lut(weights, self.__lut, histo=histo, weighted_histo=weighted_histo, shape=self.__shape, dtype=self.__dtype, weight_min=weight_min, weight_max=weight_max) self.__dtype = w_histo.dtype return histo, w_histo if __name__ == '__main__': pass silx-0.6.1/silx/math/chistogramnd.c0000644023630100076410000504337113202537022017710 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { 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PyMethod_New(func, self) : PyInstanceMethod_New(func)) #else #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) #endif #if CYTHON_USE_ASYNC_SLOTS #if PY_VERSION_HEX >= 0x030500B1 #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async) #else typedef struct { unaryfunc am_await; unaryfunc am_aiter; unaryfunc am_anext; } __Pyx_PyAsyncMethodsStruct; #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved)) #endif #else #define __Pyx_PyType_AsAsync(obj) NULL #endif #ifndef CYTHON_RESTRICT #if defined(__GNUC__) #define CYTHON_RESTRICT __restrict__ #elif defined(_MSC_VER) && _MSC_VER >= 1400 #define CYTHON_RESTRICT __restrict #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_RESTRICT restrict #else #define CYTHON_RESTRICT #endif #endif #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif # elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif #endif #ifndef CYTHON_MAYBE_UNUSED_VAR # if defined(__cplusplus) template void CYTHON_MAYBE_UNUSED_VAR( const T& ) { } # else # define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x) # endif #endif #ifndef CYTHON_NCP_UNUSED # if CYTHON_COMPILING_IN_CPYTHON # define CYTHON_NCP_UNUSED # else # define CYTHON_NCP_UNUSED CYTHON_UNUSED # endif #endif #define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None) #ifndef CYTHON_INLINE #if defined(__clang__) #define CYTHON_INLINE __inline__ __attribute__ ((__unused__)) #elif defined(__GNUC__) #define CYTHON_INLINE __inline__ #elif defined(_MSC_VER) #define CYTHON_INLINE __inline #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_INLINE inline #else #define CYTHON_INLINE #endif #endif #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__math__chistogramnd #define __PYX_HAVE_API__silx__math__chistogramnd #include #include #include #include "numpy/arrayobject.h" #include "numpy/ufuncobject.h" #include "histogramnd_c.h" #include "pythread.h" #include "pystate.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; static PyObject *__pyx_empty_unicode; static int __pyx_lineno; static int __pyx_clineno = 0; static const char * __pyx_cfilenm= __FILE__; static const char *__pyx_filename; /* Header.proto */ #if !defined(CYTHON_CCOMPLEX) #if defined(__cplusplus) #define CYTHON_CCOMPLEX 1 #elif defined(_Complex_I) #define CYTHON_CCOMPLEX 1 #else #define CYTHON_CCOMPLEX 0 #endif #endif #if CYTHON_CCOMPLEX #ifdef __cplusplus #include #else #include #endif #endif #if CYTHON_CCOMPLEX && !defined(__cplusplus) && defined(__sun__) && defined(__GNUC__) #undef _Complex_I #define _Complex_I 1.0fj #endif static const char *__pyx_f[] = { "silx/math/chistogramnd.pyx", "__init__.pxd", "stringsource", "type.pxd", }; /* MemviewSliceStruct.proto */ struct __pyx_memoryview_obj; typedef struct { struct __pyx_memoryview_obj *memview; char *data; Py_ssize_t shape[8]; Py_ssize_t strides[8]; Py_ssize_t suboffsets[8]; } __Pyx_memviewslice; /* BufferFormatStructs.proto */ #define IS_UNSIGNED(type) (((type) -1) > 0) struct __Pyx_StructField_; #define __PYX_BUF_FLAGS_PACKED_STRUCT (1 << 0) typedef struct { const char* name; struct __Pyx_StructField_* fields; size_t size; size_t arraysize[8]; int ndim; char typegroup; char is_unsigned; int flags; } __Pyx_TypeInfo; typedef struct __Pyx_StructField_ { __Pyx_TypeInfo* type; const char* name; size_t offset; } __Pyx_StructField; typedef struct { __Pyx_StructField* field; size_t parent_offset; } __Pyx_BufFmt_StackElem; typedef struct { __Pyx_StructField root; __Pyx_BufFmt_StackElem* head; size_t fmt_offset; size_t new_count, enc_count; size_t struct_alignment; int is_complex; char enc_type; char new_packmode; char enc_packmode; char is_valid_array; } __Pyx_BufFmt_Context; /* Atomics.proto */ #include #ifndef CYTHON_ATOMICS #define CYTHON_ATOMICS 1 #endif #define __pyx_atomic_int_type int #if CYTHON_ATOMICS && __GNUC__ >= 4 && (__GNUC_MINOR__ > 1 ||\ (__GNUC_MINOR__ == 1 && __GNUC_PATCHLEVEL >= 2)) &&\ !defined(__i386__) #define __pyx_atomic_incr_aligned(value, lock) __sync_fetch_and_add(value, 1) #define __pyx_atomic_decr_aligned(value, lock) __sync_fetch_and_sub(value, 1) #ifdef __PYX_DEBUG_ATOMICS #warning "Using GNU atomics" #endif #elif CYTHON_ATOMICS && defined(_MSC_VER) && 0 #include #undef __pyx_atomic_int_type #define __pyx_atomic_int_type LONG #define __pyx_atomic_incr_aligned(value, lock) InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #pragma message ("Using MSVC atomics") #endif #elif CYTHON_ATOMICS && (defined(__ICC) || defined(__INTEL_COMPILER)) && 0 #define __pyx_atomic_incr_aligned(value, lock) _InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) _InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #warning "Using Intel atomics" #endif #else #undef CYTHON_ATOMICS #define CYTHON_ATOMICS 0 #ifdef __PYX_DEBUG_ATOMICS #warning "Not using atomics" #endif #endif typedef volatile __pyx_atomic_int_type __pyx_atomic_int; #if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t */ typedef npy_int8 __pyx_t_5numpy_int8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t */ typedef npy_int16 __pyx_t_5numpy_int16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":727 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< * ctypedef npy_int64 int64_t * #ctypedef npy_int96 int96_t */ typedef npy_int32 __pyx_t_5numpy_int32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":728 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< * #ctypedef npy_int96 int96_t * #ctypedef npy_int128 int128_t */ typedef npy_int64 __pyx_t_5numpy_int64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":734 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< * ctypedef npy_uint64 uint64_t * #ctypedef npy_uint96 uint96_t */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":735 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< * #ctypedef npy_uint96 uint96_t * #ctypedef npy_uint128 uint128_t */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":739 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< * ctypedef npy_float64 float64_t * #ctypedef npy_float80 float80_t */ typedef npy_float32 __pyx_t_5numpy_float32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":740 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< * #ctypedef npy_float80 float80_t * #ctypedef npy_float128 float128_t */ typedef npy_float64 __pyx_t_5numpy_float64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t */ typedef npy_long __pyx_t_5numpy_int_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":750 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< * ctypedef npy_longlong longlong_t * */ typedef npy_longlong __pyx_t_5numpy_long_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< * * ctypedef npy_ulong uint_t */ typedef npy_longlong __pyx_t_5numpy_longlong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t */ typedef npy_ulong __pyx_t_5numpy_uint_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":754 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulonglong_t * */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< * * ctypedef npy_intp intp_t */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":757 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< * ctypedef npy_uintp uintp_t * */ typedef npy_intp __pyx_t_5numpy_intp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< * * ctypedef npy_double float_t */ typedef npy_uintp __pyx_t_5numpy_uintp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t */ typedef npy_double __pyx_t_5numpy_float_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":761 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< * ctypedef npy_longdouble longdouble_t * */ typedef npy_double __pyx_t_5numpy_double_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cfloat cfloat_t */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; /* Declarations.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus typedef ::std::complex< float > __pyx_t_float_complex; #else typedef float _Complex __pyx_t_float_complex; 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/* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* PyObjectCallMethO.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg); #endif /* PyObjectCallOneArg.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\ PyObject_RichCompare(op1, op2, Py_EQ) #endif /* PyObjectSetAttrStr.proto */ #if CYTHON_USE_TYPE_SLOTS #define __Pyx_PyObject_DelAttrStr(o,n) __Pyx_PyObject_SetAttrStr(o,n,NULL) static CYTHON_INLINE int __Pyx_PyObject_SetAttrStr(PyObject* obj, PyObject* attr_name, PyObject* value) { PyTypeObject* tp = Py_TYPE(obj); if (likely(tp->tp_setattro)) return tp->tp_setattro(obj, attr_name, value); #if PY_MAJOR_VERSION < 3 if (likely(tp->tp_setattr)) return tp->tp_setattr(obj, PyString_AS_STRING(attr_name), value); #endif return PyObject_SetAttr(obj, attr_name, value); } #else #define __Pyx_PyObject_DelAttrStr(o,n) PyObject_DelAttr(o,n) #define __Pyx_PyObject_SetAttrStr(o,n,v) PyObject_SetAttr(o,n,v) #endif /* PySequenceContains.proto */ static CYTHON_INLINE int __Pyx_PySequence_ContainsTF(PyObject* item, PyObject* seq, int eq) { int result = PySequence_Contains(seq, item); return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); } /* PyObjectCallNoArg.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func); #else #define __Pyx_PyObject_CallNoArg(func) __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL) #endif /* FetchCommonType.proto */ static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type); /* CythonFunction.proto */ #define __Pyx_CyFunction_USED 1 #include #define __Pyx_CYFUNCTION_STATICMETHOD 0x01 #define __Pyx_CYFUNCTION_CLASSMETHOD 0x02 #define __Pyx_CYFUNCTION_CCLASS 0x04 #define __Pyx_CyFunction_GetClosure(f)\ (((__pyx_CyFunctionObject *) (f))->func_closure) #define __Pyx_CyFunction_GetClassObj(f)\ (((__pyx_CyFunctionObject *) (f))->func_classobj) #define __Pyx_CyFunction_Defaults(type, f)\ ((type *)(((__pyx_CyFunctionObject *) (f))->defaults)) #define __Pyx_CyFunction_SetDefaultsGetter(f, g)\ ((__pyx_CyFunctionObject *) (f))->defaults_getter = (g) typedef struct { PyCFunctionObject func; #if PY_VERSION_HEX < 0x030500A0 PyObject *func_weakreflist; #endif PyObject *func_dict; PyObject *func_name; PyObject *func_qualname; PyObject *func_doc; PyObject *func_globals; PyObject *func_code; PyObject *func_closure; PyObject *func_classobj; void *defaults; int defaults_pyobjects; int flags; PyObject *defaults_tuple; PyObject *defaults_kwdict; PyObject *(*defaults_getter)(PyObject *); PyObject *func_annotations; } __pyx_CyFunctionObject; static PyTypeObject *__pyx_CyFunctionType = 0; #define __Pyx_CyFunction_NewEx(ml, flags, qualname, self, module, globals, code)\ __Pyx_CyFunction_New(__pyx_CyFunctionType, ml, flags, qualname, self, module, globals, code) static PyObject *__Pyx_CyFunction_New(PyTypeObject *, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject* code); static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *m, size_t size, int pyobjects); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *m, PyObject *tuple); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *m, PyObject *dict); static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *m, PyObject *dict); static int __pyx_CyFunction_init(void); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* SliceObject.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_GetSlice( PyObject* obj, Py_ssize_t cstart, Py_ssize_t cstop, PyObject** py_start, PyObject** py_stop, PyObject** py_slice, int has_cstart, int has_cstop, int wraparound); /* DictGetItem.proto */ #if PY_MAJOR_VERSION >= 3 && !CYTHON_COMPILING_IN_PYPY static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* ArgTypeTest.proto */ static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /* IncludeStringH.proto */ #include /* BytesEquals.proto */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals); /* UnicodeEquals.proto */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals); /* StrEquals.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Equals __Pyx_PyUnicode_Equals #else #define __Pyx_PyString_Equals __Pyx_PyBytes_Equals #endif /* None.proto */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t, Py_ssize_t); /* UnaryNegOverflows.proto */ #define UNARY_NEG_WOULD_OVERFLOW(x)\ (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *); /*proto*/ /* GetAttr.proto */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_histo_opt_type(histo_opt_type value); /* RealImag.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus #define __Pyx_CREAL(z) ((z).real()) #define __Pyx_CIMAG(z) ((z).imag()) #else #define __Pyx_CREAL(z) (__real__(z)) #define __Pyx_CIMAG(z) (__imag__(z)) #endif #else #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif #if defined(__cplusplus) && CYTHON_CCOMPLEX\ && (defined(_WIN32) || defined(__clang__) || (defined(__GNUC__) && (__GNUC__ >= 5 || __GNUC__ == 4 && __GNUC_MINOR__ >= 4 )) || __cplusplus >= 201103) #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_float(a, b) ((a)==(b)) #define __Pyx_c_sum_float(a, b) ((a)+(b)) #define __Pyx_c_diff_float(a, b) ((a)-(b)) #define __Pyx_c_prod_float(a, b) ((a)*(b)) #define __Pyx_c_quot_float(a, b) ((a)/(b)) #define __Pyx_c_neg_float(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_float(z) ((z)==(float)0) #define __Pyx_c_conj_float(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_float(z) (::std::abs(z)) #define __Pyx_c_pow_float(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_float(z) ((z)==0) #define __Pyx_c_conj_float(z) (conjf(z)) #if 1 #define __Pyx_c_abs_float(z) (cabsf(z)) #define __Pyx_c_pow_float(a, b) (cpowf(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex); static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex); #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex, __pyx_t_float_complex); #endif #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_double(a, b) ((a)==(b)) #define __Pyx_c_sum_double(a, b) ((a)+(b)) #define __Pyx_c_diff_double(a, b) ((a)-(b)) #define __Pyx_c_prod_double(a, b) ((a)*(b)) #define __Pyx_c_quot_double(a, b) ((a)/(b)) #define __Pyx_c_neg_double(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_double(z) ((z)==(double)0) #define __Pyx_c_conj_double(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_double(z) (::std::abs(z)) #define __Pyx_c_pow_double(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_double(z) ((z)==0) #define __Pyx_c_conj_double(z) (conj(z)) #if 1 #define __Pyx_c_abs_double(z) (cabs(z)) #define __Pyx_c_pow_double(a, b) (cpow(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex); static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex); #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex, __pyx_t_double_complex); #endif #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE npy_int32 __Pyx_PyInt_As_npy_int32(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_double(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_int(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_uint32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_float(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int32_t(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* PyIdentifierFromString.proto */ #if !defined(__Pyx_PyIdentifier_FromString) #if PY_MAJOR_VERSION < 3 #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) #else #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) #endif #endif /* ModuleImport.proto */ static PyObject *__Pyx_ImportModule(const char *name); /* TypeImport.proto */ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cpython.buffer' */ /* Module declarations from 'libc.string' */ /* Module declarations from 'libc.stdio' */ /* Module declarations from '__builtin__' */ /* Module declarations from 'cpython.type' */ static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; /* Module declarations from 'cpython' */ /* Module declarations from 'cpython.object' */ /* Module declarations from 'cpython.ref' */ /* Module declarations from 'libc.stdlib' */ /* Module declarations from 'numpy' */ /* Module declarations from 'numpy' */ static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'silx.math.histogramnd_c' */ /* Module declarations from 'silx.math.chistogramnd' */ static PyTypeObject *__pyx_ptype_4silx_4math_12chistogramnd___pyx_scope_struct__chistogramnd = 0; static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_double_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, double, double); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_float_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, float, float); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_int32_t_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, __pyx_t_5numpy_int32_t, __pyx_t_5numpy_int32_t); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_double_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, double, double); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_float_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, float, float); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_int32_t_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, __pyx_t_5numpy_int32_t, __pyx_t_5numpy_int32_t); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_double_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, double, double); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_float_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, float, float); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_int32_t_double(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, __pyx_t_5numpy_int32_t, __pyx_t_5numpy_int32_t); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_double_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, double, double); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_float_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, float, float); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_int32_t_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, __pyx_t_5numpy_int32_t, __pyx_t_5numpy_int32_t); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_double_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, double, double); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_float_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, float, float); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_int32_t_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, __pyx_t_5numpy_int32_t, __pyx_t_5numpy_int32_t); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_double_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, double, double); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_float_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, float, float); /*proto*/ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_int32_t_float(__Pyx_memviewslice, __Pyx_memviewslice, int, int, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, int, __pyx_t_5numpy_int32_t, __pyx_t_5numpy_int32_t); /*proto*/ static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_int = { "int", NULL, sizeof(int), { 0 }, 0, IS_UNSIGNED(int) ? 'U' : 'I', IS_UNSIGNED(int), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_uint32_t = { "uint32_t", NULL, sizeof(__pyx_t_5numpy_uint32_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_uint32_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_uint32_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t = { "int32_t", NULL, sizeof(__pyx_t_5numpy_int32_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int32_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int32_t), 0 }; #define __Pyx_MODULE_NAME "silx.math.chistogramnd" int __pyx_module_is_main_silx__math__chistogramnd = 0; /* Implementation of 'silx.math.chistogramnd' */ static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_RuntimeError; static PyObject *__pyx_builtin_ImportError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_N[] = "N"; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_np[] = "np"; static const char __pyx_k_rc[] = "rc"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_any[] = "any"; static const char __pyx_k_inf[] = "inf"; static const char __pyx_k_nan[] = "nan"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_sum[] = "sum"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_tile[] = "tile"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_edges[] = "edges"; static const char __pyx_k_equal[] = "equal"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_histo[] = "histo"; static const char __pyx_k_i_dim[] = "i_dim"; static const char __pyx_k_int32[] = "int32"; static const char __pyx_k_ndmin[] = "ndmin"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_zeros[] = "zeros"; static const char __pyx_k_double[] = "double"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_n_bins[] = "n_bins"; static const char __pyx_k_n_dims[] = "n_dims"; static const char __pyx_k_n_elem[] = "n_elem"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_offset[] = "offset"; static const char __pyx_k_sample[] = "sample"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_uint32[] = "uint32"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_cumul_c[] = "cumul_c"; static const char __pyx_k_float32[] = "float32"; static const char __pyx_k_float64[] = "float64"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_histo_c[] = "histo_c"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_s_shape[] = "s_shape"; static const char __pyx_k_w_shape[] = "w_shape"; static const char __pyx_k_weights[] = "weights"; static const char __pyx_k_D_Naudet[] = "D. Naudet"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_n_bins_c[] = "n_bins_c"; static const char __pyx_k_sample_c[] = "sample_c"; static const char __pyx_k_wh_dtype[] = "wh_dtype"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_bin_edges[] = "bin_edges"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_weights_c[] = "weights_c"; static const char __pyx_k_02_10_2017[] = "02/10/2017"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_weight_max[] = "weight_max"; static const char __pyx_k_weight_min[] = "weight_min"; static const char __pyx_k_ImportError[] = "ImportError"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_bin_edges_c[] = "bin_edges_c"; static const char __pyx_k_histo_range[] = "histo_range"; static const char __pyx_k_sample_type[] = "sample_type"; static const char __pyx_k_C_CONTIGUOUS[] = "C_CONTIGUOUS"; static const char __pyx_k_RuntimeError[] = "RuntimeError"; static const char __pyx_k_chistogramnd[] = "chistogramnd"; static const char __pyx_k_newbyteorder[] = "newbyteorder"; static const char __pyx_k_option_flags[] = "option_flags"; static const char __pyx_k_output_shape[] = "output_shape"; static const char __pyx_k_weights_type[] = "weights_type"; static const char __pyx_k_histo_range_c[] = "histo_range_c"; static const char __pyx_k_i_histo_range[] = "i_histo_range"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_weighted_histo[] = "weighted_histo"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_err_histo_range[] = "err_histo_range"; static const char __pyx_k_last_bin_closed[] = "last_bin_closed"; static const char __pyx_k_ascontiguousarray[] = "ascontiguousarray"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_raise_unsupported_type[] = "raise_unsupported_type"; static const char __pyx_k_silx_math_chistogramnd[] = "silx.math.chistogramnd"; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Range_value_can_t_be_nan[] = "Range value can't be nan"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_wh_dtype_type_not_supported_0[] = " type not supported : {0}."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_weights_must_be_an_array_whose[] = " must be an array whose length is equal to the number of samples."; static const char __pyx_k_Case_not_supported_sample_0_and[] = "Case not supported - sample:{0} and weights:{1}."; static const char __pyx_k_histo_must_be_a_C_CONTIGUOUS_nu[] = " must be a C_CONTIGUOUS numpy array."; static const char __pyx_k_histo_range_error_expected_n_di[] = " error : expected {n_dims} sets of lower and upper bin edges, got the following instead : {histo_range}. (provided contains {n_dims}D values)"; static const char __pyx_k_histogramnd_returned_an_error_0[] = "histogramnd returned an error : {0}"; static const char __pyx_k_n_bins_only_positive_values_all[] = " : only positive values allowed."; static const char __pyx_k_numpy_core_multiarray_failed_to[] = "numpy.core.multiarray failed to import"; static const char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/math/chistogramnd.pyx"; static const char __pyx_k_weighted_histo_must_be_a_C_CONT[] = " must be a C_CONTIGUOUS numpy array."; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_Provided_histo_array_doesn_t_hav[] = "Provided array doesn't have a shape compatible with : should be {0} instead of {1}."; static const char __pyx_k_Provided_weighted_histo_array_do[] = "Provided array doesn't have a shape compatible with : should be {0} instead of {1}."; static const char __pyx_k_Range_parameter_should_be_finite[] = "Range parameter should be finite value"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_chistogramnd_locals_raise_unsupp[] = "chistogramnd..raise_unsupported_type"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_histogramnd_failed_to_allocate_m[] = "histogramnd failed to allocate memory."; static const char __pyx_k_n_bins_must_be_either_a_scalar_s[] = "n_bins must be either a scalar (same number of bins for all dimensions) or an array (number of bins for each dimension)."; static const char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; static const char __pyx_k_numpy_core_umath_failed_to_impor[] = "numpy.core.umath failed to import"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static const char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; static const char __pyx_k_Provided_histo_array_doesn_t_hav_2[] = "Provided array doesn't have the expected type : should be {0} instead of {1}."; static const char __pyx_k_Provided_weighted_histo_array_do_2[] = "Provided array doesn't have the expected type : should be {0} or {1} instead of {2}."; static PyObject *__pyx_kp_s_02_10_2017; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_n_s_C_CONTIGUOUS; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_kp_s_Case_not_supported_sample_0_and; static PyObject *__pyx_kp_s_D_Naudet; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; static PyObject *__pyx_n_s_ImportError; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_n_s_N; static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_Provided_histo_array_doesn_t_hav; static PyObject *__pyx_kp_s_Provided_histo_array_doesn_t_hav_2; static PyObject *__pyx_kp_s_Provided_weighted_histo_array_do; static PyObject *__pyx_kp_s_Provided_weighted_histo_array_do_2; static PyObject *__pyx_kp_s_Range_parameter_should_be_finite; static PyObject *__pyx_kp_s_Range_value_can_t_be_nan; static PyObject *__pyx_n_s_RuntimeError; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_any; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_ascontiguousarray; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_bin_edges; static PyObject *__pyx_n_s_bin_edges_c; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_chistogramnd; static PyObject *__pyx_n_s_chistogramnd_locals_raise_unsupp; static PyObject *__pyx_n_s_class; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_cumul_c; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_double; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_edges; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_equal; static PyObject *__pyx_n_s_err_histo_range; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float32; static PyObject *__pyx_n_s_float64; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_histo; static PyObject *__pyx_n_s_histo_c; static PyObject *__pyx_kp_s_histo_must_be_a_C_CONTIGUOUS_nu; static PyObject *__pyx_n_s_histo_range; static PyObject *__pyx_n_s_histo_range_c; static PyObject *__pyx_kp_s_histo_range_error_expected_n_di; static PyObject *__pyx_kp_s_histogramnd_failed_to_allocate_m; static PyObject *__pyx_kp_s_histogramnd_returned_an_error_0; static PyObject *__pyx_n_s_i_dim; static PyObject *__pyx_n_s_i_histo_range; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_inf; static PyObject *__pyx_n_s_int32; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_last_bin_closed; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_n_bins; static PyObject *__pyx_n_s_n_bins_c; static PyObject *__pyx_kp_s_n_bins_must_be_either_a_scalar_s; static PyObject *__pyx_kp_s_n_bins_only_positive_values_all; static PyObject *__pyx_n_s_n_dims; static PyObject *__pyx_n_s_n_elem; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_nan; static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_ndmin; static PyObject *__pyx_n_s_newbyteorder; static PyObject *__pyx_n_s_np; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_kp_s_numpy_core_multiarray_failed_to; static PyObject *__pyx_kp_s_numpy_core_umath_failed_to_impor; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_offset; static PyObject *__pyx_n_s_option_flags; static PyObject *__pyx_n_s_output_shape; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_raise_unsupported_type; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_rc; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_s_shape; static PyObject *__pyx_n_s_sample; static PyObject *__pyx_n_s_sample_c; static PyObject *__pyx_n_s_sample_type; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_silx_math_chistogramnd; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_sum; static PyObject *__pyx_n_s_test; static PyObject *__pyx_n_s_tile; static PyObject *__pyx_n_s_uint32; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_kp_u_unknown_dtype_code_in_numpy_pxd; static PyObject *__pyx_n_s_unpack; static PyObject *__pyx_kp_s_users_kieffer_workspace_400_rel; static PyObject *__pyx_n_s_w_shape; static PyObject *__pyx_n_s_weight_max; static PyObject *__pyx_n_s_weight_min; static PyObject *__pyx_n_s_weighted_histo; static PyObject *__pyx_kp_s_weighted_histo_must_be_a_C_CONT; static PyObject *__pyx_n_s_weights; static PyObject *__pyx_n_s_weights_c; static PyObject *__pyx_kp_s_weights_must_be_an_array_whose; static PyObject *__pyx_n_s_weights_type; static PyObject *__pyx_n_s_wh_dtype; static PyObject *__pyx_kp_s_wh_dtype_type_not_supported_0; static PyObject *__pyx_n_s_zeros; static PyObject *__pyx_pf_4silx_4math_12chistogramnd_12chistogramnd_raise_unsupported_type(PyObject *__pyx_self); /* proto */ static PyObject *__pyx_pf_4silx_4math_12chistogramnd_chistogramnd(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_sample, PyObject *__pyx_v_histo_range, PyObject *__pyx_v_n_bins, PyObject *__pyx_v_weights, PyObject *__pyx_v_weight_min, PyObject *__pyx_v_weight_max, PyObject *__pyx_v_last_bin_closed, PyObject *__pyx_v_histo, PyObject *__pyx_v_weighted_histo, PyObject *__pyx_v_wh_dtype); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array___cinit__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_shape, Py_ssize_t __pyx_v_itemsize, PyObject *__pyx_v_format, PyObject *__pyx_v_mode, int __pyx_v_allocate_buffer); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_2__getbuffer__(struct __pyx_array_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_array___pyx_pf_15View_dot_MemoryView_5array_4__dealloc__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_5array_7memview___get__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_6__getattr__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_attr); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_8__getitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_10__setitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item, PyObject *__pyx_v_value); /* proto */ static int __pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum___init__(struct __pyx_MemviewEnum_obj *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum_2__repr__(struct __pyx_MemviewEnum_obj *__pyx_v_self); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview___cinit__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj, int __pyx_v_flags, int __pyx_v_dtype_is_object); /* proto */ static void __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_2__dealloc__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_4__getitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_6__setitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_8__getbuffer__(struct __pyx_memoryview_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_1T___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4base___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_5shape___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_7strides___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_10suboffsets___get__(struct __pyx_memoryview_obj *__pyx_v_self); 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/*proto*/ static char __pyx_doc_4silx_4math_12chistogramnd_chistogramnd[] = "chistogramnd(sample, histo_range, n_bins, weights=None, weight_min=None, weight_max=None, last_bin_closed=False, histo=None, weighted_histo=None, wh_dtype=None)\nComputes the multidimensional histogram of some data.\n\n :param sample:\n The data to be histogrammed.\n Its shape must be either\n (N,) if it contains one dimensional coordinates,\n or an (N,D) array where the rows are the\n coordinates of points in a D dimensional space.\n The following dtypes are supported : :class:`numpy.float64`,\n :class:`numpy.float32`, :class:`numpy.int32`.\n\n .. warning:: if sample is not a C_CONTIGUOUS ndarray (e.g : a non\n contiguous slice) then histogramnd will have to do make an internal\n copy.\n :type sample: :class:`numpy.array`\n\n :param histo_range:\n A (N, 2) array containing the histogram range along each dimension,\n where N is the sample's number of dimensions.\n :type histo_range: array_like\n\n :param n_bins:\n The number of bins :\n * a scalar (same number of bins for all dimensions)\n * a D elements array (number of bins for each dimensions)\n :type n_bins: scalar or array_like\n\n :param weights:\n A N elements numpy array of values associated with\n each sample.\n The values of the *weighted_histo* array\n returned by the function are equal to the sum of\n the weights associated with the samples falling\n into each bin.\n The following dtypes are supported : :class:`numpy.float64`,\n :class:`numpy.float32`, :class:`numpy.int32`.\n\n .. note:: If None, the weighted histogram returned will be None.\n :type weights: *optional*, :class:`numpy.array`\n\n :param weight_min:\n Use this parameter to filter out all samples whose\n weights are lower than this value.\n\n .. note:: This value will be cast to the same type\n as *weig""hts*.\n :type weight_min: *optional*, scalar\n\n :param weight_max:\n Use this parameter to filter out all samples whose\n weights are higher than this value.\n\n .. note:: This value will be cast to the same type\n as *weights*.\n\n :type weight_max: *optional*, scalar\n\n :param last_bin_closed:\n By default the last bin is half\n open (i.e.: [x,y) ; x included, y\n excluded), like all the other bins.\n Set this parameter to true if you want\n the LAST bin to be closed.\n :type last_bin_closed: *optional*, :class:`python.boolean`\n\n :param histo:\n Use this parameter if you want to pass your\n own histogram array instead of the one\n created by this function. New values\n will be added to this array. The returned array\n will then be this one (same reference).\n\n .. warning:: If the histo array was created by a previous\n call to histogramnd then the user is\n responsible for providing the same parameters\n (*n_bins*, *histo_range*, ...).\n :type histo: *optional*, :class:`numpy.array`\n\n :param weighted_histo:\n Use this parameter if you want to pass your\n own weighted histogram array instead of\n the created by this function. New\n values will be added to this array. The returned array\n will then be this one (same reference).\n\n .. warning:: If the weighted_histo array was created by a previous\n call to histogramnd then the user is\n responsible for providing the same parameters\n (*n_bins*, *histo_range*, ...).\n\n .. warning:: if weighted_histo is not a C_CONTIGUOUS ndarray (e.g : a\n non contiguous slice) then histogramnd will have to do make an\n internal copy.\n :type weighted_histo: *optional*, :class:`numpy.array`\n\n :param wh_dtype: type of the weighted histogram array. This ""parameter is\n ignored if *weighted_histo* is provided. If not provided, the\n weighted histogram array will contain values of the same type as\n *weights*. 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goto __pyx_L0; /* "silx/math/chistogramnd.pyx":706 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_float_double(double[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":737 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_int32_t_double(double[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_int32_t_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, __pyx_t_5numpy_int32_t __pyx_v_weight_min, __pyx_t_5numpy_int32_t __pyx_v_weight_max) { int __pyx_r; 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/* "silx/math/chistogramnd.pyx":758 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":750 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_double_int32_t_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_double_int32_t_double((&(*((double *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":737 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_int32_t_double(double[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":773 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_double_double(float[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_double_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, double __pyx_v_weight_min, double __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":786 * double weight_max) nogil: * * return histogramnd_c.histogramnd_float_double_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":787 * * return histogramnd_c.histogramnd_float_double_double(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":790 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":791 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":792 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":793 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":794 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":786 * double weight_max) nogil: * * return histogramnd_c.histogramnd_float_double_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_float_double_double((&(*((float *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":773 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_double_double(float[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":804 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_float_double(float[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_float_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, float __pyx_v_weight_min, float __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":817 * float weight_max) nogil: * * return histogramnd_c.histogramnd_float_float_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":818 * * return histogramnd_c.histogramnd_float_float_double(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":821 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":822 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":823 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":824 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":825 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":817 * float weight_max) nogil: * * return histogramnd_c.histogramnd_float_float_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_float_float_double((&(*((float *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":804 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_float_double(float[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":835 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_int32_t_double(float[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_int32_t_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, __pyx_t_5numpy_int32_t __pyx_v_weight_min, __pyx_t_5numpy_int32_t __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":848 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_float_int32_t_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":849 * * return histogramnd_c.histogramnd_float_int32_t_double(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":852 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":853 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":854 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":855 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":856 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":848 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_float_int32_t_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_float_int32_t_double((&(*((float *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":835 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_int32_t_double(float[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":871 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_double_double(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_double_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, double __pyx_v_weight_min, double __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":884 * double weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_double_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":885 * * return histogramnd_c.histogramnd_int32_t_double_double(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":888 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":889 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":890 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":891 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":892 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":884 * double weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_double_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_int32_t_double_double((&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":871 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_double_double(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":902 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_float_double(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_float_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, float __pyx_v_weight_min, float __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":915 * float weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_float_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":916 * * return histogramnd_c.histogramnd_int32_t_float_double(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":919 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":920 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":921 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":922 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":923 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":915 * float weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_float_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_int32_t_float_double((&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":902 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_float_double(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":933 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_int32_t_double(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_int32_t_double(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, __pyx_t_5numpy_int32_t __pyx_v_weight_min, __pyx_t_5numpy_int32_t __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":946 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_int32_t_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":947 * * return histogramnd_c.histogramnd_int32_t_int32_t_double(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":950 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":951 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":952 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":953 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":954 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":946 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_int32_t_double(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_int32_t_int32_t_double((&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":933 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_int32_t_double(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":969 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_double_float(double[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_double_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, double __pyx_v_weight_min, double __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":982 * double weight_max) nogil: * * return histogramnd_c.histogramnd_double_double_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":983 * * return histogramnd_c.histogramnd_double_double_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":986 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":987 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":988 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":989 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":990 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":982 * double weight_max) nogil: * * return histogramnd_c.histogramnd_double_double_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_double_double_float((&(*((double *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":969 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_double_float(double[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1000 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_float_float(double[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_float_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, float __pyx_v_weight_min, float __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1013 * float weight_max) nogil: * * return histogramnd_c.histogramnd_double_float_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1014 * * return histogramnd_c.histogramnd_double_float_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1017 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1018 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1019 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1020 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1021 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1013 * float weight_max) nogil: * * return histogramnd_c.histogramnd_double_float_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_double_float_float((&(*((double *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1000 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_float_float(double[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1031 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_int32_t_float(double[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_double_int32_t_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, __pyx_t_5numpy_int32_t __pyx_v_weight_min, __pyx_t_5numpy_int32_t __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1044 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_double_int32_t_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1045 * * return histogramnd_c.histogramnd_double_int32_t_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1048 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1049 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1050 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1051 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1052 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1044 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_double_int32_t_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_double_int32_t_float((&(*((double *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1031 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_double_int32_t_float(double[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1067 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_double_float(float[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_double_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, double __pyx_v_weight_min, double __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1080 * double weight_max) nogil: * * return histogramnd_c.histogramnd_float_double_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1081 * * return histogramnd_c.histogramnd_float_double_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1084 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1085 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1086 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1087 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1088 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1080 * double weight_max) nogil: * * return histogramnd_c.histogramnd_float_double_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_float_double_float((&(*((float *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1067 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_double_float(float[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1098 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_float_float(float[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_float_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, float __pyx_v_weight_min, float __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1111 * float weight_max) nogil: * * return histogramnd_c.histogramnd_float_float_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1112 * * return histogramnd_c.histogramnd_float_float_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1115 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1116 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1117 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1118 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1119 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1111 * float weight_max) nogil: * * return histogramnd_c.histogramnd_float_float_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_float_float_float((&(*((float *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1098 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_float_float(float[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1129 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_int32_t_float(float[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_float_int32_t_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, __pyx_t_5numpy_int32_t __pyx_v_weight_min, __pyx_t_5numpy_int32_t __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1142 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_float_int32_t_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1143 * * return histogramnd_c.histogramnd_float_int32_t_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1146 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1147 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1148 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1149 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1150 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1142 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_float_int32_t_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_float_int32_t_float((&(*((float *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1129 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_float_int32_t_float(float[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1165 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_double_float(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_double_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, double __pyx_v_weight_min, double __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1178 * double weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_double_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1179 * * return histogramnd_c.histogramnd_int32_t_double_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1182 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1183 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1184 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1185 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1186 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1178 * double weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_double_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_int32_t_double_float((&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1165 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_double_float(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * double[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1196 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_float_float(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_float_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, float __pyx_v_weight_min, float __pyx_v_weight_max) { int __pyx_r; Py_ssize_t __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; Py_ssize_t __pyx_t_6; Py_ssize_t __pyx_t_7; /* "silx/math/chistogramnd.pyx":1209 * float weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_float_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_t_1 = 0; /* "silx/math/chistogramnd.pyx":1210 * * return histogramnd_c.histogramnd_int32_t_float_float(&sample[0], * &weights[0], # <<<<<<<<<<<<<< * n_dims, * n_elem, */ __pyx_t_2 = 0; /* "silx/math/chistogramnd.pyx":1213 * n_dims, * n_elem, * &histo_range[0], # <<<<<<<<<<<<<< * &n_bins[0], * &histo[0], */ __pyx_t_3 = 0; /* "silx/math/chistogramnd.pyx":1214 * n_elem, * &histo_range[0], * &n_bins[0], # <<<<<<<<<<<<<< * &histo[0], * &cumul[0], */ __pyx_t_4 = 0; /* "silx/math/chistogramnd.pyx":1215 * &histo_range[0], * &n_bins[0], * &histo[0], # <<<<<<<<<<<<<< * &cumul[0], * &bin_edges[0], */ __pyx_t_5 = 0; /* "silx/math/chistogramnd.pyx":1216 * &n_bins[0], * &histo[0], * &cumul[0], # <<<<<<<<<<<<<< * &bin_edges[0], * option_flags, */ __pyx_t_6 = 0; /* "silx/math/chistogramnd.pyx":1217 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1209 * float weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_float_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_int32_t_float_float((&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); goto __pyx_L0; /* "silx/math/chistogramnd.pyx":1196 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_float_float(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * float[:] weights, * int n_dims, */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "silx/math/chistogramnd.pyx":1227 * @cython.initializedcheck(False) * @cython.nonecheck(False) * cdef int _histogramnd_int32_t_int32_t_float(numpy.int32_t[:] sample, # <<<<<<<<<<<<<< * numpy.int32_t[:] weights, * int n_dims, */ static int __pyx_f_4silx_4math_12chistogramnd__histogramnd_int32_t_int32_t_float(__Pyx_memviewslice __pyx_v_sample, __Pyx_memviewslice __pyx_v_weights, int __pyx_v_n_dims, int __pyx_v_n_elem, __Pyx_memviewslice __pyx_v_histo_range, __Pyx_memviewslice __pyx_v_n_bins, __Pyx_memviewslice __pyx_v_histo, __Pyx_memviewslice __pyx_v_cumul, __Pyx_memviewslice __pyx_v_bin_edges, int __pyx_v_option_flags, __pyx_t_5numpy_int32_t __pyx_v_weight_min, __pyx_t_5numpy_int32_t __pyx_v_weight_max) { int __pyx_r; 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/* "silx/math/chistogramnd.pyx":1248 * &histo[0], * &cumul[0], * &bin_edges[0], # <<<<<<<<<<<<<< * option_flags, * weight_min, */ __pyx_t_7 = 0; /* "silx/math/chistogramnd.pyx":1240 * numpy.int32_t weight_max) nogil: * * return histogramnd_c.histogramnd_int32_t_int32_t_float(&sample[0], # <<<<<<<<<<<<<< * &weights[0], * n_dims, */ __pyx_r = histogramnd_int32_t_int32_t_float((&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_sample.data + __pyx_t_1 * __pyx_v_sample.strides[0]) )))), (&(*((__pyx_t_5numpy_int32_t *) ( /* dim=0 */ (__pyx_v_weights.data + __pyx_t_2 * __pyx_v_weights.strides[0]) )))), __pyx_v_n_dims, __pyx_v_n_elem, (&(*((double *) ( /* dim=0 */ (__pyx_v_histo_range.data + __pyx_t_3 * __pyx_v_histo_range.strides[0]) )))), (&(*((int *) ( /* dim=0 */ (__pyx_v_n_bins.data + __pyx_t_4 * __pyx_v_n_bins.strides[0]) )))), (&(*((__pyx_t_5numpy_uint32_t *) ( /* dim=0 */ (__pyx_v_histo.data + __pyx_t_5 * __pyx_v_histo.strides[0]) )))), (&(*((float *) ( /* dim=0 */ (__pyx_v_cumul.data + __pyx_t_6 * __pyx_v_cumul.strides[0]) )))), (&(*((double *) ( /* dim=0 */ (__pyx_v_bin_edges.data + __pyx_t_7 * __pyx_v_bin_edges.strides[0]) )))), __pyx_v_option_flags, __pyx_v_weight_min, __pyx_v_weight_max); 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range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, Py_ssize_t __pyx_v_stride, int __pyx_v_ndim, char __pyx_v_order) { int __pyx_v_idx; Py_ssize_t __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ __pyx_t_1 = ((__pyx_v_order == 'F') != 0); if (__pyx_t_1) { /* "View.MemoryView":1181 * * if order == 'F': * for idx in range(ndim): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_idx = __pyx_t_3; /* "View.MemoryView":1182 * if order == 'F': * for idx in range(ndim): * strides[idx] = stride # <<<<<<<<<<<<<< * stride = stride * shape[idx] * else: */ (__pyx_v_strides[__pyx_v_idx]) = __pyx_v_stride; /* "View.MemoryView":1183 * for idx in range(ndim): * strides[idx] = stride * stride = stride * shape[idx] # <<<<<<<<<<<<<< * else: * for idx in range(ndim - 1, -1, -1): */ __pyx_v_stride = (__pyx_v_stride * (__pyx_v_shape[__pyx_v_idx])); } /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ goto __pyx_L3; } /* "View.MemoryView":1185 * stride = stride * shape[idx] * else: * for idx in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ /*else*/ { for (__pyx_t_2 = (__pyx_v_ndim - 1); __pyx_t_2 > -1L; __pyx_t_2-=1) { __pyx_v_idx = __pyx_t_2; /* "View.MemoryView":1186 * else: * for idx in range(ndim - 1, -1, -1): * strides[idx] = stride # <<<<<<<<<<<<<< * stride = stride * shape[idx] * */ (__pyx_v_strides[__pyx_v_idx]) = __pyx_v_stride; /* "View.MemoryView":1187 * for idx in range(ndim - 1, -1, -1): * strides[idx] = stride * stride = stride * shape[idx] # <<<<<<<<<<<<<< * * return stride */ __pyx_v_stride = (__pyx_v_stride * (__pyx_v_shape[__pyx_v_idx])); } } __pyx_L3:; /* "View.MemoryView":1189 * stride = stride * shape[idx] * * return stride # <<<<<<<<<<<<<< * * @cname('__pyx_memoryview_copy_data_to_temp') */ __pyx_r = __pyx_v_stride; goto __pyx_L0; /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1192 * * @cname('__pyx_memoryview_copy_data_to_temp') * cdef void *copy_data_to_temp(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *tmpslice, * char order, */ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_tmpslice, char __pyx_v_order, int __pyx_v_ndim) { int __pyx_v_i; void *__pyx_v_result; size_t __pyx_v_itemsize; size_t __pyx_v_size; void *__pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; struct __pyx_memoryview_obj *__pyx_t_4; int __pyx_t_5; /* "View.MemoryView":1203 * cdef void *result * * cdef size_t itemsize = src.memview.view.itemsize # <<<<<<<<<<<<<< * cdef size_t size = slice_get_size(src, ndim) * */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_itemsize = __pyx_t_1; /* "View.MemoryView":1204 * * cdef size_t itemsize = src.memview.view.itemsize * cdef size_t size = slice_get_size(src, ndim) # <<<<<<<<<<<<<< * * result = malloc(size) */ __pyx_v_size = __pyx_memoryview_slice_get_size(__pyx_v_src, __pyx_v_ndim); /* "View.MemoryView":1206 * cdef size_t size = slice_get_size(src, ndim) * * result = malloc(size) # <<<<<<<<<<<<<< * if not result: * _err(MemoryError, 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__pyx_v_tmpslice->memview = __pyx_t_4; /* "View.MemoryView":1213 * tmpslice.data = result * tmpslice.memview = src.memview * for i in range(ndim): # <<<<<<<<<<<<<< * tmpslice.shape[i] = src.shape[i] * tmpslice.suboffsets[i] = -1 */ __pyx_t_3 = __pyx_v_ndim; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_3; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1214 * tmpslice.memview = src.memview * for i in range(ndim): * tmpslice.shape[i] = src.shape[i] # <<<<<<<<<<<<<< * tmpslice.suboffsets[i] = -1 * */ (__pyx_v_tmpslice->shape[__pyx_v_i]) = (__pyx_v_src->shape[__pyx_v_i]); /* "View.MemoryView":1215 * for i in range(ndim): * tmpslice.shape[i] = src.shape[i] * tmpslice.suboffsets[i] = -1 # <<<<<<<<<<<<<< * * fill_contig_strides_array(&tmpslice.shape[0], &tmpslice.strides[0], itemsize, */ (__pyx_v_tmpslice->suboffsets[__pyx_v_i]) = -1L; } /* "View.MemoryView":1217 * tmpslice.suboffsets[i] = -1 * * fill_contig_strides_array(&tmpslice.shape[0], &tmpslice.strides[0], itemsize, # 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(__pyx_t_2) { /* "View.MemoryView":1298 * * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) # <<<<<<<<<<<<<< * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig(__pyx_v_dst, 'C', __pyx_v_ndim); /* "View.MemoryView":1297 * * * if slice_is_contig(src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): */ goto __pyx_L12; } /* "View.MemoryView":1299 * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'F', ndim) * */ __pyx_t_2 = (__pyx_memviewslice_is_contig(__pyx_v_src, 'F', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1300 * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) # 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/* "View.MemoryView":1302 * direct_copy = slice_is_contig(dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ } /* "View.MemoryView":1294 * src = tmp * * if not broadcasting: # <<<<<<<<<<<<<< * * */ } /* "View.MemoryView":1310 * return 0 * * if order == 'F' == get_best_order(&dst, ndim): # <<<<<<<<<<<<<< * * */ __pyx_t_2 = (__pyx_v_order == 'F'); if (__pyx_t_2) { __pyx_t_2 = ('F' == __pyx_get_best_slice_order((&__pyx_v_dst), __pyx_v_ndim)); } __pyx_t_7 = (__pyx_t_2 != 0); if (__pyx_t_7) { /* "View.MemoryView":1313 * * * transpose_memslice(&src) # <<<<<<<<<<<<<< * transpose_memslice(&dst) * */ __pyx_t_5 = __pyx_memslice_transpose((&__pyx_v_src)); if (unlikely(__pyx_t_5 == 0)) __PYX_ERR(2, 1313, __pyx_L1_error) /* "View.MemoryView":1314 * * transpose_memslice(&src) * transpose_memslice(&dst) # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ __pyx_t_5 = __pyx_memslice_transpose((&__pyx_v_dst)); if (unlikely(__pyx_t_5 == 0)) __PYX_ERR(2, 1314, __pyx_L1_error) /* "View.MemoryView":1310 * return 0 * * if order == 'F' == get_best_order(&dst, ndim): # <<<<<<<<<<<<<< * * */ } /* "View.MemoryView":1316 * transpose_memslice(&dst) * * refcount_copying(&dst, dtype_is_object, ndim, False) # <<<<<<<<<<<<<< * copy_strided_to_strided(&src, &dst, ndim, itemsize) * refcount_copying(&dst, dtype_is_object, ndim, True) */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1317 * * refcount_copying(&dst, dtype_is_object, ndim, False) * copy_strided_to_strided(&src, &dst, ndim, itemsize) # <<<<<<<<<<<<<< * refcount_copying(&dst, dtype_is_object, ndim, True) * */ copy_strided_to_strided((&__pyx_v_src), (&__pyx_v_dst), __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1318 * refcount_copying(&dst, dtype_is_object, ndim, False) * copy_strided_to_strided(&src, &dst, ndim, itemsize) * refcount_copying(&dst, dtype_is_object, ndim, True) # 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/*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_4silx_4math_12chistogramnd___pyx_scope_struct__chistogramnd, /*tp_traverse*/ __pyx_tp_clear_4silx_4math_12chistogramnd___pyx_scope_struct__chistogramnd, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ 0, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_4silx_4math_12chistogramnd___pyx_scope_struct__chistogramnd, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_array __pyx_vtable_array; static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_array_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_array_obj *)o); p->__pyx_vtab = __pyx_vtabptr_array; p->mode = ((PyObject*)Py_None); Py_INCREF(Py_None); p->_format = ((PyObject*)Py_None); Py_INCREF(Py_None); if (unlikely(__pyx_array___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_array(PyObject *o) { struct __pyx_array_obj *p = (struct __pyx_array_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_array___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->mode); Py_CLEAR(p->_format); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_array(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_array(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_array___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_tp_getattro_array(PyObject *o, PyObject *n) { PyObject *v = PyObject_GenericGetAttr(o, n); if (!v && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Clear(); v = __pyx_array___getattr__(o, n); } return v; } static PyObject *__pyx_getprop___pyx_array_memview(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_5array_7memview_1__get__(o); } static PyMethodDef __pyx_methods_array[] = { {"__getattr__", (PyCFunction)__pyx_array___getattr__, METH_O|METH_COEXIST, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_array[] = { {(char *)"memview", __pyx_getprop___pyx_array_memview, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_array = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_array, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_array = { 0, /*mp_length*/ __pyx_array___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.math.chistogramnd.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.math.chistogramnd.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4base_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_5shape_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_strides(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_7strides_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_suboffsets(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_10suboffsets_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_ndim(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4ndim_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_itemsize(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_8itemsize_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_nbytes(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_6nbytes_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_size(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4size_1__get__(o); } static PyMethodDef __pyx_methods_memoryview[] = { {"is_c_contig", (PyCFunction)__pyx_memoryview_is_c_contig, METH_NOARGS, 0}, {"is_f_contig", (PyCFunction)__pyx_memoryview_is_f_contig, METH_NOARGS, 0}, {"copy", (PyCFunction)__pyx_memoryview_copy, METH_NOARGS, 0}, {"copy_fortran", (PyCFunction)__pyx_memoryview_copy_fortran, METH_NOARGS, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_memoryview[] = { {(char *)"T", __pyx_getprop___pyx_memoryview_T, 0, (char *)0, 0}, {(char *)"base", __pyx_getprop___pyx_memoryview_base, 0, (char *)0, 0}, {(char *)"shape", __pyx_getprop___pyx_memoryview_shape, 0, (char *)0, 0}, {(char *)"strides", __pyx_getprop___pyx_memoryview_strides, 0, (char *)0, 0}, {(char *)"suboffsets", __pyx_getprop___pyx_memoryview_suboffsets, 0, (char *)0, 0}, {(char *)"ndim", __pyx_getprop___pyx_memoryview_ndim, 0, (char *)0, 0}, {(char *)"itemsize", __pyx_getprop___pyx_memoryview_itemsize, 0, (char *)0, 0}, {(char *)"nbytes", __pyx_getprop___pyx_memoryview_nbytes, 0, (char *)0, 0}, {(char *)"size", __pyx_getprop___pyx_memoryview_size, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_memoryview = { __pyx_memoryview___len__, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_memoryview, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_memoryview = { __pyx_memoryview___len__, /*mp_length*/ __pyx_memoryview___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_memoryview, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_memoryview = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_memoryview_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_memoryview = { PyVarObject_HEAD_INIT(0, 0) "silx.math.chistogramnd.memoryview", /*tp_name*/ sizeof(struct __pyx_memoryview_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_memoryview, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_memoryview___repr__, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_memoryview, /*tp_as_sequence*/ &__pyx_tp_as_mapping_memoryview, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ __pyx_memoryview___str__, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_memoryview, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_memoryview, /*tp_traverse*/ __pyx_tp_clear_memoryview, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_memoryview, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_memoryview, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_memoryview, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct__memoryviewslice __pyx_vtable__memoryviewslice; static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryviewslice_obj *p; PyObject *o = __pyx_tp_new_memoryview(t, a, k); if (unlikely(!o)) return 0; p = ((struct __pyx_memoryviewslice_obj *)o); p->__pyx_base.__pyx_vtab = (struct __pyx_vtabstruct_memoryview*)__pyx_vtabptr__memoryviewslice; p->from_object = Py_None; Py_INCREF(Py_None); p->from_slice.memview = NULL; return o; } static void __pyx_tp_dealloc__memoryviewslice(PyObject *o) { struct __pyx_memoryviewslice_obj *p = (struct __pyx_memoryviewslice_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryviewslice___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->from_object); PyObject_GC_Track(o); __pyx_tp_dealloc_memoryview(o); } static int __pyx_tp_traverse__memoryviewslice(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryviewslice_obj *p = (struct __pyx_memoryviewslice_obj *)o; e = __pyx_tp_traverse_memoryview(o, v, a); if (e) return e; if (p->from_object) { e = (*v)(p->from_object, a); if (e) return e; } return 0; } static int __pyx_tp_clear__memoryviewslice(PyObject *o) { PyObject* tmp; struct __pyx_memoryviewslice_obj *p = (struct __pyx_memoryviewslice_obj *)o; __pyx_tp_clear_memoryview(o); tmp = ((PyObject*)p->from_object); p->from_object = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); __PYX_XDEC_MEMVIEW(&p->from_slice, 1); return 0; } static PyObject *__pyx_getprop___pyx_memoryviewslice_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_16_memoryviewslice_4base_1__get__(o); } static PyMethodDef __pyx_methods__memoryviewslice[] = { {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets__memoryviewslice[] = { {(char *)"base", __pyx_getprop___pyx_memoryviewslice_base, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static 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PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; 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assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { if (op1 == op2) { Py_RETURN_TRUE; } #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long a = PyInt_AS_LONG(op1); if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a; const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15 default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ); #else default: Py_RETURN_FALSE; #endif } } if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); if ((double)a == (double)b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } return PyObject_RichCompare(op1, op2, Py_EQ); } #endif /* PyObjectCallNoArg */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, NULL, 0); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif /* FetchCommonType */ static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type) { PyObject* fake_module; PyTypeObject* cached_type = NULL; fake_module = PyImport_AddModule((char*) "_cython_" CYTHON_ABI); if (!fake_module) return NULL; Py_INCREF(fake_module); cached_type = (PyTypeObject*) PyObject_GetAttrString(fake_module, type->tp_name); if (cached_type) { if (!PyType_Check((PyObject*)cached_type)) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s is not a type object", type->tp_name); goto bad; } if (cached_type->tp_basicsize != type->tp_basicsize) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s has the wrong size, try recompiling", type->tp_name); goto bad; } } else { if (!PyErr_ExceptionMatches(PyExc_AttributeError)) goto bad; PyErr_Clear(); if (PyType_Ready(type) < 0) goto bad; if (PyObject_SetAttrString(fake_module, type->tp_name, (PyObject*) type) < 0) goto bad; Py_INCREF(type); cached_type = type; } done: Py_DECREF(fake_module); return cached_type; bad: Py_XDECREF(cached_type); cached_type = NULL; goto done; } /* CythonFunction */ static PyObject * __Pyx_CyFunction_get_doc(__pyx_CyFunctionObject *op, CYTHON_UNUSED void *closure) { if (unlikely(op->func_doc == NULL)) { if (op->func.m_ml->ml_doc) { #if PY_MAJOR_VERSION >= 3 op->func_doc = PyUnicode_FromString(op->func.m_ml->ml_doc); #else op->func_doc = PyString_FromString(op->func.m_ml->ml_doc); #endif if (unlikely(op->func_doc == NULL)) return NULL; } else { Py_INCREF(Py_None); return Py_None; } } Py_INCREF(op->func_doc); return op->func_doc; } static int __Pyx_CyFunction_set_doc(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp = op->func_doc; if (value == NULL) { value = Py_None; } Py_INCREF(value); op->func_doc = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_name(__pyx_CyFunctionObject *op) { if (unlikely(op->func_name == NULL)) { #if PY_MAJOR_VERSION >= 3 op->func_name = PyUnicode_InternFromString(op->func.m_ml->ml_name); #else op->func_name = PyString_InternFromString(op->func.m_ml->ml_name); #endif if (unlikely(op->func_name == NULL)) return NULL; } Py_INCREF(op->func_name); return op->func_name; } static int __Pyx_CyFunction_set_name(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__name__ must be set to a string object"); return -1; } tmp = op->func_name; Py_INCREF(value); op->func_name = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_qualname(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_qualname); return op->func_qualname; } static int __Pyx_CyFunction_set_qualname(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__qualname__ must be set to a string object"); return -1; } tmp = op->func_qualname; Py_INCREF(value); op->func_qualname = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_self(__pyx_CyFunctionObject *m, CYTHON_UNUSED void *closure) { PyObject *self; self = m->func_closure; if (self == NULL) self = Py_None; Py_INCREF(self); return self; } static PyObject * __Pyx_CyFunction_get_dict(__pyx_CyFunctionObject *op) { if (unlikely(op->func_dict == NULL)) { op->func_dict = PyDict_New(); if (unlikely(op->func_dict == NULL)) return NULL; } Py_INCREF(op->func_dict); return op->func_dict; } static int __Pyx_CyFunction_set_dict(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; if (unlikely(value == NULL)) { PyErr_SetString(PyExc_TypeError, "function's dictionary may not be deleted"); return -1; } if (unlikely(!PyDict_Check(value))) { PyErr_SetString(PyExc_TypeError, "setting function's dictionary to a non-dict"); return -1; } tmp = op->func_dict; Py_INCREF(value); op->func_dict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_globals(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_globals); return op->func_globals; } static PyObject * __Pyx_CyFunction_get_closure(CYTHON_UNUSED __pyx_CyFunctionObject *op) { Py_INCREF(Py_None); return Py_None; } static PyObject * __Pyx_CyFunction_get_code(__pyx_CyFunctionObject *op) { PyObject* result = (op->func_code) ? op->func_code : Py_None; Py_INCREF(result); return result; } static int __Pyx_CyFunction_init_defaults(__pyx_CyFunctionObject *op) { int result = 0; PyObject *res = op->defaults_getter((PyObject *) op); if (unlikely(!res)) return -1; #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS op->defaults_tuple = PyTuple_GET_ITEM(res, 0); Py_INCREF(op->defaults_tuple); op->defaults_kwdict = PyTuple_GET_ITEM(res, 1); Py_INCREF(op->defaults_kwdict); #else op->defaults_tuple = PySequence_ITEM(res, 0); if (unlikely(!op->defaults_tuple)) result = -1; else { op->defaults_kwdict = PySequence_ITEM(res, 1); if (unlikely(!op->defaults_kwdict)) result = -1; } #endif Py_DECREF(res); return result; } static int __Pyx_CyFunction_set_defaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyTuple_Check(value)) { PyErr_SetString(PyExc_TypeError, "__defaults__ must be set to a tuple object"); return -1; } Py_INCREF(value); tmp = op->defaults_tuple; op->defaults_tuple = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_defaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_tuple; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_tuple; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_kwdefaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__kwdefaults__ must be set to a dict object"); return -1; } Py_INCREF(value); tmp = op->defaults_kwdict; op->defaults_kwdict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_kwdefaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_kwdict; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_kwdict; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_annotations(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value || value == Py_None) { value = NULL; } else if (!PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__annotations__ must be set to a dict object"); return -1; } Py_XINCREF(value); tmp = op->func_annotations; op->func_annotations = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_annotations(__pyx_CyFunctionObject *op) { PyObject* result = op->func_annotations; if (unlikely(!result)) { result = PyDict_New(); if (unlikely(!result)) return NULL; op->func_annotations = result; } Py_INCREF(result); return result; } static PyGetSetDef __pyx_CyFunction_getsets[] = { {(char *) "func_doc", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "__doc__", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "func_name", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__name__", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__qualname__", (getter)__Pyx_CyFunction_get_qualname, (setter)__Pyx_CyFunction_set_qualname, 0, 0}, {(char *) "__self__", (getter)__Pyx_CyFunction_get_self, 0, 0, 0}, {(char *) "func_dict", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "__dict__", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "func_globals", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "__globals__", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "func_closure", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "__closure__", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "func_code", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "__code__", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "func_defaults", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__defaults__", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__kwdefaults__", (getter)__Pyx_CyFunction_get_kwdefaults, (setter)__Pyx_CyFunction_set_kwdefaults, 0, 0}, {(char *) "__annotations__", (getter)__Pyx_CyFunction_get_annotations, (setter)__Pyx_CyFunction_set_annotations, 0, 0}, {0, 0, 0, 0, 0} }; static PyMemberDef __pyx_CyFunction_members[] = { {(char *) "__module__", T_OBJECT, offsetof(__pyx_CyFunctionObject, func.m_module), PY_WRITE_RESTRICTED, 0}, {0, 0, 0, 0, 0} }; static PyObject * __Pyx_CyFunction_reduce(__pyx_CyFunctionObject *m, CYTHON_UNUSED PyObject *args) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromString(m->func.m_ml->ml_name); #else return PyString_FromString(m->func.m_ml->ml_name); #endif } static PyMethodDef __pyx_CyFunction_methods[] = { {"__reduce__", (PyCFunction)__Pyx_CyFunction_reduce, METH_VARARGS, 0}, {0, 0, 0, 0} }; #if PY_VERSION_HEX < 0x030500A0 #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func_weakreflist) #else #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func.m_weakreflist) #endif static PyObject *__Pyx_CyFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *closure, PyObject *module, PyObject* globals, PyObject* code) { __pyx_CyFunctionObject *op = PyObject_GC_New(__pyx_CyFunctionObject, type); if (op == NULL) return NULL; op->flags = flags; __Pyx_CyFunction_weakreflist(op) = NULL; op->func.m_ml = ml; op->func.m_self = (PyObject *) op; Py_XINCREF(closure); op->func_closure = closure; Py_XINCREF(module); op->func.m_module = module; op->func_dict = NULL; op->func_name = NULL; Py_INCREF(qualname); op->func_qualname = qualname; op->func_doc = NULL; op->func_classobj = NULL; op->func_globals = globals; Py_INCREF(op->func_globals); Py_XINCREF(code); op->func_code = code; op->defaults_pyobjects = 0; op->defaults = NULL; op->defaults_tuple = NULL; op->defaults_kwdict = NULL; op->defaults_getter = NULL; op->func_annotations = NULL; PyObject_GC_Track(op); return (PyObject *) op; } static int __Pyx_CyFunction_clear(__pyx_CyFunctionObject *m) { Py_CLEAR(m->func_closure); Py_CLEAR(m->func.m_module); Py_CLEAR(m->func_dict); Py_CLEAR(m->func_name); Py_CLEAR(m->func_qualname); Py_CLEAR(m->func_doc); Py_CLEAR(m->func_globals); Py_CLEAR(m->func_code); Py_CLEAR(m->func_classobj); Py_CLEAR(m->defaults_tuple); Py_CLEAR(m->defaults_kwdict); Py_CLEAR(m->func_annotations); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_XDECREF(pydefaults[i]); PyObject_Free(m->defaults); m->defaults = NULL; } return 0; } static void __Pyx_CyFunction_dealloc(__pyx_CyFunctionObject *m) { PyObject_GC_UnTrack(m); if (__Pyx_CyFunction_weakreflist(m) != NULL) PyObject_ClearWeakRefs((PyObject *) m); __Pyx_CyFunction_clear(m); PyObject_GC_Del(m); } static int __Pyx_CyFunction_traverse(__pyx_CyFunctionObject *m, visitproc visit, void *arg) { Py_VISIT(m->func_closure); Py_VISIT(m->func.m_module); Py_VISIT(m->func_dict); Py_VISIT(m->func_name); Py_VISIT(m->func_qualname); Py_VISIT(m->func_doc); Py_VISIT(m->func_globals); Py_VISIT(m->func_code); Py_VISIT(m->func_classobj); Py_VISIT(m->defaults_tuple); Py_VISIT(m->defaults_kwdict); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_VISIT(pydefaults[i]); } return 0; } static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; if (m->flags & __Pyx_CYFUNCTION_STATICMETHOD) { Py_INCREF(func); return func; } if (m->flags & __Pyx_CYFUNCTION_CLASSMETHOD) { if (type == NULL) type = (PyObject *)(Py_TYPE(obj)); return __Pyx_PyMethod_New(func, type, (PyObject *)(Py_TYPE(type))); } if (obj == Py_None) obj = NULL; return __Pyx_PyMethod_New(func, obj, type); } static PyObject* __Pyx_CyFunction_repr(__pyx_CyFunctionObject *op) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromFormat("", op->func_qualname, (void *)op); #else return PyString_FromFormat("", PyString_AsString(op->func_qualname), (void *)op); #endif } static PyObject * __Pyx_CyFunction_CallMethod(PyObject *func, PyObject *self, PyObject *arg, PyObject *kw) { PyCFunctionObject* f = (PyCFunctionObject*)func; PyCFunction meth = f->m_ml->ml_meth; Py_ssize_t size; switch (f->m_ml->ml_flags & (METH_VARARGS | METH_KEYWORDS | METH_NOARGS | METH_O)) { case METH_VARARGS: if (likely(kw == NULL || PyDict_Size(kw) == 0)) return (*meth)(self, arg); break; case METH_VARARGS | METH_KEYWORDS: return (*(PyCFunctionWithKeywords)meth)(self, arg, kw); case METH_NOARGS: if (likely(kw == NULL || PyDict_Size(kw) == 0)) { size = PyTuple_GET_SIZE(arg); if (likely(size == 0)) return (*meth)(self, NULL); PyErr_Format(PyExc_TypeError, "%.200s() takes no arguments (%" CYTHON_FORMAT_SSIZE_T "d given)", f->m_ml->ml_name, size); return NULL; } break; case METH_O: if (likely(kw == NULL || PyDict_Size(kw) == 0)) { size = PyTuple_GET_SIZE(arg); if (likely(size == 1)) { PyObject *result, *arg0 = PySequence_ITEM(arg, 0); if (unlikely(!arg0)) return NULL; result = (*meth)(self, arg0); Py_DECREF(arg0); return result; } PyErr_Format(PyExc_TypeError, "%.200s() takes exactly one argument (%" CYTHON_FORMAT_SSIZE_T "d given)", f->m_ml->ml_name, size); return NULL; } break; default: PyErr_SetString(PyExc_SystemError, "Bad call flags in " "__Pyx_CyFunction_Call. METH_OLDARGS is no " "longer supported!"); return NULL; } PyErr_Format(PyExc_TypeError, "%.200s() takes no keyword arguments", f->m_ml->ml_name); return NULL; } static CYTHON_INLINE PyObject *__Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { return __Pyx_CyFunction_CallMethod(func, ((PyCFunctionObject*)func)->m_self, arg, kw); } static PyObject *__Pyx_CyFunction_CallAsMethod(PyObject *func, PyObject *args, PyObject *kw) { PyObject *result; __pyx_CyFunctionObject *cyfunc = (__pyx_CyFunctionObject *) func; if ((cyfunc->flags & __Pyx_CYFUNCTION_CCLASS) && !(cyfunc->flags & __Pyx_CYFUNCTION_STATICMETHOD)) { Py_ssize_t argc; PyObject *new_args; PyObject *self; argc = PyTuple_GET_SIZE(args); new_args = PyTuple_GetSlice(args, 1, argc); if (unlikely(!new_args)) return NULL; self = PyTuple_GetItem(args, 0); if (unlikely(!self)) { Py_DECREF(new_args); return NULL; } result = __Pyx_CyFunction_CallMethod(func, self, new_args, kw); Py_DECREF(new_args); } else { result = __Pyx_CyFunction_Call(func, args, kw); } return result; } static PyTypeObject __pyx_CyFunctionType_type = { PyVarObject_HEAD_INIT(0, 0) "cython_function_or_method", sizeof(__pyx_CyFunctionObject), 0, (destructor) __Pyx_CyFunction_dealloc, 0, 0, 0, #if PY_MAJOR_VERSION < 3 0, #else 0, #endif (reprfunc) __Pyx_CyFunction_repr, 0, 0, 0, 0, __Pyx_CyFunction_CallAsMethod, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC, 0, (traverseproc) __Pyx_CyFunction_traverse, (inquiry) __Pyx_CyFunction_clear, 0, #if PY_VERSION_HEX < 0x030500A0 offsetof(__pyx_CyFunctionObject, func_weakreflist), #else offsetof(PyCFunctionObject, m_weakreflist), #endif 0, 0, __pyx_CyFunction_methods, __pyx_CyFunction_members, __pyx_CyFunction_getsets, 0, 0, __Pyx_CyFunction_descr_get, 0, offsetof(__pyx_CyFunctionObject, func_dict), 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #endif }; static int __pyx_CyFunction_init(void) { __pyx_CyFunctionType = __Pyx_FetchCommonType(&__pyx_CyFunctionType_type); if (__pyx_CyFunctionType == NULL) { return -1; } return 0; } static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *func, size_t size, int pyobjects) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults = PyObject_Malloc(size); if (!m->defaults) return PyErr_NoMemory(); memset(m->defaults, 0, size); m->defaults_pyobjects = pyobjects; return m->defaults; } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *func, PyObject *tuple) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_tuple = tuple; Py_INCREF(tuple); } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_kwdict = dict; Py_INCREF(dict); } static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->func_annotations = dict; Py_INCREF(dict); } /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* SliceObject */ static CYTHON_INLINE PyObject* __Pyx_PyObject_GetSlice(PyObject* obj, Py_ssize_t cstart, Py_ssize_t cstop, PyObject** _py_start, PyObject** _py_stop, PyObject** _py_slice, int has_cstart, int has_cstop, CYTHON_UNUSED int wraparound) { #if CYTHON_USE_TYPE_SLOTS PyMappingMethods* mp; #if PY_MAJOR_VERSION < 3 PySequenceMethods* ms = Py_TYPE(obj)->tp_as_sequence; if (likely(ms && ms->sq_slice)) { if (!has_cstart) { if (_py_start && (*_py_start != Py_None)) { cstart = __Pyx_PyIndex_AsSsize_t(*_py_start); if ((cstart == (Py_ssize_t)-1) && PyErr_Occurred()) goto bad; } else cstart = 0; } if (!has_cstop) { if (_py_stop && (*_py_stop != Py_None)) { cstop = __Pyx_PyIndex_AsSsize_t(*_py_stop); if ((cstop == (Py_ssize_t)-1) && PyErr_Occurred()) goto bad; } else cstop = PY_SSIZE_T_MAX; } if (wraparound && unlikely((cstart < 0) | (cstop < 0)) && likely(ms->sq_length)) { Py_ssize_t l = ms->sq_length(obj); if (likely(l >= 0)) { if (cstop < 0) { cstop += l; if (cstop < 0) cstop = 0; } if (cstart < 0) { cstart += l; if (cstart < 0) cstart = 0; } } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) goto bad; PyErr_Clear(); } } return ms->sq_slice(obj, cstart, cstop); } #endif mp = Py_TYPE(obj)->tp_as_mapping; if (likely(mp && mp->mp_subscript)) #endif { PyObject* result; PyObject *py_slice, *py_start, *py_stop; if (_py_slice) { py_slice = *_py_slice; } else { PyObject* owned_start = NULL; PyObject* owned_stop = NULL; if (_py_start) { py_start = *_py_start; } else { if (has_cstart) { owned_start = py_start = PyInt_FromSsize_t(cstart); if (unlikely(!py_start)) goto bad; } else py_start = Py_None; } if (_py_stop) { py_stop = *_py_stop; } else { if (has_cstop) { owned_stop = py_stop = PyInt_FromSsize_t(cstop); if (unlikely(!py_stop)) { Py_XDECREF(owned_start); goto bad; } } else py_stop = Py_None; } py_slice = PySlice_New(py_start, py_stop, Py_None); Py_XDECREF(owned_start); Py_XDECREF(owned_stop); if (unlikely(!py_slice)) goto bad; } #if CYTHON_USE_TYPE_SLOTS result = mp->mp_subscript(obj, py_slice); #else result = PyObject_GetItem(obj, py_slice); #endif if (!_py_slice) { Py_DECREF(py_slice); } return result; } PyErr_Format(PyExc_TypeError, "'%.200s' object is unsliceable", Py_TYPE(obj)->tp_name); bad: return NULL; } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) return __pyx_pw_5numpy_7ndarray_1__getbuffer__(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) { __pyx_pw_5numpy_7ndarray_3__releasebuffer__(obj, view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_histo_opt_type(histo_opt_type value) { const histo_opt_type neg_one = (histo_opt_type) -1, const_zero = (histo_opt_type) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(histo_opt_type) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(histo_opt_type) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(histo_opt_type) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(histo_opt_type) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(histo_opt_type) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(histo_opt_type), little, !is_unsigned); } } /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return ::std::complex< float >(x, y); } #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return x + y*(__pyx_t_float_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { __pyx_t_float_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabsf(b.real) >= fabsf(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { float r = b.imag / b.real; float s = 1.0 / (b.real + b.imag * r); return __pyx_t_float_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { float r = b.real / b.imag; float s = 1.0 / (b.imag + b.real * r); return __pyx_t_float_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else { float denom = b.real * b.real + b.imag * b.imag; return __pyx_t_float_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrtf(z.real*z.real + z.imag*z.imag); #else return hypotf(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; float r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { float denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(a, a); case 3: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, a); case 4: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = powf(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2f(0, -1); } } else { r = __Pyx_c_abs_float(a); theta = atan2f(a.imag, a.real); } lnr = logf(r); z_r = expf(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cosf(z_theta); z.imag = z_r * sinf(z_theta); return z; } #endif #endif /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return ::std::complex< double >(x, y); } #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return x + y*(__pyx_t_double_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { __pyx_t_double_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabs(b.real) >= fabs(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { double r = b.imag / b.real; double s = 1.0 / (b.real + b.imag * r); return __pyx_t_double_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { double r = b.real / b.imag; double s = 1.0 / (b.imag + b.real * r); return __pyx_t_double_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else { double denom = b.real * b.real + b.imag * b.imag; return __pyx_t_double_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrt(z.real*z.real + z.imag*z.imag); #else return hypot(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; double r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { double denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(a, a); case 3: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, a); case 4: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = pow(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2(0, -1); } } else { r = __Pyx_c_abs_double(a); theta = atan2(a.imag, a.real); } lnr = log(r); z_r = exp(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cos(z_theta); z.imag = z_r * sin(z_theta); return z; } #endif #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value) { const enum NPY_TYPES neg_one = (enum NPY_TYPES) -1, const_zero = (enum NPY_TYPES) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(enum NPY_TYPES) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(enum NPY_TYPES) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(enum NPY_TYPES), little, !is_unsigned); } } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE npy_int32 __Pyx_PyInt_As_npy_int32(PyObject *x) { const npy_int32 neg_one = (npy_int32) -1, const_zero = (npy_int32) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(npy_int32) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(npy_int32, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (npy_int32) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (npy_int32) 0; case 1: __PYX_VERIFY_RETURN_INT(npy_int32, digit, digits[0]) case 2: if (8 * sizeof(npy_int32) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) >= 2 * PyLong_SHIFT) { return (npy_int32) (((((npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0])); } } break; case 3: if (8 * sizeof(npy_int32) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) >= 3 * PyLong_SHIFT) { return (npy_int32) (((((((npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0])); } } break; case 4: if (8 * sizeof(npy_int32) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) >= 4 * PyLong_SHIFT) { return (npy_int32) (((((((((npy_int32)digits[3]) << PyLong_SHIFT) | (npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (npy_int32) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(npy_int32) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(npy_int32) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (npy_int32) 0; case -1: __PYX_VERIFY_RETURN_INT(npy_int32, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(npy_int32, digit, +digits[0]) case -2: if (8 * sizeof(npy_int32) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 2 * PyLong_SHIFT) { return (npy_int32) (((npy_int32)-1)*(((((npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case 2: if (8 * sizeof(npy_int32) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 2 * PyLong_SHIFT) { return (npy_int32) ((((((npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case -3: if (8 * sizeof(npy_int32) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 3 * PyLong_SHIFT) { return (npy_int32) (((npy_int32)-1)*(((((((npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case 3: if (8 * sizeof(npy_int32) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 3 * PyLong_SHIFT) { return (npy_int32) ((((((((npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case -4: if (8 * sizeof(npy_int32) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 4 * PyLong_SHIFT) { return (npy_int32) (((npy_int32)-1)*(((((((((npy_int32)digits[3]) << PyLong_SHIFT) | (npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case 4: if (8 * sizeof(npy_int32) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 4 * PyLong_SHIFT) { return (npy_int32) ((((((((((npy_int32)digits[3]) << PyLong_SHIFT) | (npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; } #endif if (sizeof(npy_int32) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(npy_int32) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else npy_int32 val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (npy_int32) -1; } } else { npy_int32 val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (npy_int32) -1; val = __Pyx_PyInt_As_npy_int32(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to npy_int32"); return (npy_int32) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to npy_int32"); return (npy_int32) -1; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_int(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_int, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_uint32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_uint32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* ModuleImport */ #ifndef __PYX_HAVE_RT_ImportModule #define __PYX_HAVE_RT_ImportModule static PyObject *__Pyx_ImportModule(const char *name) { PyObject *py_name = 0; PyObject *py_module = 0; py_name = __Pyx_PyIdentifier_FromString(name); if (!py_name) goto bad; py_module = PyImport_Import(py_name); Py_DECREF(py_name); return py_module; bad: Py_XDECREF(py_name); return 0; } #endif /* TypeImport */ #ifndef __PYX_HAVE_RT_ImportType #define __PYX_HAVE_RT_ImportType static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict) { PyObject *py_module = 0; PyObject *result = 0; PyObject *py_name = 0; char warning[200]; Py_ssize_t basicsize; #ifdef Py_LIMITED_API PyObject *py_basicsize; #endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; py_name = __Pyx_PyIdentifier_FromString(class_name); if (!py_name) goto bad; result = PyObject_GetAttr(py_module, py_name); Py_DECREF(py_name); py_name = 0; Py_DECREF(py_module); py_module = 0; if (!result) goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } #ifndef Py_LIMITED_API basicsize = ((PyTypeObject *)result)->tp_basicsize; #else py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); if (!py_basicsize) goto bad; basicsize = PyLong_AsSsize_t(py_basicsize); Py_DECREF(py_basicsize); py_basicsize = 0; if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) goto bad; #endif if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd", module_name, class_name, basicsize, size); if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; } else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd", module_name, class_name, basicsize, size); goto bad; } return (PyTypeObject *)result; bad: Py_XDECREF(py_module); Py_XDECREF(result); return NULL; } #endif /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/mc.pxd0000644023630100076410000000423413202530432016162 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ from libcpp.vector cimport vector as std_vector from libcpp cimport bool cdef extern from "mc.hpp": cdef cppclass MarchingCubes[FloatIn, FloatOut]: MarchingCubes(FloatIn level) except + void process(FloatIn * data, unsigned int depth, unsigned int height, unsigned int width) except + void set_slice_size(unsigned int height, unsigned int width) void process_slice(FloatIn * slice0, FloatIn * slice1) except + void finish_process() void reset() unsigned int depth unsigned int height unsigned int width unsigned int sampling[3] FloatIn isolevel bool invert_normals std_vector[FloatOut] vertices std_vector[FloatOut] normals std_vector[unsigned int] indices silx-0.6.1/silx/math/chistogramnd_lut.c0000644023630100076410001074674613202530432020606 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [ "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h", "/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ufuncobject.h" ], "include_dirs": [ "silx/math/histogramnd/include", "/usr/lib/python2.7/dist-packages/numpy/core/include" ], "language": "c" }, "module_name": "silx.math.chistogramnd_lut" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #elif !defined(CYTHON_USE_PYLONG_INTERNALS) #define CYTHON_USE_PYLONG_INTERNALS 1 #endif #ifndef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 1 #endif #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #if PY_VERSION_HEX < 0x030300F0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #elif !defined(CYTHON_USE_UNICODE_WRITER) #define CYTHON_USE_UNICODE_WRITER 1 #endif #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #ifndef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 1 #endif #ifndef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 1 #endif #endif #if !defined(CYTHON_FAST_PYCCALL) #define CYTHON_FAST_PYCCALL (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1) #endif #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #undef SHIFT #undef BASE #undef MASK #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 && !defined(Py_OptimizeFlag) #define Py_OptimizeFlag 0 #endif #define __PYX_BUILD_PY_SSIZE_T "n" #define CYTHON_FORMAT_SSIZE_T "z" #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyType_Type #endif #ifndef Py_TPFLAGS_CHECKTYPES #define Py_TPFLAGS_CHECKTYPES 0 #endif #ifndef Py_TPFLAGS_HAVE_INDEX #define Py_TPFLAGS_HAVE_INDEX 0 #endif #ifndef Py_TPFLAGS_HAVE_NEWBUFFER #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif #ifndef Py_TPFLAGS_HAVE_FINALIZE #define Py_TPFLAGS_HAVE_FINALIZE 0 #endif #ifndef METH_FASTCALL #define METH_FASTCALL 0x80 typedef PyObject *(*__Pyx_PyCFunctionFast) (PyObject *self, PyObject **args, Py_ssize_t nargs, PyObject *kwnames); #else #define __Pyx_PyCFunctionFast _PyCFunctionFast #endif #if CYTHON_FAST_PYCCALL #define __Pyx_PyFastCFunction_Check(func)\ ((PyCFunction_Check(func) && (METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))))) #else #define __Pyx_PyFastCFunction_Check(func) 0 #endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ?\ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) PyUnicode_MAX_CHAR_VALUE(u) #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) PyUnicode_WRITE(k, d, i, ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != (likely(PyUnicode_IS_READY(u)) ? PyUnicode_GET_LENGTH(u) : PyUnicode_GET_SIZE(u))) #else #define CYTHON_PEP393_ENABLED 0 #define PyUnicode_1BYTE_KIND 1 #define PyUnicode_2BYTE_KIND 2 #define PyUnicode_4BYTE_KIND 4 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) ((sizeof(Py_UNICODE) == 2) ? 65535 : 1114111) #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) (((void)(k)), ((Py_UNICODE*)d)[i] = ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != PyUnicode_GET_SIZE(u)) #endif #if CYTHON_COMPILING_IN_PYPY #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) #else #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ?\ PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyUnicode_Contains) #define PyUnicode_Contains(u, s) PySequence_Contains(u, s) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyByteArray_Check) #define PyByteArray_Check(obj) PyObject_TypeCheck(obj, &PyByteArray_Type) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Format) #define PyObject_Format(obj, fmt) PyObject_CallMethod(obj, "__format__", "O", fmt) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Malloc) #define PyObject_Malloc(s) PyMem_Malloc(s) #define PyObject_Free(p) PyMem_Free(p) #define PyObject_Realloc(p) PyMem_Realloc(p) #endif #if CYTHON_COMPILING_IN_PYSTON #define __Pyx_PyCode_HasFreeVars(co) PyCode_HasFreeVars(co) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) PyFrame_SetLineNumber(frame, lineno) #else #define __Pyx_PyCode_HasFreeVars(co) (PyCode_GetNumFree(co) > 0) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) (frame)->f_lineno = (lineno) #endif #define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) #define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) #else #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION < 3 && !defined(PyObject_ASCII) #define PyObject_ASCII(o) PyObject_Repr(o) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type #define PyStringObject PyUnicodeObject #define PyString_Type PyUnicode_Type #define PyString_Check PyUnicode_Check #define PyString_CheckExact PyUnicode_CheckExact #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) #else #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj)) #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) #endif #ifndef PySet_CheckExact #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) #endif #define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) #define __Pyx_PyException_Check(obj) __Pyx_TypeCheck(obj, PyExc_Exception) #if PY_MAJOR_VERSION >= 3 #define PyIntObject PyLongObject #define PyInt_Type PyLong_Type #define PyInt_Check(op) PyLong_Check(op) #define PyInt_CheckExact(op) PyLong_CheckExact(op) #define PyInt_FromString PyLong_FromString #define PyInt_FromUnicode PyLong_FromUnicode #define PyInt_FromLong PyLong_FromLong #define PyInt_FromSize_t PyLong_FromSize_t #define PyInt_FromSsize_t PyLong_FromSsize_t #define PyInt_AsLong PyLong_AsLong #define PyInt_AS_LONG PyLong_AS_LONG #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif #if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY #ifndef PyUnicode_InternFromString #define PyUnicode_InternFromString(s) PyUnicode_FromString(s) #endif #endif #if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong #else #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) #else #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) #endif #if CYTHON_USE_ASYNC_SLOTS #if PY_VERSION_HEX >= 0x030500B1 #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async) #else typedef struct { unaryfunc am_await; unaryfunc am_aiter; unaryfunc am_anext; } __Pyx_PyAsyncMethodsStruct; #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved)) #endif #else #define __Pyx_PyType_AsAsync(obj) NULL #endif #ifndef CYTHON_RESTRICT #if defined(__GNUC__) #define CYTHON_RESTRICT __restrict__ #elif defined(_MSC_VER) && _MSC_VER >= 1400 #define CYTHON_RESTRICT __restrict #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_RESTRICT restrict #else #define CYTHON_RESTRICT #endif #endif #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif # elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif #endif #ifndef CYTHON_MAYBE_UNUSED_VAR # if defined(__cplusplus) template void CYTHON_MAYBE_UNUSED_VAR( const T& ) { } # else # define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x) # endif #endif #ifndef CYTHON_NCP_UNUSED # if CYTHON_COMPILING_IN_CPYTHON # define CYTHON_NCP_UNUSED # else # define CYTHON_NCP_UNUSED CYTHON_UNUSED # endif #endif #define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None) #ifndef CYTHON_INLINE #if defined(__clang__) #define CYTHON_INLINE __inline__ __attribute__ ((__unused__)) #elif defined(__GNUC__) #define CYTHON_INLINE __inline__ #elif defined(_MSC_VER) #define CYTHON_INLINE __inline #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_INLINE inline #else #define CYTHON_INLINE #endif #endif #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__math__chistogramnd_lut #define __PYX_HAVE_API__silx__math__chistogramnd_lut #include #include #include #include "numpy/arrayobject.h" #include "numpy/ufuncobject.h" #include "pythread.h" #include "pystate.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; static PyObject *__pyx_empty_unicode; static int __pyx_lineno; static int __pyx_clineno = 0; static const char * __pyx_cfilenm= __FILE__; static const char *__pyx_filename; /* Header.proto */ #if !defined(CYTHON_CCOMPLEX) #if defined(__cplusplus) #define CYTHON_CCOMPLEX 1 #elif defined(_Complex_I) #define CYTHON_CCOMPLEX 1 #else #define CYTHON_CCOMPLEX 0 #endif #endif #if CYTHON_CCOMPLEX #ifdef __cplusplus #include #else #include #endif #endif #if CYTHON_CCOMPLEX && !defined(__cplusplus) && defined(__sun__) && defined(__GNUC__) #undef _Complex_I #define _Complex_I 1.0fj #endif static const char *__pyx_f[] = { "silx/math/chistogramnd_lut.pyx", "__init__.pxd", "stringsource", "type.pxd", }; /* MemviewSliceStruct.proto */ struct __pyx_memoryview_obj; typedef struct { struct __pyx_memoryview_obj *memview; char *data; Py_ssize_t shape[8]; Py_ssize_t strides[8]; Py_ssize_t suboffsets[8]; } __Pyx_memviewslice; /* BufferFormatStructs.proto */ #define IS_UNSIGNED(type) (((type) -1) > 0) struct __Pyx_StructField_; #define __PYX_BUF_FLAGS_PACKED_STRUCT (1 << 0) typedef struct { const char* name; struct __Pyx_StructField_* fields; size_t size; size_t arraysize[8]; int ndim; char typegroup; char is_unsigned; int flags; } __Pyx_TypeInfo; typedef struct __Pyx_StructField_ { __Pyx_TypeInfo* type; const char* name; size_t offset; } __Pyx_StructField; typedef struct { __Pyx_StructField* field; size_t parent_offset; } __Pyx_BufFmt_StackElem; typedef struct { __Pyx_StructField root; __Pyx_BufFmt_StackElem* head; size_t fmt_offset; size_t new_count, enc_count; size_t struct_alignment; int is_complex; char enc_type; char new_packmode; char enc_packmode; char is_valid_array; } __Pyx_BufFmt_Context; /* Atomics.proto */ #include #ifndef CYTHON_ATOMICS #define CYTHON_ATOMICS 1 #endif #define __pyx_atomic_int_type int #if CYTHON_ATOMICS && __GNUC__ >= 4 && (__GNUC_MINOR__ > 1 ||\ (__GNUC_MINOR__ == 1 && __GNUC_PATCHLEVEL >= 2)) &&\ !defined(__i386__) #define __pyx_atomic_incr_aligned(value, lock) __sync_fetch_and_add(value, 1) #define __pyx_atomic_decr_aligned(value, lock) __sync_fetch_and_sub(value, 1) #ifdef __PYX_DEBUG_ATOMICS #warning "Using GNU atomics" #endif #elif CYTHON_ATOMICS && defined(_MSC_VER) && 0 #include #undef __pyx_atomic_int_type #define __pyx_atomic_int_type LONG #define __pyx_atomic_incr_aligned(value, lock) InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #pragma message ("Using MSVC atomics") #endif #elif CYTHON_ATOMICS && (defined(__ICC) || defined(__INTEL_COMPILER)) && 0 #define __pyx_atomic_incr_aligned(value, lock) _InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) _InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #warning "Using Intel atomics" #endif #else #undef CYTHON_ATOMICS #define CYTHON_ATOMICS 0 #ifdef __PYX_DEBUG_ATOMICS #warning "Not using atomics" #endif #endif typedef volatile __pyx_atomic_int_type __pyx_atomic_int; #if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t */ typedef npy_int8 __pyx_t_5numpy_int8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t */ typedef npy_int16 __pyx_t_5numpy_int16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":727 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< * ctypedef npy_int64 int64_t * #ctypedef npy_int96 int96_t */ typedef npy_int32 __pyx_t_5numpy_int32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":728 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< * #ctypedef npy_int96 int96_t * #ctypedef npy_int128 int128_t */ typedef npy_int64 __pyx_t_5numpy_int64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":734 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< * ctypedef npy_uint64 uint64_t * #ctypedef npy_uint96 uint96_t */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":735 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< * #ctypedef npy_uint96 uint96_t * #ctypedef npy_uint128 uint128_t */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":739 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< * ctypedef npy_float64 float64_t * #ctypedef npy_float80 float80_t */ typedef npy_float32 __pyx_t_5numpy_float32_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":740 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< * #ctypedef npy_float80 float80_t * #ctypedef npy_float128 float128_t */ typedef npy_float64 __pyx_t_5numpy_float64_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t */ typedef npy_long __pyx_t_5numpy_int_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":750 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< * ctypedef npy_longlong longlong_t * */ typedef npy_longlong __pyx_t_5numpy_long_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< * * ctypedef npy_ulong uint_t */ typedef npy_longlong __pyx_t_5numpy_longlong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t */ typedef npy_ulong __pyx_t_5numpy_uint_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":754 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< * ctypedef npy_ulonglong ulonglong_t * */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< * * ctypedef npy_intp intp_t */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":757 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< * ctypedef npy_uintp uintp_t * */ typedef npy_intp __pyx_t_5numpy_intp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< * * ctypedef npy_double float_t */ typedef npy_uintp __pyx_t_5numpy_uintp_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t */ typedef npy_double __pyx_t_5numpy_float_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":761 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< * ctypedef npy_longdouble longdouble_t * */ typedef npy_double __pyx_t_5numpy_double_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cfloat cfloat_t */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; /* Declarations.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus typedef ::std::complex< float > __pyx_t_float_complex; #else typedef float _Complex __pyx_t_float_complex; 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/* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< * * ctypedef npy_cdouble complex_t */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; /* "../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":768 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< * * cdef inline object PyArray_MultiIterNew1(a): */ typedef npy_cdouble __pyx_t_5numpy_complex_t; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_array_obj { PyObject_HEAD struct __pyx_vtabstruct_array *__pyx_vtab; char *data; Py_ssize_t len; char *format; int ndim; Py_ssize_t *_shape; Py_ssize_t *_strides; Py_ssize_t itemsize; PyObject *mode; PyObject *_format; void (*callback_free_data)(void *); int free_data; int dtype_is_object; }; /* "View.MemoryView":275 * * @cname('__pyx_MemviewEnum') * cdef class Enum(object): # <<<<<<<<<<<<<< * cdef object name * def __init__(self, name): */ struct __pyx_MemviewEnum_obj { PyObject_HEAD PyObject *name; 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/* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ __Pyx_GetItemInt_Generic(o, to_py_func(i)))) #define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); #define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\ (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int wraparound, int boundscheck); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, int wraparound, int boundscheck); /* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* PyCFunctionFastCall.proto */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject *__Pyx_PyCFunction_FastCall(PyObject *func, PyObject **args, Py_ssize_t nargs); #else #define __Pyx_PyCFunction_FastCall(func, args, nargs) (assert(0), NULL) #endif /* PyFunctionFastCall.proto */ #if CYTHON_FAST_PYCALL #define __Pyx_PyFunction_FastCall(func, args, nargs)\ __Pyx_PyFunction_FastCallDict((func), (args), (nargs), NULL) #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs); #else #define __Pyx_PyFunction_FastCallDict(func, args, nargs, kwargs) _PyFunction_FastCallDict(func, args, nargs, kwargs) #endif #endif /* PyObjectCall.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif /* PyObjectCallMethO.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg); #endif /* PyObjectCallOneArg.proto */ static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\ PyObject_RichCompare(op1, op2, Py_EQ) #endif /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* RaiseException.proto */ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); #else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* SliceObject.proto */ #define __Pyx_PyObject_DelSlice(obj, cstart, cstop, py_start, py_stop, py_slice, has_cstart, has_cstop, wraparound)\ __Pyx_PyObject_SetSlice(obj, (PyObject*)NULL, cstart, cstop, py_start, py_stop, py_slice, has_cstart, has_cstop, wraparound) static CYTHON_INLINE int __Pyx_PyObject_SetSlice( PyObject* obj, PyObject* value, Py_ssize_t cstart, Py_ssize_t cstop, PyObject** py_start, PyObject** py_stop, PyObject** py_slice, int has_cstart, int has_cstop, int wraparound); /* SetItemInt.proto */ #define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) :\ (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) :\ __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, int wraparound, int boundscheck); /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /* PyDictContains.proto */ static CYTHON_INLINE int __Pyx_PyDict_ContainsTF(PyObject* item, PyObject* dict, int eq) { int result = PyDict_Contains(dict, item); return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); } /* DictGetItem.proto */ #if PY_MAJOR_VERSION >= 3 && !CYTHON_COMPILING_IN_PYPY static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif /* UnicodeAsUCS4.proto */ static CYTHON_INLINE Py_UCS4 __Pyx_PyUnicode_AsPy_UCS4(PyObject*); /* object_ord.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyObject_Ord(c)\ (likely(PyUnicode_Check(c)) ? (long)__Pyx_PyUnicode_AsPy_UCS4(c) : __Pyx__PyObject_Ord(c)) #else #define __Pyx_PyObject_Ord(c) __Pyx__PyObject_Ord(c) #endif static long __Pyx__PyObject_Ord(PyObject* c); /* IterFinish.proto */ static CYTHON_INLINE int __Pyx_IterFinish(void); /* PyObjectCallNoArg.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func); #else #define __Pyx_PyObject_CallNoArg(func) __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL) #endif /* PyObjectCallMethod0.proto */ static PyObject* __Pyx_PyObject_CallMethod0(PyObject* obj, PyObject* method_name); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* UnpackItemEndCheck.proto */ static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* UnpackTupleError.proto */ static void __Pyx_UnpackTupleError(PyObject *, Py_ssize_t index); /* UnpackTuple2.proto */ static CYTHON_INLINE int __Pyx_unpack_tuple2(PyObject* tuple, PyObject** value1, PyObject** value2, int is_tuple, int has_known_size, int decref_tuple); /* dict_iter.proto */ static CYTHON_INLINE PyObject* __Pyx_dict_iterator(PyObject* dict, int is_dict, PyObject* method_name, Py_ssize_t* p_orig_length, int* p_is_dict); static CYTHON_INLINE int __Pyx_dict_iter_next(PyObject* dict_or_iter, Py_ssize_t orig_length, Py_ssize_t* ppos, PyObject** pkey, PyObject** pvalue, PyObject** pitem, int is_dict); /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* ArgTypeTest.proto */ static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /* IncludeStringH.proto */ #include /* BytesEquals.proto */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals); /* UnicodeEquals.proto */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals); /* StrEquals.proto */ #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Equals __Pyx_PyUnicode_Equals #else #define __Pyx_PyString_Equals __Pyx_PyBytes_Equals #endif /* None.proto */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t, Py_ssize_t); /* UnaryNegOverflows.proto */ #define UNARY_NEG_WOULD_OVERFLOW(x)\ (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) static CYTHON_UNUSED int __pyx_array_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *); /*proto*/ /* GetAttr.proto */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *, PyObject *); /* decode_c_string.proto */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); /* SwapException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSwap(type, value, tb) __Pyx__ExceptionSwap(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); #endif static CYTHON_UNUSED int __pyx_memoryview_getbuffer(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* FetchCommonType.proto */ static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type); /* CythonFunction.proto */ #define __Pyx_CyFunction_USED 1 #include #define __Pyx_CYFUNCTION_STATICMETHOD 0x01 #define __Pyx_CYFUNCTION_CLASSMETHOD 0x02 #define __Pyx_CYFUNCTION_CCLASS 0x04 #define __Pyx_CyFunction_GetClosure(f)\ (((__pyx_CyFunctionObject *) (f))->func_closure) #define __Pyx_CyFunction_GetClassObj(f)\ (((__pyx_CyFunctionObject *) (f))->func_classobj) #define __Pyx_CyFunction_Defaults(type, f)\ ((type *)(((__pyx_CyFunctionObject *) (f))->defaults)) #define __Pyx_CyFunction_SetDefaultsGetter(f, g)\ ((__pyx_CyFunctionObject *) (f))->defaults_getter = (g) typedef struct { PyCFunctionObject func; #if PY_VERSION_HEX < 0x030500A0 PyObject *func_weakreflist; #endif PyObject *func_dict; PyObject *func_name; PyObject *func_qualname; PyObject *func_doc; PyObject *func_globals; PyObject *func_code; PyObject *func_closure; PyObject *func_classobj; void *defaults; int defaults_pyobjects; int flags; PyObject *defaults_tuple; PyObject *defaults_kwdict; PyObject *(*defaults_getter)(PyObject *); PyObject *func_annotations; } __pyx_CyFunctionObject; static PyTypeObject *__pyx_CyFunctionType = 0; #define __Pyx_CyFunction_NewEx(ml, flags, qualname, self, module, globals, code)\ __Pyx_CyFunction_New(__pyx_CyFunctionType, ml, flags, qualname, self, module, globals, code) static PyObject *__Pyx_CyFunction_New(PyTypeObject *, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject* code); static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *m, size_t size, int pyobjects); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *m, PyObject *tuple); static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *m, PyObject *dict); static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *m, PyObject *dict); static int __pyx_CyFunction_init(void); /* FusedFunction.proto */ typedef struct { __pyx_CyFunctionObject func; PyObject *__signatures__; PyObject *type; PyObject *self; } __pyx_FusedFunctionObject; #define __pyx_FusedFunction_NewEx(ml, flags, qualname, self, module, globals, code)\ __pyx_FusedFunction_New(__pyx_FusedFunctionType, ml, flags, qualname, self, module, globals, code) static PyObject *__pyx_FusedFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject *qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject *code); static int __pyx_FusedFunction_clear(__pyx_FusedFunctionObject *self); static PyTypeObject *__pyx_FusedFunctionType = NULL; static int __pyx_FusedFunction_init(void); #define __Pyx_FusedFunction_USED /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_float64_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_float32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int64_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int16_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_uint32_t(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_double(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_int(PyObject *); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* Print.proto */ static int __Pyx_Print(PyObject*, PyObject *, int); #if CYTHON_COMPILING_IN_PYPY || PY_MAJOR_VERSION >= 3 static PyObject* __pyx_print = 0; static PyObject* __pyx_print_kwargs = 0; #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* RealImag.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus #define __Pyx_CREAL(z) ((z).real()) #define __Pyx_CIMAG(z) ((z).imag()) #else #define __Pyx_CREAL(z) (__real__(z)) #define __Pyx_CIMAG(z) (__imag__(z)) #endif #else #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif #if defined(__cplusplus) && CYTHON_CCOMPLEX\ && (defined(_WIN32) || defined(__clang__) || (defined(__GNUC__) && (__GNUC__ >= 5 || __GNUC__ == 4 && __GNUC_MINOR__ >= 4 )) || __cplusplus >= 201103) #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_float(a, b) ((a)==(b)) #define __Pyx_c_sum_float(a, b) ((a)+(b)) #define __Pyx_c_diff_float(a, b) ((a)-(b)) #define __Pyx_c_prod_float(a, b) ((a)*(b)) #define __Pyx_c_quot_float(a, b) ((a)/(b)) #define __Pyx_c_neg_float(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_float(z) ((z)==(float)0) #define __Pyx_c_conj_float(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_float(z) (::std::abs(z)) #define __Pyx_c_pow_float(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_float(z) ((z)==0) #define __Pyx_c_conj_float(z) (conjf(z)) #if 1 #define __Pyx_c_abs_float(z) (cabsf(z)) #define __Pyx_c_pow_float(a, b) (cpowf(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex); static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex); #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex, __pyx_t_float_complex); #endif #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_double(a, b) ((a)==(b)) #define __Pyx_c_sum_double(a, b) ((a)+(b)) #define __Pyx_c_diff_double(a, b) ((a)-(b)) #define __Pyx_c_prod_double(a, b) ((a)*(b)) #define __Pyx_c_quot_double(a, b) ((a)/(b)) #define __Pyx_c_neg_double(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_double(z) ((z)==(double)0) #define __Pyx_c_conj_double(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_double(z) (::std::abs(z)) #define __Pyx_c_pow_double(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_double(z) ((z)==0) #define __Pyx_c_conj_double(z) (conj(z)) #if 1 #define __Pyx_c_abs_double(z) (cabs(z)) #define __Pyx_c_pow_double(a, b) (cpow(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex); static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex); #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex, __pyx_t_double_complex); #endif #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE npy_int32 __Pyx_PyInt_As_npy_int32(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE npy_int64 __Pyx_PyInt_As_npy_int64(PyObject *); /* PrintOne.proto */ static int __Pyx_PrintOne(PyObject* stream, PyObject *o); /* BytesContains.proto */ static CYTHON_INLINE int __Pyx_BytesContains(PyObject* bytes, char character); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* PyIdentifierFromString.proto */ #if !defined(__Pyx_PyIdentifier_FromString) #if PY_MAJOR_VERSION < 3 #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) #else #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) #endif #endif /* ModuleImport.proto */ static PyObject *__Pyx_ImportModule(const char *name); /* TypeImport.proto */ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cpython.buffer' */ /* Module declarations from 'libc.string' */ /* Module declarations from 'libc.stdio' */ /* Module declarations from '__builtin__' */ /* Module declarations from 'cpython.type' */ static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; /* Module declarations from 'cpython' */ /* Module declarations from 'cpython.object' */ /* Module declarations from 'cpython.ref' */ /* Module declarations from 'libc.stdlib' */ /* Module declarations from 'numpy' */ /* Module declarations from 'numpy' */ static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'silx.math.chistogramnd_lut' */ static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_float64_t = { "float64_t", NULL, sizeof(__pyx_t_5numpy_float64_t), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_float32_t = { "float32_t", NULL, sizeof(__pyx_t_5numpy_float32_t), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t = { "int32_t", NULL, sizeof(__pyx_t_5numpy_int32_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int32_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int32_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int64_t = { "int64_t", NULL, sizeof(__pyx_t_5numpy_int64_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int64_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int64_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_int16_t = { "int16_t", NULL, sizeof(__pyx_t_5numpy_int16_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_int16_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_int16_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_uint32_t = { "uint32_t", NULL, sizeof(__pyx_t_5numpy_uint32_t), { 0 }, 0, IS_UNSIGNED(__pyx_t_5numpy_uint32_t) ? 'U' : 'I', IS_UNSIGNED(__pyx_t_5numpy_uint32_t), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_int = { "int", NULL, sizeof(int), { 0 }, 0, IS_UNSIGNED(int) ? 'U' : 'I', IS_UNSIGNED(int), 0 }; #define __Pyx_MODULE_NAME "silx.math.chistogramnd_lut" int __pyx_module_is_main_silx__math__chistogramnd_lut = 0; /* Implementation of 'silx.math.chistogramnd_lut' */ static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_ImportError; static PyObject *__pyx_builtin_AttributeError; static PyObject *__pyx_builtin_zip; static PyObject *__pyx_builtin_RuntimeError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_N[] = "N"; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_i[] = "i"; static const char __pyx_k_ex[] = "ex"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_np[] = "np"; static const char __pyx_k_rc[] = "rc"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k__21[] = "()"; static const char __pyx_k__23[] = "|"; static const char __pyx_k_any[] = "any"; static const char __pyx_k_end[] = "end"; static const char __pyx_k_h_c[] = "h_c"; static const char __pyx_k_lut[] = "lut"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_w_c[] = "w_c"; static const char __pyx_k_zip[] = "zip"; static const char __pyx_k_args[] = "args"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_file[] = "file"; static const char __pyx_k_kind[] = "kind"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_prod[] = "prod"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_tile[] = "tile"; static const char __pyx_k_type[] = "type"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_edges[] = "edges"; static const char __pyx_k_equal[] = "equal"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_g_max[] = "g_max"; static const char __pyx_k_g_min[] = "g_min"; static const char __pyx_k_histo[] = "histo"; static const char __pyx_k_i_dim[] = "i_dim"; static const char __pyx_k_i_lut[] = "i_lut"; static const char __pyx_k_int16[] = "int16"; static const char __pyx_k_int32[] = "int32"; static const char __pyx_k_int64[] = "int64"; static const char __pyx_k_lut_c[] = "lut_c"; static const char __pyx_k_ndmin[] = "ndmin"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_o_lut[] = "o_lut"; static const char __pyx_k_print[] = "print"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_split[] = "split"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_strip[] = "strip"; static const char __pyx_k_w_h_c[] = "w_h_c"; static const char __pyx_k_zeros[] = "zeros"; static const char __pyx_k_arange[] = "arange"; static const char __pyx_k_double[] = "double"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_kwargs[] = "kwargs"; static const char __pyx_k_n_bins[] = "n_bins"; static const char __pyx_k_n_dims[] = "n_dims"; static const char __pyx_k_n_elem[] = "n_elem"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_sample[] = "sample"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_uint32[] = "uint32"; static const char __pyx_k_uint64[] = "uint64"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_bin_idx[] = "bin_idx"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_h_lut_c[] = "h_lut_c"; static const char __pyx_k_histo_c[] = "histo_c"; static const char __pyx_k_int16_t[] = "int16_t"; static const char __pyx_k_int32_t[] = "int32_t"; static const char __pyx_k_int64_t[] = "int64_t"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_lut_idx[] = "lut_idx"; static const char __pyx_k_max_idx[] = "max_idx"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_ndarray[] = "ndarray"; static const char __pyx_k_o_histo[] = "o_histo"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_rng_max[] = "rng_max"; static const char __pyx_k_rng_min[] = "rng_min"; static const char __pyx_k_s_shape[] = "s_shape"; static const char __pyx_k_w_dtype[] = "w_dtype"; static const char __pyx_k_weights[] = "weights"; static const char __pyx_k_D_Naudet[] = "D. Naudet"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_defaults[] = "defaults"; static const char __pyx_k_elem_idx[] = "elem_idx"; static const char __pyx_k_i_n_bins[] = "i_n_bins"; static const char __pyx_k_i_n_dims[] = "i_n_dims"; static const char __pyx_k_i_sample[] = "i_sample"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_n_bins_c[] = "n_bins_c"; static const char __pyx_k_sample_c[] = "sample_c"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_dim_edges[] = "dim_edges"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_float32_t[] = "float32_t"; static const char __pyx_k_float64_t[] = "float64_t"; static const char __pyx_k_histo_lut[] = "histo_lut"; static const char __pyx_k_i_n_elems[] = "i_n_elems"; static const char __pyx_k_i_weights[] = "i_weights"; static const char __pyx_k_lut_dtype[] = "lut_dtype"; static const char __pyx_k_15_05_2016[] = "15/05/2016"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_bins_range[] = "bins_range"; static const char __pyx_k_elem_coord[] = "elem_coord"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_signatures[] = "signatures"; static const char __pyx_k_weight_max[] = "weight_max"; static const char __pyx_k_weight_min[] = "weight_min"; static const char __pyx_k_ImportError[] = "ImportError"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_histo_range[] = "histo_range"; static const char __pyx_k_sample_type[] = "sample_type"; static const char __pyx_k_RuntimeError[] = "RuntimeError"; static const char __pyx_k_i_weight_max[] = "i_weight_max"; static const char __pyx_k_i_weight_min[] = "i_weight_min"; static const char __pyx_k_newbyteorder[] = "newbyteorder"; static const char __pyx_k_histo_range_c[] = "histo_range_c"; static const char __pyx_k_i_histo_range[] = "i_histo_range"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_AttributeError[] = "AttributeError"; static const char __pyx_k_weighted_histo[] = "weighted_histo"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_err_histo_range[] = "err_histo_range"; static const char __pyx_k_int32_t_int16_t[] = "int32_t|int16_t"; static const char __pyx_k_int32_t_int32_t[] = "int32_t|int32_t"; static const char __pyx_k_int32_t_int64_t[] = "int32_t|int64_t"; static const char __pyx_k_int64_t_int16_t[] = "int64_t|int16_t"; static const char __pyx_k_int64_t_int32_t[] = "int64_t|int32_t"; static const char __pyx_k_int64_t_int64_t[] = "int64_t|int64_t"; static const char __pyx_k_last_bin_closed[] = "last_bin_closed"; static const char __pyx_k_filt_max_weights[] = "filt_max_weights"; static const char __pyx_k_filt_min_weights[] = "filt_min_weights"; static const char __pyx_k_o_weighted_histo[] = "o_weighted_histo"; static const char __pyx_k_ascontiguousarray[] = "ascontiguousarray"; static const char __pyx_k_float32_t_int16_t[] = "float32_t|int16_t"; static const char __pyx_k_float32_t_int32_t[] = "float32_t|int32_t"; static const char __pyx_k_float32_t_int64_t[] = "float32_t|int64_t"; static const char __pyx_k_float64_t_int16_t[] = "float64_t|int16_t"; static const char __pyx_k_float64_t_int32_t[] = "float64_t|int32_t"; static const char __pyx_k_float64_t_int64_t[] = "float64_t|int64_t"; static const char __pyx_k_i_filt_max_weights[] = "i_filt_max_weights"; static const char __pyx_k_i_filt_min_weights[] = "i_filt_min_weights"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_histogramnd_get_lut[] = "histogramnd_get_lut"; static const char __pyx_k_histogramnd_from_lut[] = "histogramnd_from_lut"; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_int32_t_int16_t_int32_t[] = "int32_t|int16_t|int32_t"; static const char __pyx_k_int32_t_int16_t_int64_t[] = "int32_t|int16_t|int64_t"; static const char __pyx_k_int32_t_int32_t_int32_t[] = "int32_t|int32_t|int32_t"; static const char __pyx_k_int32_t_int32_t_int64_t[] = "int32_t|int32_t|int64_t"; static const char __pyx_k_int32_t_int64_t_int32_t[] = "int32_t|int64_t|int32_t"; static const char __pyx_k_int32_t_int64_t_int64_t[] = "int32_t|int64_t|int64_t"; static const char __pyx_k_int64_t_int16_t_int32_t[] = "int64_t|int16_t|int32_t"; static const char __pyx_k_int64_t_int16_t_int64_t[] = "int64_t|int16_t|int64_t"; static const char __pyx_k_int64_t_int32_t_int32_t[] = "int64_t|int32_t|int32_t"; static const char __pyx_k_int64_t_int32_t_int64_t[] = "int64_t|int32_t|int64_t"; static const char __pyx_k_int64_t_int64_t_int32_t[] = "int64_t|int64_t|int32_t"; static const char __pyx_k_int64_t_int64_t_int64_t[] = "int64_t|int64_t|int64_t"; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_float32_t_int16_t_int32_t[] = "float32_t|int16_t|int32_t"; static const char __pyx_k_float32_t_int16_t_int64_t[] = "float32_t|int16_t|int64_t"; static const char __pyx_k_float32_t_int32_t_int32_t[] = "float32_t|int32_t|int32_t"; static const char __pyx_k_float32_t_int32_t_int64_t[] = "float32_t|int32_t|int64_t"; static const char __pyx_k_float32_t_int64_t_int32_t[] = "float32_t|int64_t|int32_t"; static const char __pyx_k_float32_t_int64_t_int64_t[] = "float32_t|int64_t|int64_t"; static const char __pyx_k_float64_t_int16_t_int32_t[] = "float64_t|int16_t|int32_t"; static const char __pyx_k_float64_t_int16_t_int64_t[] = "float64_t|int16_t|int64_t"; static const char __pyx_k_float64_t_int32_t_int32_t[] = "float64_t|int32_t|int32_t"; static const char __pyx_k_float64_t_int32_t_int64_t[] = "float64_t|int32_t|int64_t"; static const char __pyx_k_float64_t_int64_t_int32_t[] = "float64_t|int64_t|int32_t"; static const char __pyx_k_float64_t_int64_t_int64_t[] = "float64_t|int64_t|int64_t"; static const char __pyx_k_histogramnd_get_lut_fused[] = "_histogramnd_get_lut_fused"; static const char __pyx_k_int32_t_int16_t_float32_t[] = "int32_t|int16_t|float32_t"; static const char __pyx_k_int32_t_int16_t_float64_t[] = "int32_t|int16_t|float64_t"; static const char __pyx_k_int32_t_int32_t_float32_t[] = "int32_t|int32_t|float32_t"; static const char __pyx_k_int32_t_int32_t_float64_t[] = "int32_t|int32_t|float64_t"; static const char __pyx_k_int32_t_int64_t_float32_t[] = "int32_t|int64_t|float32_t"; static const char __pyx_k_int32_t_int64_t_float64_t[] = "int32_t|int64_t|float64_t"; static const char __pyx_k_int64_t_int16_t_float32_t[] = "int64_t|int16_t|float32_t"; static const char __pyx_k_int64_t_int16_t_float64_t[] = "int64_t|int16_t|float64_t"; static const char __pyx_k_int64_t_int32_t_float32_t[] = "int64_t|int32_t|float32_t"; static const char __pyx_k_int64_t_int32_t_float64_t[] = "int64_t|int32_t|float64_t"; static const char __pyx_k_int64_t_int64_t_float32_t[] = "int64_t|int64_t|float32_t"; static const char __pyx_k_int64_t_int64_t_float64_t[] = "int64_t|int64_t|float64_t"; static const char __pyx_k_histogramnd_from_lut_fused[] = "_histogramnd_from_lut_fused"; static const char __pyx_k_silx_math_chistogramnd_lut[] = "silx.math.chistogramnd_lut"; static const char __pyx_k_No_matching_signature_found[] = "No matching signature found"; static const char __pyx_k_Type_not_supported_sample_0[] = "Type not supported - sample : {0}"; static const char __pyx_k_float32_t_int16_t_float32_t[] = "float32_t|int16_t|float32_t"; static const char __pyx_k_float32_t_int16_t_float64_t[] = "float32_t|int16_t|float64_t"; static const char __pyx_k_float32_t_int32_t_float32_t[] = "float32_t|int32_t|float32_t"; static const char __pyx_k_float32_t_int32_t_float64_t[] = "float32_t|int32_t|float64_t"; static const char __pyx_k_float32_t_int64_t_float32_t[] = "float32_t|int64_t|float32_t"; static const char __pyx_k_float32_t_int64_t_float64_t[] = "float32_t|int64_t|float64_t"; static const char __pyx_k_float64_t_int16_t_float32_t[] = "float64_t|int16_t|float32_t"; static const char __pyx_k_float64_t_int16_t_float64_t[] = "float64_t|int16_t|float64_t"; static const char __pyx_k_float64_t_int32_t_float32_t[] = "float64_t|int32_t|float32_t"; static const char __pyx_k_float64_t_int32_t_float64_t[] = "float64_t|int32_t|float64_t"; static const char __pyx_k_float64_t_int64_t_float32_t[] = "float64_t|int64_t|float32_t"; static const char __pyx_k_float64_t_int64_t_float64_t[] = "float64_t|int64_t|float64_t"; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static const char __pyx_k_Expected_at_least_d_arguments[] = "Expected at least %d arguments"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_The_LUT_and_weights_arrays_must[] = "The LUT and weights arrays must have the same number of elements."; static const char __pyx_k_histo_range_error_expected_n_di[] = " error : expected {n_dims} sets of lower and upper bin edges, got the following instead : {histo_range}. (provided contains {n_dims}D values)"; static const char __pyx_k_histogramnd_returned_an_error_0[] = "histogramnd returned an error : {0}"; static const char __pyx_k_n_bins_only_positive_values_all[] = " : only positive values allowed."; static const char __pyx_k_numpy_core_multiarray_failed_to[] = "numpy.core.multiarray failed to import"; static const char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/math/chistogramnd_lut.pyx"; static const char __pyx_k_At_least_one_of_the_following_pa[] = "At least one of the following parameters has to be provided : or or "; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Case_not_supported_weights_0_and[] = "Case not supported - weights:{0} and histo:{1}."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static const char __pyx_k_Function_call_with_ambiguous_arg[] = "Function call with ambiguous argument types"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_Provided_dtype_and_weighted_hist[] = "Provided and 's dtype do not match."; static const char __pyx_k_Provided_histo_array_doesn_t_hav[] = "Provided array doesn't have the expected type : should be {0} instead of {1}."; static const char __pyx_k_The_histo_shape_does_not_matchth[] = "The shape does not matchthe shape."; static const char __pyx_k_The_shape_value_does_not_matchth[] = "The value does not matchthe shape."; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_n_bins_must_be_either_a_scalar_s[] = "n_bins must be either a scalar (same number of bins for all dimensions) or an array (number of bins for each dimension)."; static const char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; static const char __pyx_k_numpy_core_umath_failed_to_impor[] = "numpy.core.umath failed to import"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static const char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; static const char __pyx_k_The_shape_value_does_not_matchth_2[] = "The value does not matchthe shape."; static PyObject *__pyx_kp_s_15_05_2016; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_At_least_one_of_the_following_pa; static PyObject *__pyx_n_s_AttributeError; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_kp_s_Case_not_supported_weights_0_and; static PyObject *__pyx_kp_s_D_Naudet; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_kp_s_Expected_at_least_d_arguments; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; static PyObject *__pyx_kp_s_Function_call_with_ambiguous_arg; static PyObject *__pyx_n_s_ImportError; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_n_s_N; static PyObject *__pyx_kp_s_No_matching_signature_found; static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_Provided_dtype_and_weighted_hist; static PyObject *__pyx_kp_s_Provided_histo_array_doesn_t_hav; static PyObject *__pyx_n_s_RuntimeError; static PyObject *__pyx_kp_s_The_LUT_and_weights_arrays_must; static PyObject *__pyx_kp_s_The_histo_shape_does_not_matchth; static PyObject *__pyx_kp_s_The_shape_value_does_not_matchth; static PyObject *__pyx_kp_s_The_shape_value_does_not_matchth_2; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Type_not_supported_sample_0; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_kp_s__21; static PyObject *__pyx_kp_s__23; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_any; static PyObject *__pyx_n_s_arange; static PyObject *__pyx_n_s_args; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_ascontiguousarray; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_bin_idx; static PyObject *__pyx_n_s_bins_range; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_class; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_defaults; static PyObject *__pyx_n_s_dim_edges; static PyObject *__pyx_n_s_double; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_edges; static PyObject *__pyx_n_s_elem_coord; static PyObject *__pyx_n_s_elem_idx; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_end; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_equal; static PyObject *__pyx_n_s_err_histo_range; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_ex; static PyObject *__pyx_n_s_file; static PyObject *__pyx_n_s_filt_max_weights; static PyObject *__pyx_n_s_filt_min_weights; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float32_t; static PyObject *__pyx_kp_s_float32_t_int16_t; static PyObject *__pyx_kp_s_float32_t_int16_t_float32_t; static PyObject *__pyx_kp_s_float32_t_int16_t_float64_t; static PyObject *__pyx_kp_s_float32_t_int16_t_int32_t; static PyObject *__pyx_kp_s_float32_t_int16_t_int64_t; static PyObject *__pyx_kp_s_float32_t_int32_t; static PyObject *__pyx_kp_s_float32_t_int32_t_float32_t; static PyObject *__pyx_kp_s_float32_t_int32_t_float64_t; static PyObject *__pyx_kp_s_float32_t_int32_t_int32_t; static PyObject *__pyx_kp_s_float32_t_int32_t_int64_t; static PyObject *__pyx_kp_s_float32_t_int64_t; static PyObject *__pyx_kp_s_float32_t_int64_t_float32_t; static PyObject *__pyx_kp_s_float32_t_int64_t_float64_t; static PyObject *__pyx_kp_s_float32_t_int64_t_int32_t; static PyObject *__pyx_kp_s_float32_t_int64_t_int64_t; static PyObject *__pyx_n_s_float64_t; static PyObject *__pyx_kp_s_float64_t_int16_t; static PyObject *__pyx_kp_s_float64_t_int16_t_float32_t; static PyObject *__pyx_kp_s_float64_t_int16_t_float64_t; static PyObject *__pyx_kp_s_float64_t_int16_t_int32_t; static PyObject *__pyx_kp_s_float64_t_int16_t_int64_t; static PyObject *__pyx_kp_s_float64_t_int32_t; static PyObject *__pyx_kp_s_float64_t_int32_t_float32_t; static PyObject *__pyx_kp_s_float64_t_int32_t_float64_t; static PyObject *__pyx_kp_s_float64_t_int32_t_int32_t; static PyObject *__pyx_kp_s_float64_t_int32_t_int64_t; static PyObject *__pyx_kp_s_float64_t_int64_t; static PyObject *__pyx_kp_s_float64_t_int64_t_float32_t; static PyObject *__pyx_kp_s_float64_t_int64_t_float64_t; static PyObject *__pyx_kp_s_float64_t_int64_t_int32_t; static PyObject *__pyx_kp_s_float64_t_int64_t_int64_t; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_n_s_g_max; static PyObject *__pyx_n_s_g_min; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_h_c; static PyObject *__pyx_n_s_h_lut_c; static PyObject *__pyx_n_s_histo; static PyObject *__pyx_n_s_histo_c; static PyObject *__pyx_n_s_histo_lut; static PyObject *__pyx_n_s_histo_range; static PyObject *__pyx_n_s_histo_range_c; static PyObject *__pyx_kp_s_histo_range_error_expected_n_di; static PyObject *__pyx_n_s_histogramnd_from_lut; static PyObject *__pyx_n_s_histogramnd_from_lut_fused; static PyObject *__pyx_n_s_histogramnd_get_lut; static PyObject *__pyx_n_s_histogramnd_get_lut_fused; static PyObject *__pyx_kp_s_histogramnd_returned_an_error_0; static PyObject *__pyx_n_s_i; static PyObject *__pyx_n_s_i_dim; static PyObject *__pyx_n_s_i_filt_max_weights; static PyObject *__pyx_n_s_i_filt_min_weights; static PyObject *__pyx_n_s_i_histo_range; static PyObject *__pyx_n_s_i_lut; static PyObject *__pyx_n_s_i_n_bins; static PyObject *__pyx_n_s_i_n_dims; static PyObject *__pyx_n_s_i_n_elems; static PyObject *__pyx_n_s_i_sample; static PyObject *__pyx_n_s_i_weight_max; static PyObject *__pyx_n_s_i_weight_min; static PyObject *__pyx_n_s_i_weights; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_int16; static PyObject *__pyx_n_s_int16_t; static PyObject *__pyx_n_s_int32; static PyObject *__pyx_n_s_int32_t; static PyObject *__pyx_kp_s_int32_t_int16_t; static PyObject *__pyx_kp_s_int32_t_int16_t_float32_t; static PyObject *__pyx_kp_s_int32_t_int16_t_float64_t; static PyObject *__pyx_kp_s_int32_t_int16_t_int32_t; static PyObject *__pyx_kp_s_int32_t_int16_t_int64_t; static PyObject *__pyx_kp_s_int32_t_int32_t; static PyObject *__pyx_kp_s_int32_t_int32_t_float32_t; static PyObject *__pyx_kp_s_int32_t_int32_t_float64_t; static PyObject *__pyx_kp_s_int32_t_int32_t_int32_t; static PyObject *__pyx_kp_s_int32_t_int32_t_int64_t; static PyObject *__pyx_kp_s_int32_t_int64_t; static PyObject *__pyx_kp_s_int32_t_int64_t_float32_t; static PyObject *__pyx_kp_s_int32_t_int64_t_float64_t; static PyObject *__pyx_kp_s_int32_t_int64_t_int32_t; static PyObject *__pyx_kp_s_int32_t_int64_t_int64_t; static PyObject *__pyx_n_s_int64; static PyObject *__pyx_n_s_int64_t; static PyObject *__pyx_kp_s_int64_t_int16_t; static PyObject *__pyx_kp_s_int64_t_int16_t_float32_t; static PyObject *__pyx_kp_s_int64_t_int16_t_float64_t; static PyObject *__pyx_kp_s_int64_t_int16_t_int32_t; static PyObject *__pyx_kp_s_int64_t_int16_t_int64_t; static PyObject *__pyx_kp_s_int64_t_int32_t; static PyObject *__pyx_kp_s_int64_t_int32_t_float32_t; static PyObject *__pyx_kp_s_int64_t_int32_t_float64_t; static PyObject *__pyx_kp_s_int64_t_int32_t_int32_t; static PyObject *__pyx_kp_s_int64_t_int32_t_int64_t; static PyObject *__pyx_kp_s_int64_t_int64_t; static PyObject *__pyx_kp_s_int64_t_int64_t_float32_t; static PyObject *__pyx_kp_s_int64_t_int64_t_float64_t; static PyObject *__pyx_kp_s_int64_t_int64_t_int32_t; static PyObject *__pyx_kp_s_int64_t_int64_t_int64_t; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_kind; static PyObject *__pyx_n_s_kwargs; static PyObject *__pyx_n_s_last_bin_closed; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_lut; static PyObject *__pyx_n_s_lut_c; static PyObject *__pyx_n_s_lut_dtype; static PyObject *__pyx_n_s_lut_idx; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_max_idx; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_n_bins; static PyObject *__pyx_n_s_n_bins_c; static PyObject *__pyx_kp_s_n_bins_must_be_either_a_scalar_s; static PyObject *__pyx_kp_s_n_bins_only_positive_values_all; static PyObject *__pyx_n_s_n_dims; static PyObject *__pyx_n_s_n_elem; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_ndarray; static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_ndmin; static PyObject *__pyx_n_s_newbyteorder; static PyObject *__pyx_n_s_np; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_kp_s_numpy_core_multiarray_failed_to; static PyObject *__pyx_kp_s_numpy_core_umath_failed_to_impor; static PyObject *__pyx_n_s_o_histo; static PyObject *__pyx_n_s_o_lut; static PyObject *__pyx_n_s_o_weighted_histo; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_print; static PyObject *__pyx_n_s_prod; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_rc; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_rng_max; static PyObject *__pyx_n_s_rng_min; static PyObject *__pyx_n_s_s_shape; static PyObject *__pyx_n_s_sample; static PyObject *__pyx_n_s_sample_c; static PyObject *__pyx_n_s_sample_type; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_signatures; static PyObject *__pyx_n_s_silx_math_chistogramnd_lut; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_split; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_strip; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_test; static PyObject *__pyx_n_s_tile; static PyObject *__pyx_n_s_type; static PyObject *__pyx_n_s_uint32; static PyObject *__pyx_n_s_uint64; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_kp_u_unknown_dtype_code_in_numpy_pxd; static PyObject *__pyx_n_s_unpack; static PyObject *__pyx_kp_s_users_kieffer_workspace_400_rel; static PyObject *__pyx_n_s_w_c; static PyObject *__pyx_n_s_w_dtype; static PyObject *__pyx_n_s_w_h_c; static PyObject *__pyx_n_s_weight_max; static PyObject *__pyx_n_s_weight_min; static PyObject *__pyx_n_s_weighted_histo; static PyObject *__pyx_n_s_weights; static PyObject *__pyx_n_s_zeros; static PyObject *__pyx_n_s_zip; static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_histogramnd_get_lut(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_sample, PyObject *__pyx_v_histo_range, PyObject *__pyx_v_n_bins, PyObject *__pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_2histogramnd_from_lut(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_weights, PyObject *__pyx_v_histo_lut, PyObject *__pyx_v_histo, PyObject *__pyx_v_weighted_histo, PyObject *__pyx_v_shape, PyObject *__pyx_v_dtype, PyObject *__pyx_v_weight_min, PyObject *__pyx_v_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_4_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_signatures, PyObject *__pyx_v_args, PyObject *__pyx_v_kwargs, CYTHON_UNUSED PyObject *__pyx_v_defaults); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_8_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_10_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_12_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_14_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_16_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_18_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_20_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_22_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_24_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_26_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_28_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_30_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_32_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_34_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_36_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_38_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_40_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_42_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_44_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_46_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_48_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_50_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_52_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_54_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_float32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_56_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_58_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_60_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_62_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_64_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_66_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_68_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_70_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_72_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_74_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_76_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_78_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int32_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_80_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_82_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_84_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_86_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_88_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_90_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_92_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_94_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_96_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_98_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_100_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_102_histogramnd_from_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_weights, __Pyx_memviewslice __pyx_v_i_lut, __Pyx_memviewslice __pyx_v_o_histo, __Pyx_memviewslice __pyx_v_o_weighted_histo, int __pyx_v_i_n_elems, int __pyx_v_i_filt_min_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_min, int __pyx_v_i_filt_max_weights, __pyx_t_5numpy_int64_t __pyx_v_i_weight_max); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_6_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_signatures, PyObject *__pyx_v_args, PyObject *__pyx_v_kwargs, CYTHON_UNUSED PyObject *__pyx_v_defaults); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_106_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_108_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_110_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_112_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_114_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_116_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_118_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_120_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_122_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_124_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_126_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static PyObject *__pyx_pf_4silx_4math_16chistogramnd_lut_128_histogramnd_get_lut_fused(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_i_sample, int __pyx_v_i_n_dims, int __pyx_v_i_n_elems, __Pyx_memviewslice __pyx_v_i_histo_range, __Pyx_memviewslice __pyx_v_i_n_bins, __Pyx_memviewslice __pyx_v_o_lut, __Pyx_memviewslice __pyx_v_o_histo, int __pyx_v_last_bin_closed); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array___cinit__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_shape, Py_ssize_t __pyx_v_itemsize, PyObject *__pyx_v_format, PyObject *__pyx_v_mode, int __pyx_v_allocate_buffer); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_2__getbuffer__(struct __pyx_array_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_array___pyx_pf_15View_dot_MemoryView_5array_4__dealloc__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_5array_7memview___get__(struct __pyx_array_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_6__getattr__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_attr); /* proto */ static PyObject *__pyx_array___pyx_pf_15View_dot_MemoryView_5array_8__getitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item); /* proto */ static int __pyx_array___pyx_pf_15View_dot_MemoryView_5array_10__setitem__(struct __pyx_array_obj *__pyx_v_self, PyObject *__pyx_v_item, PyObject *__pyx_v_value); /* proto */ static int __pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum___init__(struct __pyx_MemviewEnum_obj *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ static PyObject *__pyx_MemviewEnum___pyx_pf_15View_dot_MemoryView_4Enum_2__repr__(struct __pyx_MemviewEnum_obj *__pyx_v_self); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview___cinit__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj, int __pyx_v_flags, int __pyx_v_dtype_is_object); /* proto */ static void __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_2__dealloc__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_4__getitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_6__setitem__(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto */ static int __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_8__getbuffer__(struct __pyx_memoryview_obj *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_1T___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4base___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_5shape___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_7strides___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_10suboffsets___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4ndim___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_8itemsize___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_6nbytes___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_10memoryview_4size___get__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static Py_ssize_t __pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_10__len__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_12__repr__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_14__str__(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_16is_c_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_18is_f_contig(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_20copy(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_memoryview___pyx_pf_15View_dot_MemoryView_10memoryview_22copy_fortran(struct __pyx_memoryview_obj *__pyx_v_self); /* proto */ static void __pyx_memoryviewslice___pyx_pf_15View_dot_MemoryView_16_memoryviewslice___dealloc__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_15View_dot_MemoryView_16_memoryviewslice_4base___get__(struct __pyx_memoryviewslice_obj *__pyx_v_self); /* proto */ static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_tp_new__memoryviewslice(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ static PyObject *__pyx_int_0; static PyObject *__pyx_int_1; static PyObject *__pyx_int_2; static PyObject *__pyx_int_32768; static PyObject *__pyx_int_2147483648; static PyObject *__pyx_int_neg_1; 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static PyObject *__pyx_tuple__30; static PyObject *__pyx_tuple__31; static PyObject *__pyx_tuple__32; static PyObject *__pyx_tuple__33; static PyObject *__pyx_tuple__34; static PyObject *__pyx_tuple__35; static PyObject *__pyx_tuple__36; static PyObject *__pyx_tuple__37; static PyObject *__pyx_tuple__38; static PyObject *__pyx_tuple__39; static PyObject *__pyx_tuple__40; static PyObject *__pyx_tuple__41; static PyObject *__pyx_tuple__42; static PyObject *__pyx_tuple__43; static PyObject *__pyx_tuple__44; static PyObject *__pyx_tuple__45; static PyObject *__pyx_tuple__46; static PyObject *__pyx_tuple__47; static PyObject *__pyx_tuple__48; static PyObject *__pyx_tuple__52; static PyObject *__pyx_tuple__53; static PyObject *__pyx_tuple__55; static PyObject *__pyx_tuple__57; static PyObject *__pyx_tuple__59; static PyObject *__pyx_tuple__61; static PyObject *__pyx_tuple__62; static PyObject *__pyx_tuple__63; static PyObject *__pyx_tuple__64; static PyObject *__pyx_tuple__65; static PyObject *__pyx_codeobj__54; static PyObject *__pyx_codeobj__56; static PyObject *__pyx_codeobj__58; static PyObject *__pyx_codeobj__60; /* "silx/math/chistogramnd_lut.pyx":58 * * * def histogramnd_get_lut(sample, # <<<<<<<<<<<<<< * histo_range, * n_bins, */ /* Python wrapper */ static PyObject *__pyx_pw_4silx_4math_16chistogramnd_lut_1histogramnd_get_lut(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4silx_4math_16chistogramnd_lut_histogramnd_get_lut[] = "histogramnd_get_lut(sample, histo_range, n_bins, last_bin_closed=False)\nTBD\n\n :param sample:\n The data to be histogrammed.\n Its shape must be either (N,) if it contains one dimensional\n coordinates, or an (N, D) array where the rows are the\n coordinates of points in a D dimensional space.\n The following dtypes are supported : :class:`numpy.float64`,\n :class:`numpy.float32`, :class:`numpy.int32`.\n :type sample: :class:`numpy.array`\n\n :param histo_range:\n A (N, 2) array containing the histogram range along each dimension,\n where N is the sample's number of dimensions.\n :type histo_range: array_like\n\n :param n_bins:\n The number of bins :\n * a scalar (same number of bins for all dimensions)\n * a D elements array (number of bins for each dimensions)\n :type n_bins: scalar or array_like\n\n :param last_bin_closed:\n By default the last bin is half\n open (i.e.: [x,y) ; x included, y\n excluded), like all the other bins.\n Set this parameter to true if you want\n the LAST bin to be closed.\n :type last_bin_closed: *optional*, :class:`python.boolean`\n\n :return: The indices for each sample and the histogram (bin counts).\n :rtype: tuple : (:class:`numpy.array`, :class:`numpy.array`)\n "; static PyMethodDef __pyx_mdef_4silx_4math_16chistogramnd_lut_1histogramnd_get_lut = {"histogramnd_get_lut", (PyCFunction)__pyx_pw_4silx_4math_16chistogramnd_lut_1histogramnd_get_lut, METH_VARARGS|METH_KEYWORDS, __pyx_doc_4silx_4math_16chistogramnd_lut_histogramnd_get_lut}; static PyObject *__pyx_pw_4silx_4math_16chistogramnd_lut_1histogramnd_get_lut(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_sample = 0; PyObject *__pyx_v_histo_range = 0; PyObject *__pyx_v_n_bins = 0; PyObject *__pyx_v_last_bin_closed = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("histogramnd_get_lut (wrapper)", 0); { static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_sample,&__pyx_n_s_histo_range,&__pyx_n_s_n_bins,&__pyx_n_s_last_bin_closed,0}; 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for (__pyx_t_2 = 0; __pyx_t_2 < __pyx_t_1; __pyx_t_2+=1) { __pyx_v_i = __pyx_t_2; /* "silx/math/chistogramnd_lut.pyx":386 * * for i in range(i_n_dims): * g_min[i] = i_histo_range[2*i] # <<<<<<<<<<<<<< * g_max[i] = i_histo_range[2*i+1] * bins_range[i] = g_max[i] - g_min[i] */ __pyx_t_3 = (2 * __pyx_v_i); (__pyx_v_g_min[__pyx_v_i]) = (*((double *) ( /* dim=0 */ (__pyx_v_i_histo_range.data + __pyx_t_3 * __pyx_v_i_histo_range.strides[0]) ))); /* "silx/math/chistogramnd_lut.pyx":387 * for i in range(i_n_dims): * g_min[i] = i_histo_range[2*i] * g_max[i] = i_histo_range[2*i+1] # <<<<<<<<<<<<<< * bins_range[i] = g_max[i] - g_min[i] * */ __pyx_t_4 = ((2 * __pyx_v_i) + 1); (__pyx_v_g_max[__pyx_v_i]) = (*((double *) ( /* dim=0 */ (__pyx_v_i_histo_range.data + __pyx_t_4 * __pyx_v_i_histo_range.strides[0]) ))); /* "silx/math/chistogramnd_lut.pyx":388 * g_min[i] = i_histo_range[2*i] * g_max[i] = i_histo_range[2*i+1] * bins_range[i] = g_max[i] - g_min[i] # <<<<<<<<<<<<<< * * elem_idx = 0 - i_n_dims */ (__pyx_v_bins_range[__pyx_v_i]) = ((__pyx_v_g_max[__pyx_v_i]) - (__pyx_v_g_min[__pyx_v_i])); 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/* "silx/math/chistogramnd_lut.pyx":419 * if elem_coord < g_max[i]: * bin_idx = (bin_idx * i_n_bins[i] + # noqa * (((elem_coord - g_min[i]) * i_n_bins[i]) / # <<<<<<<<<<<<<< * bins_range[i])) * else: */ __pyx_t_8 = __pyx_v_i; /* "silx/math/chistogramnd_lut.pyx":418 * # (two tests) * if elem_coord < g_max[i]: * bin_idx = (bin_idx * i_n_bins[i] + # noqa # <<<<<<<<<<<<<< * (((elem_coord - g_min[i]) * i_n_bins[i]) / * bins_range[i])) */ __pyx_v_bin_idx = ((long)((__pyx_v_bin_idx * (*((int *) ( /* dim=0 */ (__pyx_v_i_n_bins.data + __pyx_t_7 * __pyx_v_i_n_bins.strides[0]) )))) + (((__pyx_v_elem_coord - (__pyx_v_g_min[__pyx_v_i])) * (*((int *) ( /* dim=0 */ (__pyx_v_i_n_bins.data + __pyx_t_8 * __pyx_v_i_n_bins.strides[0]) )))) / (__pyx_v_bins_range[__pyx_v_i])))); /* "silx/math/chistogramnd_lut.pyx":417 * # than coordinates higher or equal to the max * # (two tests) * if elem_coord < g_max[i]: # <<<<<<<<<<<<<< * bin_idx = (bin_idx * i_n_bins[i] + # noqa * (((elem_coord - g_min[i]) * i_n_bins[i]) / */ goto __pyx_L13; 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if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* "View.MemoryView":1142 * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * else: */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1143 * memcpy(dst_data, src_data, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L4:; /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ goto __pyx_L3; } /* "View.MemoryView":1145 * dst_data += dst_stride * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * _copy_strided_to_strided(src_data, src_strides + 1, * dst_data, dst_strides + 1, */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ /* function exit code */ } /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ static void copy_strided_to_strided(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_dst, int __pyx_v_ndim, size_t __pyx_v_itemsize) { /* "View.MemoryView":1156 * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: * _copy_strided_to_strided(src.data, src.strides, dst.data, dst.strides, # <<<<<<<<<<<<<< * src.shape, dst.shape, ndim, itemsize) * */ _copy_strided_to_strided(__pyx_v_src->data, __pyx_v_src->strides, __pyx_v_dst->data, __pyx_v_dst->strides, __pyx_v_src->shape, __pyx_v_dst->shape, __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1153 * dst_data += dst_stride * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *dst, * int ndim, size_t itemsize) nogil: */ /* function exit code */ } /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *__pyx_v_src, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_size; Py_ssize_t __pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1163 * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i * cdef Py_ssize_t size = src.memview.view.itemsize # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_size = __pyx_t_1; /* "View.MemoryView":1165 * cdef Py_ssize_t size = src.memview.view.itemsize * * for i in range(ndim): # <<<<<<<<<<<<<< * size *= src.shape[i] * */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1166 * * for i in range(ndim): * size *= src.shape[i] # <<<<<<<<<<<<<< * * return size */ __pyx_v_size = (__pyx_v_size * (__pyx_v_src->shape[__pyx_v_i])); } /* "View.MemoryView":1168 * size *= src.shape[i] * * return size # <<<<<<<<<<<<<< * * @cname('__pyx_fill_contig_strides_array') */ __pyx_r = __pyx_v_size; goto __pyx_L0; /* "View.MemoryView":1160 * * @cname('__pyx_memoryview_slice_get_size') * cdef Py_ssize_t slice_get_size(__Pyx_memviewslice *src, int ndim) nogil: # <<<<<<<<<<<<<< * "Return the size of the memory occupied by the slice in number of bytes" * cdef int i */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, Py_ssize_t __pyx_v_stride, int __pyx_v_ndim, char __pyx_v_order) { int __pyx_v_idx; Py_ssize_t __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ __pyx_t_1 = ((__pyx_v_order == 'F') != 0); if (__pyx_t_1) { /* "View.MemoryView":1181 * * if order == 'F': * for idx in range(ndim): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ __pyx_t_2 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_idx = __pyx_t_3; /* "View.MemoryView":1182 * if order == 'F': * for idx in range(ndim): * strides[idx] = stride # <<<<<<<<<<<<<< * stride = stride * shape[idx] * else: */ (__pyx_v_strides[__pyx_v_idx]) = __pyx_v_stride; /* "View.MemoryView":1183 * for idx in range(ndim): * strides[idx] = stride * stride = stride * shape[idx] # <<<<<<<<<<<<<< * else: * for idx in range(ndim - 1, -1, -1): */ __pyx_v_stride = (__pyx_v_stride * (__pyx_v_shape[__pyx_v_idx])); } /* "View.MemoryView":1180 * cdef int idx * * if order == 'F': # <<<<<<<<<<<<<< * for idx in range(ndim): * strides[idx] = stride */ goto __pyx_L3; } /* "View.MemoryView":1185 * stride = stride * shape[idx] * else: * for idx in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * strides[idx] = stride * stride = stride * shape[idx] */ /*else*/ { for (__pyx_t_2 = (__pyx_v_ndim - 1); __pyx_t_2 > -1L; __pyx_t_2-=1) { __pyx_v_idx = __pyx_t_2; /* "View.MemoryView":1186 * else: * for idx in range(ndim - 1, -1, -1): * strides[idx] = stride # <<<<<<<<<<<<<< * stride = stride * shape[idx] * */ (__pyx_v_strides[__pyx_v_idx]) = __pyx_v_stride; /* "View.MemoryView":1187 * for idx in range(ndim - 1, -1, -1): * strides[idx] = stride * stride = stride * shape[idx] # <<<<<<<<<<<<<< * * return stride */ __pyx_v_stride = (__pyx_v_stride * (__pyx_v_shape[__pyx_v_idx])); } } __pyx_L3:; /* "View.MemoryView":1189 * stride = stride * shape[idx] * * return stride # <<<<<<<<<<<<<< * * @cname('__pyx_memoryview_copy_data_to_temp') */ __pyx_r = __pyx_v_stride; goto __pyx_L0; /* "View.MemoryView":1171 * * @cname('__pyx_fill_contig_strides_array') * cdef Py_ssize_t fill_contig_strides_array( # <<<<<<<<<<<<<< * Py_ssize_t *shape, Py_ssize_t *strides, Py_ssize_t stride, * int ndim, char order) nogil: */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1192 * * @cname('__pyx_memoryview_copy_data_to_temp') * cdef void *copy_data_to_temp(__Pyx_memviewslice *src, # <<<<<<<<<<<<<< * __Pyx_memviewslice *tmpslice, * char order, */ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *__pyx_v_src, __Pyx_memviewslice *__pyx_v_tmpslice, char __pyx_v_order, int __pyx_v_ndim) { int __pyx_v_i; void *__pyx_v_result; size_t __pyx_v_itemsize; size_t __pyx_v_size; void *__pyx_r; Py_ssize_t __pyx_t_1; int __pyx_t_2; int __pyx_t_3; struct __pyx_memoryview_obj *__pyx_t_4; int __pyx_t_5; /* "View.MemoryView":1203 * cdef void *result * * cdef size_t itemsize = src.memview.view.itemsize # <<<<<<<<<<<<<< * cdef size_t size = slice_get_size(src, ndim) * */ __pyx_t_1 = __pyx_v_src->memview->view.itemsize; __pyx_v_itemsize = __pyx_t_1; /* "View.MemoryView":1204 * * cdef size_t itemsize = src.memview.view.itemsize * cdef size_t size = slice_get_size(src, ndim) # <<<<<<<<<<<<<< * * result = malloc(size) */ __pyx_v_size = __pyx_memoryview_slice_get_size(__pyx_v_src, __pyx_v_ndim); /* "View.MemoryView":1206 * cdef size_t size = slice_get_size(src, ndim) * * result = malloc(size) # <<<<<<<<<<<<<< * if not result: * _err(MemoryError, NULL) */ __pyx_v_result = malloc(__pyx_v_size); /* "View.MemoryView":1207 * * result = malloc(size) * if not result: # <<<<<<<<<<<<<< * _err(MemoryError, NULL) * */ __pyx_t_2 = ((!(__pyx_v_result != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1208 * result = malloc(size) * if not result: * _err(MemoryError, NULL) # <<<<<<<<<<<<<< * * */ __pyx_t_3 = __pyx_memoryview_err(__pyx_builtin_MemoryError, NULL); if (unlikely(__pyx_t_3 == -1)) __PYX_ERR(2, 1208, __pyx_L1_error) /* "View.MemoryView":1207 * * result = malloc(size) * if not result: # <<<<<<<<<<<<<< * _err(MemoryError, NULL) * */ } /* "View.MemoryView":1211 * * * tmpslice.data = result # <<<<<<<<<<<<<< * tmpslice.memview = src.memview * for i in range(ndim): */ __pyx_v_tmpslice->data = ((char *)__pyx_v_result); /* "View.MemoryView":1212 * * tmpslice.data = result * tmpslice.memview = src.memview # <<<<<<<<<<<<<< * for i in range(ndim): * tmpslice.shape[i] = src.shape[i] */ __pyx_t_4 = __pyx_v_src->memview; __pyx_v_tmpslice->memview = __pyx_t_4; /* "View.MemoryView":1213 * tmpslice.data = result * tmpslice.memview = src.memview * for i in range(ndim): # <<<<<<<<<<<<<< * tmpslice.shape[i] = src.shape[i] * tmpslice.suboffsets[i] = -1 */ __pyx_t_3 = __pyx_v_ndim; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_3; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1214 * tmpslice.memview = src.memview * for i in range(ndim): * tmpslice.shape[i] = src.shape[i] # <<<<<<<<<<<<<< * tmpslice.suboffsets[i] = -1 * */ (__pyx_v_tmpslice->shape[__pyx_v_i]) = (__pyx_v_src->shape[__pyx_v_i]); /* "View.MemoryView":1215 * for i in range(ndim): * tmpslice.shape[i] = src.shape[i] * tmpslice.suboffsets[i] = -1 # <<<<<<<<<<<<<< * * fill_contig_strides_array(&tmpslice.shape[0], &tmpslice.strides[0], itemsize, */ (__pyx_v_tmpslice->suboffsets[__pyx_v_i]) = -1L; } /* "View.MemoryView":1217 * tmpslice.suboffsets[i] = -1 * * fill_contig_strides_array(&tmpslice.shape[0], &tmpslice.strides[0], itemsize, # 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broadcast_leading(&src, src_ndim, dst_ndim) * elif dst_ndim < src_ndim: # <<<<<<<<<<<<<< * broadcast_leading(&dst, dst_ndim, src_ndim) * */ __pyx_t_2 = ((__pyx_v_dst_ndim < __pyx_v_src_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1271 * broadcast_leading(&src, src_ndim, dst_ndim) * elif dst_ndim < src_ndim: * broadcast_leading(&dst, dst_ndim, src_ndim) # <<<<<<<<<<<<<< * * cdef int ndim = max(src_ndim, dst_ndim) */ __pyx_memoryview_broadcast_leading((&__pyx_v_dst), __pyx_v_dst_ndim, __pyx_v_src_ndim); /* "View.MemoryView":1270 * if src_ndim < dst_ndim: * broadcast_leading(&src, src_ndim, dst_ndim) * elif dst_ndim < src_ndim: # <<<<<<<<<<<<<< * broadcast_leading(&dst, dst_ndim, src_ndim) * */ } __pyx_L3:; /* "View.MemoryView":1273 * broadcast_leading(&dst, dst_ndim, src_ndim) * * cdef int ndim = max(src_ndim, dst_ndim) # <<<<<<<<<<<<<< * * for i in range(ndim): */ __pyx_t_3 = __pyx_v_dst_ndim; __pyx_t_4 = __pyx_v_src_ndim; if (((__pyx_t_3 > __pyx_t_4) != 0)) { __pyx_t_5 = __pyx_t_3; } else { __pyx_t_5 = __pyx_t_4; } __pyx_v_ndim = __pyx_t_5; /* "View.MemoryView":1275 * cdef int ndim = max(src_ndim, dst_ndim) * * for i in range(ndim): # <<<<<<<<<<<<<< * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: */ __pyx_t_5 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_5; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1276 * * for i in range(ndim): * if src.shape[i] != dst.shape[i]: # <<<<<<<<<<<<<< * if src.shape[i] == 1: * broadcasting = True */ __pyx_t_2 = (((__pyx_v_src.shape[__pyx_v_i]) != (__pyx_v_dst.shape[__pyx_v_i])) != 0); if (__pyx_t_2) { /* "View.MemoryView":1277 * for i in range(ndim): * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: # <<<<<<<<<<<<<< * broadcasting = True * src.strides[i] = 0 */ __pyx_t_2 = (((__pyx_v_src.shape[__pyx_v_i]) == 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1278 * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: * broadcasting = True # <<<<<<<<<<<<<< * src.strides[i] = 0 * else: */ __pyx_v_broadcasting = 1; /* "View.MemoryView":1279 * if src.shape[i] == 1: * broadcasting = True * src.strides[i] = 0 # <<<<<<<<<<<<<< * else: * _err_extents(i, dst.shape[i], src.shape[i]) */ (__pyx_v_src.strides[__pyx_v_i]) = 0; /* "View.MemoryView":1277 * for i in range(ndim): * if src.shape[i] != dst.shape[i]: * if src.shape[i] == 1: # <<<<<<<<<<<<<< * broadcasting = True * src.strides[i] = 0 */ goto __pyx_L7; } /* "View.MemoryView":1281 * src.strides[i] = 0 * else: * _err_extents(i, dst.shape[i], src.shape[i]) # <<<<<<<<<<<<<< * * if src.suboffsets[i] >= 0: */ /*else*/ { __pyx_t_4 = __pyx_memoryview_err_extents(__pyx_v_i, (__pyx_v_dst.shape[__pyx_v_i]), (__pyx_v_src.shape[__pyx_v_i])); if (unlikely(__pyx_t_4 == -1)) __PYX_ERR(2, 1281, __pyx_L1_error) } __pyx_L7:; /* "View.MemoryView":1276 * * for i in range(ndim): * if src.shape[i] != dst.shape[i]: # <<<<<<<<<<<<<< * if src.shape[i] == 1: * broadcasting = True */ } /* "View.MemoryView":1283 * _err_extents(i, dst.shape[i], src.shape[i]) * * if src.suboffsets[i] >= 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Dimension %d is not direct", i) * */ __pyx_t_2 = (((__pyx_v_src.suboffsets[__pyx_v_i]) >= 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":1284 * * if src.suboffsets[i] >= 0: * _err_dim(ValueError, "Dimension %d is not direct", i) # <<<<<<<<<<<<<< * * if slices_overlap(&src, &dst, ndim, itemsize): */ __pyx_t_4 = __pyx_memoryview_err_dim(__pyx_builtin_ValueError, ((char *)"Dimension %d is not direct"), __pyx_v_i); if (unlikely(__pyx_t_4 == -1)) __PYX_ERR(2, 1284, __pyx_L1_error) /* "View.MemoryView":1283 * _err_extents(i, dst.shape[i], src.shape[i]) * * if src.suboffsets[i] >= 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Dimension %d is not direct", i) * */ } } /* "View.MemoryView":1286 * _err_dim(ValueError, "Dimension %d is not direct", i) * * if slices_overlap(&src, &dst, ndim, itemsize): # <<<<<<<<<<<<<< * * if not slice_is_contig(src, order, ndim): */ __pyx_t_2 = (__pyx_slices_overlap((&__pyx_v_src), (&__pyx_v_dst), __pyx_v_ndim, __pyx_v_itemsize) != 0); if (__pyx_t_2) { /* "View.MemoryView":1288 * if slices_overlap(&src, &dst, ndim, itemsize): * * if not slice_is_contig(src, order, ndim): # <<<<<<<<<<<<<< * order = get_best_order(&dst, ndim) * */ __pyx_t_2 = ((!(__pyx_memviewslice_is_contig(__pyx_v_src, __pyx_v_order, __pyx_v_ndim) != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1289 * * if not slice_is_contig(src, order, ndim): * order = get_best_order(&dst, ndim) # <<<<<<<<<<<<<< * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) */ __pyx_v_order = __pyx_get_best_slice_order((&__pyx_v_dst), __pyx_v_ndim); /* "View.MemoryView":1288 * if slices_overlap(&src, &dst, ndim, itemsize): * * if not slice_is_contig(src, order, ndim): # <<<<<<<<<<<<<< * order = get_best_order(&dst, ndim) * */ } /* "View.MemoryView":1291 * order = get_best_order(&dst, ndim) * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) # <<<<<<<<<<<<<< * src = tmp * */ __pyx_t_6 = __pyx_memoryview_copy_data_to_temp((&__pyx_v_src), (&__pyx_v_tmp), __pyx_v_order, __pyx_v_ndim); if (unlikely(__pyx_t_6 == NULL)) __PYX_ERR(2, 1291, __pyx_L1_error) __pyx_v_tmpdata = __pyx_t_6; /* "View.MemoryView":1292 * * tmpdata = copy_data_to_temp(&src, &tmp, order, ndim) * src = tmp # <<<<<<<<<<<<<< * * if not broadcasting: */ __pyx_v_src = __pyx_v_tmp; /* "View.MemoryView":1286 * _err_dim(ValueError, "Dimension %d is not direct", i) * * if slices_overlap(&src, &dst, ndim, itemsize): # <<<<<<<<<<<<<< * * if not slice_is_contig(src, order, ndim): */ } /* "View.MemoryView":1294 * src = tmp * * if not broadcasting: # <<<<<<<<<<<<<< * * */ __pyx_t_2 = ((!(__pyx_v_broadcasting != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1297 * * * if slice_is_contig(src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): */ __pyx_t_2 = (__pyx_memviewslice_is_contig(__pyx_v_src, 'C', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1298 * * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) # <<<<<<<<<<<<<< * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig(__pyx_v_dst, 'C', __pyx_v_ndim); /* "View.MemoryView":1297 * * * if slice_is_contig(src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): */ goto __pyx_L12; } /* "View.MemoryView":1299 * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'F', ndim) * */ __pyx_t_2 = (__pyx_memviewslice_is_contig(__pyx_v_src, 'F', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1300 * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) # <<<<<<<<<<<<<< * * if direct_copy: */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig(__pyx_v_dst, 'F', __pyx_v_ndim); /* "View.MemoryView":1299 * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'F', ndim) * */ } __pyx_L12:; /* "View.MemoryView":1302 * direct_copy = slice_is_contig(dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ __pyx_t_2 = (__pyx_v_direct_copy != 0); if (__pyx_t_2) { /* "View.MemoryView":1304 * if direct_copy: * * refcount_copying(&dst, dtype_is_object, ndim, False) # <<<<<<<<<<<<<< * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1305 * * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) # <<<<<<<<<<<<<< * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) */ memcpy(__pyx_v_dst.data, __pyx_v_src.data, __pyx_memoryview_slice_get_size((&__pyx_v_src), __pyx_v_ndim)); /* "View.MemoryView":1306 * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * free(tmpdata) * return 0 */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1307 * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) # <<<<<<<<<<<<<< * return 0 * */ free(__pyx_v_tmpdata); /* "View.MemoryView":1308 * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) * return 0 # <<<<<<<<<<<<<< * * if order == 'F' == get_best_order(&dst, ndim): */ __pyx_r = 0; goto __pyx_L0; /* "View.MemoryView":1302 * direct_copy = slice_is_contig(dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ } /* "View.MemoryView":1294 * src = tmp * * if not broadcasting: # <<<<<<<<<<<<<< * * */ } /* "View.MemoryView":1310 * return 0 * * if order == 'F' == get_best_order(&dst, ndim): # <<<<<<<<<<<<<< * * */ __pyx_t_2 = (__pyx_v_order == 'F'); if (__pyx_t_2) { __pyx_t_2 = ('F' == __pyx_get_best_slice_order((&__pyx_v_dst), __pyx_v_ndim)); } __pyx_t_7 = (__pyx_t_2 != 0); if (__pyx_t_7) { /* "View.MemoryView":1313 * * * transpose_memslice(&src) # <<<<<<<<<<<<<< * transpose_memslice(&dst) * */ __pyx_t_5 = __pyx_memslice_transpose((&__pyx_v_src)); if (unlikely(__pyx_t_5 == 0)) __PYX_ERR(2, 1313, __pyx_L1_error) /* "View.MemoryView":1314 * * transpose_memslice(&src) * transpose_memslice(&dst) # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ __pyx_t_5 = __pyx_memslice_transpose((&__pyx_v_dst)); if (unlikely(__pyx_t_5 == 0)) __PYX_ERR(2, 1314, __pyx_L1_error) /* "View.MemoryView":1310 * return 0 * * if order == 'F' == get_best_order(&dst, ndim): # <<<<<<<<<<<<<< * * */ } /* "View.MemoryView":1316 * transpose_memslice(&dst) * * refcount_copying(&dst, dtype_is_object, ndim, False) # <<<<<<<<<<<<<< * copy_strided_to_strided(&src, &dst, ndim, itemsize) * refcount_copying(&dst, dtype_is_object, ndim, True) */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1317 * * refcount_copying(&dst, dtype_is_object, ndim, False) * copy_strided_to_strided(&src, &dst, ndim, itemsize) # <<<<<<<<<<<<<< * refcount_copying(&dst, dtype_is_object, ndim, True) * */ copy_strided_to_strided((&__pyx_v_src), (&__pyx_v_dst), __pyx_v_ndim, __pyx_v_itemsize); /* "View.MemoryView":1318 * refcount_copying(&dst, dtype_is_object, ndim, False) * copy_strided_to_strided(&src, &dst, ndim, itemsize) * refcount_copying(&dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * free(tmpdata) */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1320 * refcount_copying(&dst, dtype_is_object, ndim, True) * * free(tmpdata) # <<<<<<<<<<<<<< * return 0 * */ free(__pyx_v_tmpdata); /* "View.MemoryView":1321 * * free(tmpdata) * return 0 # <<<<<<<<<<<<<< * * @cname('__pyx_memoryview_broadcast_leading') */ __pyx_r = 0; goto __pyx_L0; /* "View.MemoryView":1252 * * @cname('__pyx_memoryview_copy_contents') * cdef int memoryview_copy_contents(__Pyx_memviewslice src, # <<<<<<<<<<<<<< * __Pyx_memviewslice dst, * int src_ndim, int dst_ndim, */ /* function exit code */ __pyx_L1_error:; { #ifdef WITH_THREAD PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure(); #endif __Pyx_AddTraceback("View.MemoryView.memoryview_copy_contents", __pyx_clineno, __pyx_lineno, __pyx_filename); #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif } __pyx_r = -1; __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1324 * * @cname('__pyx_memoryview_broadcast_leading') * cdef void broadcast_leading(__Pyx_memviewslice *mslice, # <<<<<<<<<<<<<< * int ndim, * int ndim_other) nogil: */ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim, int __pyx_v_ndim_other) { int __pyx_v_i; int __pyx_v_offset; int __pyx_t_1; int __pyx_t_2; /* "View.MemoryView":1328 * int ndim_other) nogil: * cdef int i * cdef int offset = ndim_other - ndim # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_offset = (__pyx_v_ndim_other - __pyx_v_ndim); /* "View.MemoryView":1330 * cdef int offset = ndim_other - ndim * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * mslice.shape[i + offset] = mslice.shape[i] * mslice.strides[i + offset] = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1331 * * for i in range(ndim - 1, -1, -1): * mslice.shape[i + offset] = mslice.shape[i] # <<<<<<<<<<<<<< * mslice.strides[i + offset] = mslice.strides[i] * mslice.suboffsets[i + offset] = mslice.suboffsets[i] */ (__pyx_v_mslice->shape[(__pyx_v_i + __pyx_v_offset)]) = (__pyx_v_mslice->shape[__pyx_v_i]); /* "View.MemoryView":1332 * for i in range(ndim - 1, -1, -1): * mslice.shape[i + offset] = mslice.shape[i] * mslice.strides[i + offset] = mslice.strides[i] # <<<<<<<<<<<<<< * mslice.suboffsets[i + offset] = mslice.suboffsets[i] * */ (__pyx_v_mslice->strides[(__pyx_v_i + __pyx_v_offset)]) = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1333 * mslice.shape[i + offset] = mslice.shape[i] * mslice.strides[i + offset] = mslice.strides[i] * mslice.suboffsets[i + offset] = mslice.suboffsets[i] # <<<<<<<<<<<<<< * * for i in range(offset): */ (__pyx_v_mslice->suboffsets[(__pyx_v_i + __pyx_v_offset)]) = (__pyx_v_mslice->suboffsets[__pyx_v_i]); } /* "View.MemoryView":1335 * mslice.suboffsets[i + offset] = mslice.suboffsets[i] * * for i in range(offset): # <<<<<<<<<<<<<< * mslice.shape[i] = 1 * mslice.strides[i] = mslice.strides[0] */ __pyx_t_1 = __pyx_v_offset; for (__pyx_t_2 = 0; __pyx_t_2 < __pyx_t_1; __pyx_t_2+=1) { __pyx_v_i = __pyx_t_2; /* "View.MemoryView":1336 * * for i in range(offset): * mslice.shape[i] = 1 # <<<<<<<<<<<<<< * mslice.strides[i] = mslice.strides[0] * mslice.suboffsets[i] = -1 */ (__pyx_v_mslice->shape[__pyx_v_i]) = 1; /* "View.MemoryView":1337 * for i in range(offset): * mslice.shape[i] = 1 * mslice.strides[i] = mslice.strides[0] # <<<<<<<<<<<<<< * mslice.suboffsets[i] = -1 * */ (__pyx_v_mslice->strides[__pyx_v_i]) = (__pyx_v_mslice->strides[0]); /* "View.MemoryView":1338 * mslice.shape[i] = 1 * mslice.strides[i] = mslice.strides[0] * mslice.suboffsets[i] = -1 # <<<<<<<<<<<<<< * * */ (__pyx_v_mslice->suboffsets[__pyx_v_i]) = -1L; } /* "View.MemoryView":1324 * * @cname('__pyx_memoryview_broadcast_leading') * cdef void broadcast_leading(__Pyx_memviewslice *mslice, # <<<<<<<<<<<<<< * int ndim, * int ndim_other) 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# <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef 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PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; 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result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; 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Py_DECREF(args); return result; } #endif /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { if (op1 == op2) { Py_RETURN_TRUE; } #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long a = PyInt_AS_LONG(op1); if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a; const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15 default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ); #else default: Py_RETURN_FALSE; #endif } } if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); if ((double)a == (double)b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } return PyObject_RichCompare(op1, op2, Py_EQ); } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* SliceObject */ static CYTHON_INLINE int __Pyx_PyObject_SetSlice(PyObject* obj, PyObject* value, Py_ssize_t cstart, Py_ssize_t cstop, PyObject** _py_start, PyObject** _py_stop, PyObject** _py_slice, int has_cstart, int has_cstop, CYTHON_UNUSED int wraparound) { #if CYTHON_USE_TYPE_SLOTS PyMappingMethods* mp; #if PY_MAJOR_VERSION < 3 PySequenceMethods* ms = Py_TYPE(obj)->tp_as_sequence; if (likely(ms && ms->sq_ass_slice)) { if (!has_cstart) { if (_py_start && (*_py_start != Py_None)) { cstart = __Pyx_PyIndex_AsSsize_t(*_py_start); if ((cstart == (Py_ssize_t)-1) && PyErr_Occurred()) goto bad; } else cstart = 0; } if (!has_cstop) { if (_py_stop && (*_py_stop != Py_None)) { cstop = __Pyx_PyIndex_AsSsize_t(*_py_stop); if ((cstop == (Py_ssize_t)-1) && PyErr_Occurred()) goto bad; } else cstop = PY_SSIZE_T_MAX; } if (wraparound && unlikely((cstart < 0) | (cstop < 0)) && likely(ms->sq_length)) { Py_ssize_t l = ms->sq_length(obj); if (likely(l >= 0)) { if (cstop < 0) { cstop += l; if (cstop < 0) cstop = 0; } if (cstart < 0) { cstart += l; if (cstart < 0) cstart = 0; } } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) goto bad; PyErr_Clear(); } } return ms->sq_ass_slice(obj, cstart, cstop, value); } #endif mp = Py_TYPE(obj)->tp_as_mapping; if (likely(mp && mp->mp_ass_subscript)) #endif { int result; PyObject *py_slice, *py_start, *py_stop; if (_py_slice) { py_slice = *_py_slice; } else { PyObject* owned_start = NULL; PyObject* owned_stop = NULL; if (_py_start) { py_start = *_py_start; } else { if (has_cstart) { owned_start = py_start = PyInt_FromSsize_t(cstart); if (unlikely(!py_start)) goto bad; } else py_start = Py_None; } if (_py_stop) { py_stop = *_py_stop; } else { if (has_cstop) { owned_stop = py_stop = PyInt_FromSsize_t(cstop); if (unlikely(!py_stop)) { Py_XDECREF(owned_start); goto bad; } } else py_stop = Py_None; } py_slice = PySlice_New(py_start, py_stop, Py_None); Py_XDECREF(owned_start); Py_XDECREF(owned_stop); if (unlikely(!py_slice)) goto bad; } #if CYTHON_USE_TYPE_SLOTS result = mp->mp_ass_subscript(obj, py_slice, value); #else result = value ? PyObject_SetItem(obj, py_slice, value) : PyObject_DelItem(obj, py_slice); #endif if (!_py_slice) { Py_DECREF(py_slice); } return result; } PyErr_Format(PyExc_TypeError, "'%.200s' object does not support slice %.10s", Py_TYPE(obj)->tp_name, value ? "assignment" : "deletion"); bad: return -1; } /* SetItemInt */ static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { int r; if (!j) return -1; r = PyObject_SetItem(o, j, v); Py_DECREF(j); return r; } static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { PyObject* old = PyList_GET_ITEM(o, n); Py_INCREF(v); PyList_SET_ITEM(o, n, v); Py_DECREF(old); return 1; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_ass_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return -1; PyErr_Clear(); } } return m->sq_ass_item(o, i, v); } } #else #if CYTHON_COMPILING_IN_PYPY if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { #else if (is_list || PySequence_Check(o)) { #endif return PySequence_SetItem(o, i, v); } #endif return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); } /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* UnicodeAsUCS4 */ static CYTHON_INLINE Py_UCS4 __Pyx_PyUnicode_AsPy_UCS4(PyObject* x) { Py_ssize_t length; #if CYTHON_PEP393_ENABLED length = PyUnicode_GET_LENGTH(x); if (likely(length == 1)) { return PyUnicode_READ_CHAR(x, 0); } #else length = PyUnicode_GET_SIZE(x); if (likely(length == 1)) { return PyUnicode_AS_UNICODE(x)[0]; } #if Py_UNICODE_SIZE == 2 else if (PyUnicode_GET_SIZE(x) == 2) { Py_UCS4 high_val = PyUnicode_AS_UNICODE(x)[0]; if (high_val >= 0xD800 && high_val <= 0xDBFF) { Py_UCS4 low_val = PyUnicode_AS_UNICODE(x)[1]; if (low_val >= 0xDC00 && low_val <= 0xDFFF) { return 0x10000 + (((high_val & ((1<<10)-1)) << 10) | (low_val & ((1<<10)-1))); } } } #endif #endif PyErr_Format(PyExc_ValueError, "only single character unicode strings can be converted to Py_UCS4, " "got length %" CYTHON_FORMAT_SSIZE_T "d", length); return (Py_UCS4)-1; } /* object_ord */ static long __Pyx__PyObject_Ord(PyObject* c) { Py_ssize_t size; if (PyBytes_Check(c)) { size = PyBytes_GET_SIZE(c); if (likely(size == 1)) { return (unsigned char) PyBytes_AS_STRING(c)[0]; } #if PY_MAJOR_VERSION < 3 } else if (PyUnicode_Check(c)) { return (long)__Pyx_PyUnicode_AsPy_UCS4(c); #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) } else if (PyByteArray_Check(c)) { size = PyByteArray_GET_SIZE(c); if (likely(size == 1)) { return (unsigned char) PyByteArray_AS_STRING(c)[0]; } #endif } else { PyErr_Format(PyExc_TypeError, "ord() expected string of length 1, but %.200s found", c->ob_type->tp_name); return (long)(Py_UCS4)-1; } PyErr_Format(PyExc_TypeError, "ord() expected a character, but string of length %zd found", size); return (long)(Py_UCS4)-1; } /* IterFinish */ static CYTHON_INLINE int __Pyx_IterFinish(void) { #if CYTHON_FAST_THREAD_STATE PyThreadState *tstate = PyThreadState_GET(); PyObject* exc_type = tstate->curexc_type; if (unlikely(exc_type)) { if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { PyObject *exc_value, *exc_tb; exc_value = tstate->curexc_value; exc_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; Py_DECREF(exc_type); Py_XDECREF(exc_value); Py_XDECREF(exc_tb); return 0; } else { return -1; } } return 0; #else if (unlikely(PyErr_Occurred())) { if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { PyErr_Clear(); return 0; } else { return -1; } } return 0; #endif } /* PyObjectCallNoArg */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, NULL, 0); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif /* PyObjectCallMethod0 */ static PyObject* __Pyx_PyObject_CallMethod0(PyObject* obj, PyObject* method_name) { PyObject *method, *result = NULL; method = __Pyx_PyObject_GetAttrStr(obj, method_name); if (unlikely(!method)) goto bad; #if CYTHON_UNPACK_METHODS if (likely(PyMethod_Check(method))) { PyObject *self = PyMethod_GET_SELF(method); if (likely(self)) { PyObject *function = PyMethod_GET_FUNCTION(method); result = __Pyx_PyObject_CallOneArg(function, self); Py_DECREF(method); return result; } } #endif result = __Pyx_PyObject_CallNoArg(method); Py_DECREF(method); bad: return result; } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* UnpackItemEndCheck */ static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { if (unlikely(retval)) { Py_DECREF(retval); __Pyx_RaiseTooManyValuesError(expected); return -1; } else { return __Pyx_IterFinish(); } return 0; } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* UnpackTupleError */ static void __Pyx_UnpackTupleError(PyObject *t, Py_ssize_t index) { if (t == Py_None) { __Pyx_RaiseNoneNotIterableError(); } else if (PyTuple_GET_SIZE(t) < index) { __Pyx_RaiseNeedMoreValuesError(PyTuple_GET_SIZE(t)); } else { __Pyx_RaiseTooManyValuesError(index); } } /* UnpackTuple2 */ static CYTHON_INLINE int __Pyx_unpack_tuple2(PyObject* tuple, PyObject** pvalue1, PyObject** pvalue2, int is_tuple, int has_known_size, int decref_tuple) { Py_ssize_t index; PyObject *value1 = NULL, *value2 = NULL, *iter = NULL; if (!is_tuple && unlikely(!PyTuple_Check(tuple))) { iternextfunc iternext; iter = PyObject_GetIter(tuple); if (unlikely(!iter)) goto bad; if (decref_tuple) { Py_DECREF(tuple); tuple = NULL; } iternext = Py_TYPE(iter)->tp_iternext; value1 = iternext(iter); if (unlikely(!value1)) { index = 0; goto unpacking_failed; } value2 = iternext(iter); if (unlikely(!value2)) { index = 1; goto unpacking_failed; } if (!has_known_size && unlikely(__Pyx_IternextUnpackEndCheck(iternext(iter), 2))) goto bad; Py_DECREF(iter); } else { if (!has_known_size && unlikely(PyTuple_GET_SIZE(tuple) != 2)) { __Pyx_UnpackTupleError(tuple, 2); goto bad; } #if CYTHON_COMPILING_IN_PYPY value1 = PySequence_ITEM(tuple, 0); if (unlikely(!value1)) goto bad; value2 = PySequence_ITEM(tuple, 1); if (unlikely(!value2)) goto bad; #else value1 = PyTuple_GET_ITEM(tuple, 0); value2 = PyTuple_GET_ITEM(tuple, 1); Py_INCREF(value1); Py_INCREF(value2); #endif if (decref_tuple) { Py_DECREF(tuple); } } *pvalue1 = value1; *pvalue2 = value2; return 0; unpacking_failed: if (!has_known_size && __Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index); bad: Py_XDECREF(iter); Py_XDECREF(value1); Py_XDECREF(value2); if (decref_tuple) { Py_XDECREF(tuple); } return -1; } /* dict_iter */ static CYTHON_INLINE PyObject* __Pyx_dict_iterator(PyObject* iterable, int is_dict, PyObject* method_name, Py_ssize_t* p_orig_length, int* p_source_is_dict) { is_dict = is_dict || likely(PyDict_CheckExact(iterable)); *p_source_is_dict = is_dict; #if !CYTHON_COMPILING_IN_PYPY if (is_dict) { *p_orig_length = PyDict_Size(iterable); Py_INCREF(iterable); return iterable; } #endif *p_orig_length = 0; if (method_name) { PyObject* iter; iterable = __Pyx_PyObject_CallMethod0(iterable, method_name); if (!iterable) return NULL; #if !CYTHON_COMPILING_IN_PYPY if (PyTuple_CheckExact(iterable) || PyList_CheckExact(iterable)) return iterable; #endif iter = PyObject_GetIter(iterable); Py_DECREF(iterable); return iter; } return PyObject_GetIter(iterable); } static CYTHON_INLINE int __Pyx_dict_iter_next( PyObject* iter_obj, CYTHON_NCP_UNUSED Py_ssize_t orig_length, CYTHON_NCP_UNUSED Py_ssize_t* ppos, PyObject** pkey, PyObject** pvalue, PyObject** pitem, int source_is_dict) { PyObject* next_item; #if !CYTHON_COMPILING_IN_PYPY if (source_is_dict) { PyObject *key, *value; if (unlikely(orig_length != PyDict_Size(iter_obj))) { PyErr_SetString(PyExc_RuntimeError, "dictionary changed size during iteration"); return -1; } if (unlikely(!PyDict_Next(iter_obj, ppos, &key, &value))) { return 0; } if (pitem) { PyObject* tuple = PyTuple_New(2); if (unlikely(!tuple)) { return -1; } Py_INCREF(key); Py_INCREF(value); PyTuple_SET_ITEM(tuple, 0, key); PyTuple_SET_ITEM(tuple, 1, value); *pitem = tuple; } else { if (pkey) { Py_INCREF(key); *pkey = key; } if (pvalue) { Py_INCREF(value); *pvalue = value; } } return 1; } else if (PyTuple_CheckExact(iter_obj)) { Py_ssize_t pos = *ppos; if (unlikely(pos >= PyTuple_GET_SIZE(iter_obj))) return 0; *ppos = pos + 1; next_item = PyTuple_GET_ITEM(iter_obj, pos); Py_INCREF(next_item); } else if (PyList_CheckExact(iter_obj)) { Py_ssize_t pos = *ppos; if (unlikely(pos >= PyList_GET_SIZE(iter_obj))) return 0; *ppos = pos + 1; next_item = PyList_GET_ITEM(iter_obj, pos); Py_INCREF(next_item); } else #endif { next_item = PyIter_Next(iter_obj); if (unlikely(!next_item)) { return __Pyx_IterFinish(); } } if (pitem) { *pitem = next_item; } else if (pkey && pvalue) { if (__Pyx_unpack_tuple2(next_item, pkey, pvalue, source_is_dict, source_is_dict, 1)) return -1; } else if (pkey) { *pkey = next_item; } else { *pvalue = next_item; } return 1; } /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* FetchCommonType */ static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type) { PyObject* fake_module; PyTypeObject* cached_type = NULL; fake_module = PyImport_AddModule((char*) "_cython_" CYTHON_ABI); if (!fake_module) return NULL; Py_INCREF(fake_module); cached_type = (PyTypeObject*) PyObject_GetAttrString(fake_module, type->tp_name); if (cached_type) { if (!PyType_Check((PyObject*)cached_type)) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s is not a type object", type->tp_name); goto bad; } if (cached_type->tp_basicsize != type->tp_basicsize) { PyErr_Format(PyExc_TypeError, "Shared Cython type %.200s has the wrong size, try recompiling", type->tp_name); goto bad; } } else { if (!PyErr_ExceptionMatches(PyExc_AttributeError)) goto bad; PyErr_Clear(); if (PyType_Ready(type) < 0) goto bad; if (PyObject_SetAttrString(fake_module, type->tp_name, (PyObject*) type) < 0) goto bad; Py_INCREF(type); cached_type = type; } done: Py_DECREF(fake_module); return cached_type; bad: Py_XDECREF(cached_type); cached_type = NULL; goto done; } /* CythonFunction */ static PyObject * __Pyx_CyFunction_get_doc(__pyx_CyFunctionObject *op, CYTHON_UNUSED void *closure) { if (unlikely(op->func_doc == NULL)) { if (op->func.m_ml->ml_doc) { #if PY_MAJOR_VERSION >= 3 op->func_doc = PyUnicode_FromString(op->func.m_ml->ml_doc); #else op->func_doc = PyString_FromString(op->func.m_ml->ml_doc); #endif if (unlikely(op->func_doc == NULL)) return NULL; } else { Py_INCREF(Py_None); return Py_None; } } Py_INCREF(op->func_doc); return op->func_doc; } static int __Pyx_CyFunction_set_doc(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp = op->func_doc; if (value == NULL) { value = Py_None; } Py_INCREF(value); op->func_doc = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_name(__pyx_CyFunctionObject *op) { if (unlikely(op->func_name == NULL)) { #if PY_MAJOR_VERSION >= 3 op->func_name = PyUnicode_InternFromString(op->func.m_ml->ml_name); #else op->func_name = PyString_InternFromString(op->func.m_ml->ml_name); #endif if (unlikely(op->func_name == NULL)) return NULL; } Py_INCREF(op->func_name); return op->func_name; } static int __Pyx_CyFunction_set_name(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__name__ must be set to a string object"); return -1; } tmp = op->func_name; Py_INCREF(value); op->func_name = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_qualname(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_qualname); return op->func_qualname; } static int __Pyx_CyFunction_set_qualname(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; #if PY_MAJOR_VERSION >= 3 if (unlikely(value == NULL || !PyUnicode_Check(value))) { #else if (unlikely(value == NULL || !PyString_Check(value))) { #endif PyErr_SetString(PyExc_TypeError, "__qualname__ must be set to a string object"); return -1; } tmp = op->func_qualname; Py_INCREF(value); op->func_qualname = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_self(__pyx_CyFunctionObject *m, CYTHON_UNUSED void *closure) { PyObject *self; self = m->func_closure; if (self == NULL) self = Py_None; Py_INCREF(self); return self; } static PyObject * __Pyx_CyFunction_get_dict(__pyx_CyFunctionObject *op) { if (unlikely(op->func_dict == NULL)) { op->func_dict = PyDict_New(); if (unlikely(op->func_dict == NULL)) return NULL; } Py_INCREF(op->func_dict); return op->func_dict; } static int __Pyx_CyFunction_set_dict(__pyx_CyFunctionObject *op, PyObject *value) { PyObject *tmp; if (unlikely(value == NULL)) { PyErr_SetString(PyExc_TypeError, "function's dictionary may not be deleted"); return -1; } if (unlikely(!PyDict_Check(value))) { PyErr_SetString(PyExc_TypeError, "setting function's dictionary to a non-dict"); return -1; } tmp = op->func_dict; Py_INCREF(value); op->func_dict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_globals(__pyx_CyFunctionObject *op) { Py_INCREF(op->func_globals); return op->func_globals; } static PyObject * __Pyx_CyFunction_get_closure(CYTHON_UNUSED __pyx_CyFunctionObject *op) { Py_INCREF(Py_None); return Py_None; } static PyObject * __Pyx_CyFunction_get_code(__pyx_CyFunctionObject *op) { PyObject* result = (op->func_code) ? op->func_code : Py_None; Py_INCREF(result); return result; } static int __Pyx_CyFunction_init_defaults(__pyx_CyFunctionObject *op) { int result = 0; PyObject *res = op->defaults_getter((PyObject *) op); if (unlikely(!res)) return -1; #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS op->defaults_tuple = PyTuple_GET_ITEM(res, 0); Py_INCREF(op->defaults_tuple); op->defaults_kwdict = PyTuple_GET_ITEM(res, 1); Py_INCREF(op->defaults_kwdict); #else op->defaults_tuple = PySequence_ITEM(res, 0); if (unlikely(!op->defaults_tuple)) result = -1; else { op->defaults_kwdict = PySequence_ITEM(res, 1); if (unlikely(!op->defaults_kwdict)) result = -1; } #endif Py_DECREF(res); return result; } static int __Pyx_CyFunction_set_defaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyTuple_Check(value)) { PyErr_SetString(PyExc_TypeError, "__defaults__ must be set to a tuple object"); return -1; } Py_INCREF(value); tmp = op->defaults_tuple; op->defaults_tuple = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_defaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_tuple; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_tuple; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_kwdefaults(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value) { value = Py_None; } else if (value != Py_None && !PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__kwdefaults__ must be set to a dict object"); return -1; } Py_INCREF(value); tmp = op->defaults_kwdict; op->defaults_kwdict = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_kwdefaults(__pyx_CyFunctionObject *op) { PyObject* result = op->defaults_kwdict; if (unlikely(!result)) { if (op->defaults_getter) { if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; result = op->defaults_kwdict; } else { result = Py_None; } } Py_INCREF(result); return result; } static int __Pyx_CyFunction_set_annotations(__pyx_CyFunctionObject *op, PyObject* value) { PyObject* tmp; if (!value || value == Py_None) { value = NULL; } else if (!PyDict_Check(value)) { PyErr_SetString(PyExc_TypeError, "__annotations__ must be set to a dict object"); return -1; } Py_XINCREF(value); tmp = op->func_annotations; op->func_annotations = value; Py_XDECREF(tmp); return 0; } static PyObject * __Pyx_CyFunction_get_annotations(__pyx_CyFunctionObject *op) { PyObject* result = op->func_annotations; if (unlikely(!result)) { result = PyDict_New(); if (unlikely(!result)) return NULL; op->func_annotations = result; } Py_INCREF(result); return result; } static PyGetSetDef __pyx_CyFunction_getsets[] = { {(char *) "func_doc", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "__doc__", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, {(char *) "func_name", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__name__", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, {(char *) "__qualname__", (getter)__Pyx_CyFunction_get_qualname, (setter)__Pyx_CyFunction_set_qualname, 0, 0}, {(char *) "__self__", (getter)__Pyx_CyFunction_get_self, 0, 0, 0}, {(char *) "func_dict", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "__dict__", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, {(char *) "func_globals", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "__globals__", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, {(char *) "func_closure", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "__closure__", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, {(char *) "func_code", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "__code__", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, {(char *) "func_defaults", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__defaults__", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, {(char *) "__kwdefaults__", (getter)__Pyx_CyFunction_get_kwdefaults, (setter)__Pyx_CyFunction_set_kwdefaults, 0, 0}, {(char *) "__annotations__", (getter)__Pyx_CyFunction_get_annotations, (setter)__Pyx_CyFunction_set_annotations, 0, 0}, {0, 0, 0, 0, 0} }; static PyMemberDef __pyx_CyFunction_members[] = { {(char *) "__module__", T_OBJECT, offsetof(__pyx_CyFunctionObject, func.m_module), PY_WRITE_RESTRICTED, 0}, {0, 0, 0, 0, 0} }; static PyObject * __Pyx_CyFunction_reduce(__pyx_CyFunctionObject *m, CYTHON_UNUSED PyObject *args) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromString(m->func.m_ml->ml_name); #else return PyString_FromString(m->func.m_ml->ml_name); #endif } static PyMethodDef __pyx_CyFunction_methods[] = { {"__reduce__", (PyCFunction)__Pyx_CyFunction_reduce, METH_VARARGS, 0}, {0, 0, 0, 0} }; #if PY_VERSION_HEX < 0x030500A0 #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func_weakreflist) #else #define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func.m_weakreflist) #endif static PyObject *__Pyx_CyFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject* qualname, PyObject *closure, PyObject *module, PyObject* globals, PyObject* code) { __pyx_CyFunctionObject *op = PyObject_GC_New(__pyx_CyFunctionObject, type); if (op == NULL) return NULL; op->flags = flags; __Pyx_CyFunction_weakreflist(op) = NULL; op->func.m_ml = ml; op->func.m_self = (PyObject *) op; Py_XINCREF(closure); op->func_closure = closure; Py_XINCREF(module); op->func.m_module = module; op->func_dict = NULL; op->func_name = NULL; Py_INCREF(qualname); op->func_qualname = qualname; op->func_doc = NULL; op->func_classobj = NULL; op->func_globals = globals; Py_INCREF(op->func_globals); Py_XINCREF(code); op->func_code = code; op->defaults_pyobjects = 0; op->defaults = NULL; op->defaults_tuple = NULL; op->defaults_kwdict = NULL; op->defaults_getter = NULL; op->func_annotations = NULL; PyObject_GC_Track(op); return (PyObject *) op; } static int __Pyx_CyFunction_clear(__pyx_CyFunctionObject *m) { Py_CLEAR(m->func_closure); Py_CLEAR(m->func.m_module); Py_CLEAR(m->func_dict); Py_CLEAR(m->func_name); Py_CLEAR(m->func_qualname); Py_CLEAR(m->func_doc); Py_CLEAR(m->func_globals); Py_CLEAR(m->func_code); Py_CLEAR(m->func_classobj); Py_CLEAR(m->defaults_tuple); Py_CLEAR(m->defaults_kwdict); Py_CLEAR(m->func_annotations); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_XDECREF(pydefaults[i]); PyObject_Free(m->defaults); m->defaults = NULL; } return 0; } static void __Pyx_CyFunction_dealloc(__pyx_CyFunctionObject *m) { PyObject_GC_UnTrack(m); if (__Pyx_CyFunction_weakreflist(m) != NULL) PyObject_ClearWeakRefs((PyObject *) m); __Pyx_CyFunction_clear(m); PyObject_GC_Del(m); } static int __Pyx_CyFunction_traverse(__pyx_CyFunctionObject *m, visitproc visit, void *arg) { Py_VISIT(m->func_closure); Py_VISIT(m->func.m_module); Py_VISIT(m->func_dict); Py_VISIT(m->func_name); Py_VISIT(m->func_qualname); Py_VISIT(m->func_doc); Py_VISIT(m->func_globals); Py_VISIT(m->func_code); Py_VISIT(m->func_classobj); Py_VISIT(m->defaults_tuple); Py_VISIT(m->defaults_kwdict); if (m->defaults) { PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); int i; for (i = 0; i < m->defaults_pyobjects; i++) Py_VISIT(pydefaults[i]); } return 0; } static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; if (m->flags & __Pyx_CYFUNCTION_STATICMETHOD) { Py_INCREF(func); return func; } if (m->flags & __Pyx_CYFUNCTION_CLASSMETHOD) { if (type == NULL) type = (PyObject *)(Py_TYPE(obj)); return __Pyx_PyMethod_New(func, type, (PyObject *)(Py_TYPE(type))); } if (obj == Py_None) obj = NULL; return __Pyx_PyMethod_New(func, obj, type); } static PyObject* __Pyx_CyFunction_repr(__pyx_CyFunctionObject *op) { #if PY_MAJOR_VERSION >= 3 return PyUnicode_FromFormat("", op->func_qualname, (void *)op); #else return PyString_FromFormat("", PyString_AsString(op->func_qualname), (void *)op); #endif } static PyObject * __Pyx_CyFunction_CallMethod(PyObject *func, PyObject *self, PyObject *arg, PyObject *kw) { PyCFunctionObject* f = (PyCFunctionObject*)func; PyCFunction meth = f->m_ml->ml_meth; Py_ssize_t size; switch (f->m_ml->ml_flags & (METH_VARARGS | METH_KEYWORDS | METH_NOARGS | METH_O)) { case METH_VARARGS: if (likely(kw == NULL || PyDict_Size(kw) == 0)) return (*meth)(self, arg); break; case METH_VARARGS | METH_KEYWORDS: return (*(PyCFunctionWithKeywords)meth)(self, arg, kw); case METH_NOARGS: if (likely(kw == NULL || PyDict_Size(kw) == 0)) { size = PyTuple_GET_SIZE(arg); if (likely(size == 0)) return (*meth)(self, NULL); PyErr_Format(PyExc_TypeError, "%.200s() takes no arguments (%" CYTHON_FORMAT_SSIZE_T "d given)", f->m_ml->ml_name, size); return NULL; } break; case METH_O: if (likely(kw == NULL || PyDict_Size(kw) == 0)) { size = PyTuple_GET_SIZE(arg); if (likely(size == 1)) { PyObject *result, *arg0 = PySequence_ITEM(arg, 0); if (unlikely(!arg0)) return NULL; result = (*meth)(self, arg0); Py_DECREF(arg0); return result; } PyErr_Format(PyExc_TypeError, "%.200s() takes exactly one argument (%" CYTHON_FORMAT_SSIZE_T "d given)", f->m_ml->ml_name, size); return NULL; } break; default: PyErr_SetString(PyExc_SystemError, "Bad call flags in " "__Pyx_CyFunction_Call. METH_OLDARGS is no " "longer supported!"); return NULL; } PyErr_Format(PyExc_TypeError, "%.200s() takes no keyword arguments", f->m_ml->ml_name); return NULL; } static CYTHON_INLINE PyObject *__Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { return __Pyx_CyFunction_CallMethod(func, ((PyCFunctionObject*)func)->m_self, arg, kw); } static PyObject *__Pyx_CyFunction_CallAsMethod(PyObject *func, PyObject *args, PyObject *kw) { PyObject *result; __pyx_CyFunctionObject *cyfunc = (__pyx_CyFunctionObject *) func; if ((cyfunc->flags & __Pyx_CYFUNCTION_CCLASS) && !(cyfunc->flags & __Pyx_CYFUNCTION_STATICMETHOD)) { Py_ssize_t argc; PyObject *new_args; PyObject *self; argc = PyTuple_GET_SIZE(args); new_args = PyTuple_GetSlice(args, 1, argc); if (unlikely(!new_args)) return NULL; self = PyTuple_GetItem(args, 0); if (unlikely(!self)) { Py_DECREF(new_args); return NULL; } result = __Pyx_CyFunction_CallMethod(func, self, new_args, kw); Py_DECREF(new_args); } else { result = __Pyx_CyFunction_Call(func, args, kw); } return result; } static PyTypeObject __pyx_CyFunctionType_type = { PyVarObject_HEAD_INIT(0, 0) "cython_function_or_method", sizeof(__pyx_CyFunctionObject), 0, (destructor) __Pyx_CyFunction_dealloc, 0, 0, 0, #if PY_MAJOR_VERSION < 3 0, #else 0, #endif (reprfunc) __Pyx_CyFunction_repr, 0, 0, 0, 0, __Pyx_CyFunction_CallAsMethod, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC, 0, (traverseproc) __Pyx_CyFunction_traverse, (inquiry) __Pyx_CyFunction_clear, 0, #if PY_VERSION_HEX < 0x030500A0 offsetof(__pyx_CyFunctionObject, func_weakreflist), #else offsetof(PyCFunctionObject, m_weakreflist), #endif 0, 0, __pyx_CyFunction_methods, __pyx_CyFunction_members, __pyx_CyFunction_getsets, 0, 0, __Pyx_CyFunction_descr_get, 0, offsetof(__pyx_CyFunctionObject, func_dict), 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #endif }; static int __pyx_CyFunction_init(void) { __pyx_CyFunctionType = __Pyx_FetchCommonType(&__pyx_CyFunctionType_type); if (__pyx_CyFunctionType == NULL) { return -1; } return 0; } static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *func, size_t size, int pyobjects) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults = PyObject_Malloc(size); if (!m->defaults) return PyErr_NoMemory(); memset(m->defaults, 0, size); m->defaults_pyobjects = pyobjects; return m->defaults; } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *func, PyObject *tuple) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_tuple = tuple; Py_INCREF(tuple); } static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->defaults_kwdict = dict; Py_INCREF(dict); } static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *func, PyObject *dict) { __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; m->func_annotations = dict; Py_INCREF(dict); } /* FusedFunction */ static PyObject * __pyx_FusedFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject *qualname, PyObject *self, PyObject *module, PyObject *globals, PyObject *code) { __pyx_FusedFunctionObject *fusedfunc = (__pyx_FusedFunctionObject *) __Pyx_CyFunction_New(type, ml, flags, qualname, self, module, globals, code); if (!fusedfunc) return NULL; fusedfunc->__signatures__ = NULL; fusedfunc->type = NULL; fusedfunc->self = NULL; return (PyObject *) fusedfunc; } static void __pyx_FusedFunction_dealloc(__pyx_FusedFunctionObject *self) { __pyx_FusedFunction_clear(self); __pyx_FusedFunctionType->tp_free((PyObject *) self); } static int __pyx_FusedFunction_traverse(__pyx_FusedFunctionObject *self, visitproc visit, void *arg) { Py_VISIT(self->self); Py_VISIT(self->type); Py_VISIT(self->__signatures__); return __Pyx_CyFunction_traverse((__pyx_CyFunctionObject *) self, visit, arg); } static int __pyx_FusedFunction_clear(__pyx_FusedFunctionObject *self) { Py_CLEAR(self->self); Py_CLEAR(self->type); Py_CLEAR(self->__signatures__); return __Pyx_CyFunction_clear((__pyx_CyFunctionObject *) self); } static PyObject * __pyx_FusedFunction_descr_get(PyObject *self, PyObject *obj, PyObject *type) { __pyx_FusedFunctionObject *func, *meth; func = (__pyx_FusedFunctionObject *) self; if (func->self || func->func.flags & __Pyx_CYFUNCTION_STATICMETHOD) { Py_INCREF(self); return self; } if (obj == Py_None) obj = NULL; meth = (__pyx_FusedFunctionObject *) __pyx_FusedFunction_NewEx( ((PyCFunctionObject *) func)->m_ml, ((__pyx_CyFunctionObject *) func)->flags, ((__pyx_CyFunctionObject *) func)->func_qualname, ((__pyx_CyFunctionObject *) func)->func_closure, ((PyCFunctionObject *) func)->m_module, ((__pyx_CyFunctionObject *) func)->func_globals, ((__pyx_CyFunctionObject *) func)->func_code); if (!meth) return NULL; Py_XINCREF(func->func.func_classobj); meth->func.func_classobj = func->func.func_classobj; Py_XINCREF(func->__signatures__); meth->__signatures__ = func->__signatures__; Py_XINCREF(type); meth->type = type; Py_XINCREF(func->func.defaults_tuple); meth->func.defaults_tuple = func->func.defaults_tuple; if (func->func.flags & __Pyx_CYFUNCTION_CLASSMETHOD) obj = type; Py_XINCREF(obj); meth->self = obj; return (PyObject *) meth; } static PyObject * _obj_to_str(PyObject *obj) { if (PyType_Check(obj)) return PyObject_GetAttr(obj, __pyx_n_s_name_2); else return PyObject_Str(obj); } static PyObject * __pyx_FusedFunction_getitem(__pyx_FusedFunctionObject *self, PyObject *idx) { PyObject *signature = NULL; PyObject *unbound_result_func; PyObject *result_func = NULL; if (self->__signatures__ == NULL) { PyErr_SetString(PyExc_TypeError, "Function is not fused"); return NULL; } if (PyTuple_Check(idx)) { PyObject *list = PyList_New(0); Py_ssize_t n = PyTuple_GET_SIZE(idx); PyObject *string = NULL; PyObject *sep = NULL; int i; if (!list) return NULL; for (i = 0; i < n; i++) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS PyObject *item = PyTuple_GET_ITEM(idx, i); #else PyObject *item = PySequence_ITEM(idx, i); #endif string = _obj_to_str(item); #if !(CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS) Py_DECREF(item); #endif if (!string || PyList_Append(list, string) < 0) goto __pyx_err; Py_DECREF(string); } sep = PyUnicode_FromString("|"); if (sep) signature = PyUnicode_Join(sep, list); __pyx_err: ; Py_DECREF(list); Py_XDECREF(sep); } else { signature = _obj_to_str(idx); } if (!signature) return NULL; unbound_result_func = PyObject_GetItem(self->__signatures__, signature); if (unbound_result_func) { if (self->self || self->type) { __pyx_FusedFunctionObject *unbound = (__pyx_FusedFunctionObject *) unbound_result_func; Py_CLEAR(unbound->func.func_classobj); Py_XINCREF(self->func.func_classobj); unbound->func.func_classobj = self->func.func_classobj; result_func = __pyx_FusedFunction_descr_get(unbound_result_func, self->self, self->type); } else { result_func = unbound_result_func; Py_INCREF(result_func); } } Py_DECREF(signature); Py_XDECREF(unbound_result_func); return result_func; } static PyObject * __pyx_FusedFunction_callfunction(PyObject *func, PyObject *args, PyObject *kw) { __pyx_CyFunctionObject *cyfunc = (__pyx_CyFunctionObject *) func; int static_specialized = (cyfunc->flags & __Pyx_CYFUNCTION_STATICMETHOD && !((__pyx_FusedFunctionObject *) func)->__signatures__); if (cyfunc->flags & __Pyx_CYFUNCTION_CCLASS && !static_specialized) { return __Pyx_CyFunction_CallAsMethod(func, args, kw); } else { return __Pyx_CyFunction_Call(func, args, kw); } } static PyObject * __pyx_FusedFunction_call(PyObject *func, PyObject *args, PyObject *kw) { __pyx_FusedFunctionObject *binding_func = (__pyx_FusedFunctionObject *) func; Py_ssize_t argc = PyTuple_GET_SIZE(args); PyObject *new_args = NULL; __pyx_FusedFunctionObject *new_func = NULL; PyObject *result = NULL; PyObject *self = NULL; int is_staticmethod = binding_func->func.flags & __Pyx_CYFUNCTION_STATICMETHOD; int is_classmethod = binding_func->func.flags & __Pyx_CYFUNCTION_CLASSMETHOD; if (binding_func->self) { Py_ssize_t i; new_args = PyTuple_New(argc + 1); if (!new_args) return NULL; self = binding_func->self; #if !(CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS) Py_INCREF(self); #endif Py_INCREF(self); PyTuple_SET_ITEM(new_args, 0, self); for (i = 0; i < argc; i++) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS PyObject *item = PyTuple_GET_ITEM(args, i); Py_INCREF(item); #else PyObject *item = PySequence_ITEM(args, i); if (unlikely(!item)) goto bad; #endif PyTuple_SET_ITEM(new_args, i + 1, item); } args = new_args; } else if (binding_func->type) { if (argc < 1) { PyErr_SetString(PyExc_TypeError, "Need at least one argument, 0 given."); return NULL; } #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS self = PyTuple_GET_ITEM(args, 0); #else self = PySequence_ITEM(args, 0); if (unlikely(!self)) return NULL; #endif } if (self && !is_classmethod && !is_staticmethod) { int is_instance = PyObject_IsInstance(self, binding_func->type); if (unlikely(!is_instance)) { PyErr_Format(PyExc_TypeError, "First argument should be of type %.200s, got %.200s.", ((PyTypeObject *) binding_func->type)->tp_name, self->ob_type->tp_name); goto bad; } else if (unlikely(is_instance == -1)) { goto bad; } } #if !(CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS) Py_XDECREF(self); self = NULL; #endif if (binding_func->__signatures__) { PyObject *tup; if (is_staticmethod && binding_func->func.flags & __Pyx_CYFUNCTION_CCLASS) { tup = PyTuple_Pack(3, args, kw == NULL ? Py_None : kw, binding_func->func.defaults_tuple); if (unlikely(!tup)) goto bad; new_func = (__pyx_FusedFunctionObject *) __Pyx_CyFunction_CallMethod( func, binding_func->__signatures__, tup, NULL); } else { tup = PyTuple_Pack(4, binding_func->__signatures__, args, kw == NULL ? Py_None : kw, binding_func->func.defaults_tuple); if (unlikely(!tup)) goto bad; new_func = (__pyx_FusedFunctionObject *) __pyx_FusedFunction_callfunction(func, tup, NULL); } Py_DECREF(tup); if (unlikely(!new_func)) goto bad; Py_XINCREF(binding_func->func.func_classobj); Py_CLEAR(new_func->func.func_classobj); new_func->func.func_classobj = binding_func->func.func_classobj; func = (PyObject *) new_func; } result = __pyx_FusedFunction_callfunction(func, args, kw); bad: #if !(CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS) Py_XDECREF(self); #endif Py_XDECREF(new_args); Py_XDECREF((PyObject *) new_func); return result; } static PyMemberDef __pyx_FusedFunction_members[] = { {(char *) "__signatures__", T_OBJECT, offsetof(__pyx_FusedFunctionObject, __signatures__), READONLY, 0}, {0, 0, 0, 0, 0}, }; static PyMappingMethods __pyx_FusedFunction_mapping_methods = { 0, (binaryfunc) __pyx_FusedFunction_getitem, 0, }; static PyTypeObject __pyx_FusedFunctionType_type = { PyVarObject_HEAD_INIT(0, 0) "fused_cython_function", sizeof(__pyx_FusedFunctionObject), 0, (destructor) __pyx_FusedFunction_dealloc, 0, 0, 0, #if PY_MAJOR_VERSION < 3 0, #else 0, #endif 0, 0, 0, &__pyx_FusedFunction_mapping_methods, 0, (ternaryfunc) __pyx_FusedFunction_call, 0, 0, 0, 0, Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC | Py_TPFLAGS_BASETYPE, 0, (traverseproc) __pyx_FusedFunction_traverse, (inquiry) __pyx_FusedFunction_clear, 0, 0, 0, 0, 0, __pyx_FusedFunction_members, __pyx_CyFunction_getsets, &__pyx_CyFunctionType_type, 0, __pyx_FusedFunction_descr_get, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, #if PY_VERSION_HEX >= 0x030400a1 0, #endif }; static int __pyx_FusedFunction_init(void) { __pyx_FusedFunctionType = __Pyx_FetchCommonType(&__pyx_FusedFunctionType_type); if (__pyx_FusedFunctionType == NULL) { return -1; } return 0; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) return __pyx_pw_5numpy_7ndarray_1__getbuffer__(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) { __pyx_pw_5numpy_7ndarray_3__releasebuffer__(obj, view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_float64_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_float64_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_float32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_float32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int64_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int64_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_int16_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_int16_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_nn___pyx_t_5numpy_uint32_t(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_nn___pyx_t_5numpy_uint32_t, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_double(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_double, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_int(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_int, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* Print */ #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION < 3 static PyObject *__Pyx_GetStdout(void) { PyObject *f = PySys_GetObject((char *)"stdout"); if (!f) { PyErr_SetString(PyExc_RuntimeError, "lost sys.stdout"); } return f; } static int __Pyx_Print(PyObject* f, PyObject *arg_tuple, int newline) { int i; if (!f) { if (!(f = __Pyx_GetStdout())) return -1; } Py_INCREF(f); for (i=0; i < PyTuple_GET_SIZE(arg_tuple); i++) { PyObject* v; if (PyFile_SoftSpace(f, 1)) { if (PyFile_WriteString(" ", f) < 0) goto error; } v = PyTuple_GET_ITEM(arg_tuple, i); if (PyFile_WriteObject(v, f, Py_PRINT_RAW) < 0) goto error; if (PyString_Check(v)) { char *s = PyString_AsString(v); Py_ssize_t len = PyString_Size(v); if (len > 0) { switch (s[len-1]) { case ' ': break; case '\f': case '\r': case '\n': case '\t': case '\v': PyFile_SoftSpace(f, 0); break; default: break; } } } } if (newline) { if (PyFile_WriteString("\n", f) < 0) goto error; PyFile_SoftSpace(f, 0); } Py_DECREF(f); return 0; error: Py_DECREF(f); return -1; } #else static int __Pyx_Print(PyObject* stream, PyObject *arg_tuple, int newline) { PyObject* kwargs = 0; PyObject* result = 0; PyObject* end_string; if (unlikely(!__pyx_print)) { __pyx_print = PyObject_GetAttr(__pyx_b, __pyx_n_s_print); if (!__pyx_print) return -1; } if (stream) { kwargs = PyDict_New(); if (unlikely(!kwargs)) return -1; if (unlikely(PyDict_SetItem(kwargs, __pyx_n_s_file, stream) < 0)) goto bad; if (!newline) { end_string = PyUnicode_FromStringAndSize(" ", 1); if (unlikely(!end_string)) goto bad; if (PyDict_SetItem(kwargs, __pyx_n_s_end, end_string) < 0) { Py_DECREF(end_string); goto bad; } Py_DECREF(end_string); } } else if (!newline) { if (unlikely(!__pyx_print_kwargs)) { __pyx_print_kwargs = PyDict_New(); if (unlikely(!__pyx_print_kwargs)) return -1; end_string = PyUnicode_FromStringAndSize(" ", 1); if (unlikely(!end_string)) return -1; if (PyDict_SetItem(__pyx_print_kwargs, __pyx_n_s_end, end_string) < 0) { Py_DECREF(end_string); return -1; } Py_DECREF(end_string); } kwargs = __pyx_print_kwargs; } result = PyObject_Call(__pyx_print, arg_tuple, kwargs); if (unlikely(kwargs) && (kwargs != __pyx_print_kwargs)) Py_DECREF(kwargs); if (!result) return -1; Py_DECREF(result); return 0; bad: if (kwargs != __pyx_print_kwargs) Py_XDECREF(kwargs); return -1; } #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return ::std::complex< float >(x, y); } #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return x + y*(__pyx_t_float_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { __pyx_t_float_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabsf(b.real) >= fabsf(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { float r = b.imag / b.real; float s = 1.0 / (b.real + b.imag * r); return __pyx_t_float_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { float r = b.real / b.imag; float s = 1.0 / (b.imag + b.real * r); return __pyx_t_float_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else { float denom = b.real * b.real + b.imag * b.imag; return __pyx_t_float_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrtf(z.real*z.real + z.imag*z.imag); #else return hypotf(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; float r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { float denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(a, a); case 3: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, a); case 4: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = powf(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2f(0, -1); } } else { r = __Pyx_c_abs_float(a); theta = atan2f(a.imag, a.real); } lnr = logf(r); z_r = expf(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cosf(z_theta); z.imag = z_r * sinf(z_theta); return z; } #endif #endif /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return ::std::complex< double >(x, y); } #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return x + y*(__pyx_t_double_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { __pyx_t_double_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabs(b.real) >= fabs(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { double r = b.imag / b.real; double s = 1.0 / (b.real + b.imag * r); return __pyx_t_double_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { double r = b.real / b.imag; double s = 1.0 / (b.imag + b.real * r); return __pyx_t_double_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else { double denom = b.real * b.real + b.imag * b.imag; return __pyx_t_double_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrt(z.real*z.real + z.imag*z.imag); #else return hypot(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; double r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { double denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(a, a); case 3: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, a); case 4: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = pow(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2(0, -1); } } else { r = __Pyx_c_abs_double(a); theta = atan2(a.imag, a.real); } lnr = log(r); z_r = exp(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cos(z_theta); z.imag = z_r * sin(z_theta); return z; } #endif #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value) { const enum NPY_TYPES neg_one = (enum NPY_TYPES) -1, const_zero = (enum NPY_TYPES) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(enum NPY_TYPES) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(enum NPY_TYPES) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(enum NPY_TYPES), little, !is_unsigned); } } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE npy_int32 __Pyx_PyInt_As_npy_int32(PyObject *x) { const npy_int32 neg_one = (npy_int32) -1, const_zero = (npy_int32) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(npy_int32) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(npy_int32, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (npy_int32) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (npy_int32) 0; case 1: __PYX_VERIFY_RETURN_INT(npy_int32, digit, digits[0]) case 2: if (8 * sizeof(npy_int32) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) >= 2 * PyLong_SHIFT) { return (npy_int32) (((((npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0])); } } break; case 3: if (8 * sizeof(npy_int32) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) >= 3 * PyLong_SHIFT) { return (npy_int32) (((((((npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0])); } } break; case 4: if (8 * sizeof(npy_int32) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) >= 4 * PyLong_SHIFT) { return (npy_int32) (((((((((npy_int32)digits[3]) << PyLong_SHIFT) | (npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (npy_int32) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(npy_int32) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(npy_int32) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (npy_int32) 0; case -1: __PYX_VERIFY_RETURN_INT(npy_int32, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(npy_int32, digit, +digits[0]) case -2: if (8 * sizeof(npy_int32) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 2 * PyLong_SHIFT) { return (npy_int32) (((npy_int32)-1)*(((((npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case 2: if (8 * sizeof(npy_int32) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 2 * PyLong_SHIFT) { return (npy_int32) ((((((npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case -3: if (8 * sizeof(npy_int32) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 3 * PyLong_SHIFT) { return (npy_int32) (((npy_int32)-1)*(((((((npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case 3: if (8 * sizeof(npy_int32) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 3 * PyLong_SHIFT) { return (npy_int32) ((((((((npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case -4: if (8 * sizeof(npy_int32) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 4 * PyLong_SHIFT) { return (npy_int32) (((npy_int32)-1)*(((((((((npy_int32)digits[3]) << PyLong_SHIFT) | (npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; case 4: if (8 * sizeof(npy_int32) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int32, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int32) - 1 > 4 * PyLong_SHIFT) { return (npy_int32) ((((((((((npy_int32)digits[3]) << PyLong_SHIFT) | (npy_int32)digits[2]) << PyLong_SHIFT) | (npy_int32)digits[1]) << PyLong_SHIFT) | (npy_int32)digits[0]))); } } break; } #endif if (sizeof(npy_int32) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(npy_int32) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int32, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else npy_int32 val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (npy_int32) -1; } } else { npy_int32 val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (npy_int32) -1; val = __Pyx_PyInt_As_npy_int32(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to npy_int32"); return (npy_int32) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to npy_int32"); return (npy_int32) -1; } /* CIntFromPy */ static CYTHON_INLINE npy_int64 __Pyx_PyInt_As_npy_int64(PyObject *x) { const npy_int64 neg_one = (npy_int64) -1, const_zero = (npy_int64) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(npy_int64) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(npy_int64, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (npy_int64) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (npy_int64) 0; case 1: __PYX_VERIFY_RETURN_INT(npy_int64, digit, digits[0]) case 2: if (8 * sizeof(npy_int64) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) >= 2 * PyLong_SHIFT) { return (npy_int64) (((((npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0])); } } break; case 3: if (8 * sizeof(npy_int64) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) >= 3 * PyLong_SHIFT) { return (npy_int64) (((((((npy_int64)digits[2]) << PyLong_SHIFT) | (npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0])); } } break; case 4: if (8 * sizeof(npy_int64) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) >= 4 * PyLong_SHIFT) { return (npy_int64) (((((((((npy_int64)digits[3]) << PyLong_SHIFT) | (npy_int64)digits[2]) << PyLong_SHIFT) | (npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (npy_int64) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(npy_int64) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int64, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(npy_int64) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int64, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (npy_int64) 0; case -1: __PYX_VERIFY_RETURN_INT(npy_int64, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(npy_int64, digit, +digits[0]) case -2: if (8 * sizeof(npy_int64) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) - 1 > 2 * PyLong_SHIFT) { return (npy_int64) (((npy_int64)-1)*(((((npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0]))); } } break; case 2: if (8 * sizeof(npy_int64) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) - 1 > 2 * PyLong_SHIFT) { return (npy_int64) ((((((npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0]))); } } break; case -3: if (8 * sizeof(npy_int64) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) - 1 > 3 * PyLong_SHIFT) { return (npy_int64) (((npy_int64)-1)*(((((((npy_int64)digits[2]) << PyLong_SHIFT) | (npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0]))); } } break; case 3: if (8 * sizeof(npy_int64) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) - 1 > 3 * PyLong_SHIFT) { return (npy_int64) ((((((((npy_int64)digits[2]) << PyLong_SHIFT) | (npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0]))); } } break; case -4: if (8 * sizeof(npy_int64) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) - 1 > 4 * PyLong_SHIFT) { return (npy_int64) (((npy_int64)-1)*(((((((((npy_int64)digits[3]) << PyLong_SHIFT) | (npy_int64)digits[2]) << PyLong_SHIFT) | (npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0]))); } } break; case 4: if (8 * sizeof(npy_int64) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(npy_int64, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(npy_int64) - 1 > 4 * PyLong_SHIFT) { return (npy_int64) ((((((((((npy_int64)digits[3]) << PyLong_SHIFT) | (npy_int64)digits[2]) << PyLong_SHIFT) | (npy_int64)digits[1]) << PyLong_SHIFT) | (npy_int64)digits[0]))); } } break; } #endif if (sizeof(npy_int64) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int64, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(npy_int64) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(npy_int64, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else npy_int64 val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (npy_int64) -1; } } else { npy_int64 val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (npy_int64) -1; val = __Pyx_PyInt_As_npy_int64(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to npy_int64"); return (npy_int64) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to npy_int64"); return (npy_int64) -1; } /* PrintOne */ #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION < 3 static int __Pyx_PrintOne(PyObject* f, PyObject *o) { if (!f) { if (!(f = __Pyx_GetStdout())) return -1; } Py_INCREF(f); if (PyFile_SoftSpace(f, 0)) { if (PyFile_WriteString(" ", f) < 0) goto error; } if (PyFile_WriteObject(o, f, Py_PRINT_RAW) < 0) goto error; if (PyFile_WriteString("\n", f) < 0) goto error; Py_DECREF(f); return 0; error: Py_DECREF(f); return -1; /* the line below is just to avoid C compiler * warnings about unused functions */ return __Pyx_Print(f, NULL, 0); } #else static int __Pyx_PrintOne(PyObject* stream, PyObject *o) { int res; PyObject* arg_tuple = PyTuple_Pack(1, o); if (unlikely(!arg_tuple)) return -1; res = __Pyx_Print(stream, arg_tuple, 1); Py_DECREF(arg_tuple); return res; } #endif /* BytesContains */ static CYTHON_INLINE int __Pyx_BytesContains(PyObject* bytes, char character) { const Py_ssize_t length = PyBytes_GET_SIZE(bytes); char* char_start = PyBytes_AS_STRING(bytes); return memchr(char_start, (unsigned char)character, (size_t)length) != NULL; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* ModuleImport */ #ifndef __PYX_HAVE_RT_ImportModule #define __PYX_HAVE_RT_ImportModule static PyObject *__Pyx_ImportModule(const char *name) { PyObject *py_name = 0; PyObject *py_module = 0; py_name = __Pyx_PyIdentifier_FromString(name); if (!py_name) goto bad; py_module = PyImport_Import(py_name); Py_DECREF(py_name); return py_module; bad: Py_XDECREF(py_name); return 0; } #endif /* TypeImport */ #ifndef __PYX_HAVE_RT_ImportType #define __PYX_HAVE_RT_ImportType static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict) { PyObject *py_module = 0; PyObject *result = 0; PyObject *py_name = 0; char warning[200]; Py_ssize_t basicsize; #ifdef Py_LIMITED_API PyObject *py_basicsize; #endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; py_name = __Pyx_PyIdentifier_FromString(class_name); if (!py_name) goto bad; result = PyObject_GetAttr(py_module, py_name); Py_DECREF(py_name); py_name = 0; Py_DECREF(py_module); py_module = 0; if (!result) goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } #ifndef Py_LIMITED_API basicsize = ((PyTypeObject *)result)->tp_basicsize; #else py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); if (!py_basicsize) goto bad; basicsize = PyLong_AsSsize_t(py_basicsize); Py_DECREF(py_basicsize); py_basicsize = 0; if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) goto bad; #endif if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd", module_name, class_name, basicsize, size); if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; } else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd", module_name, class_name, basicsize, size); goto bad; } return (PyTypeObject *)result; bad: Py_XDECREF(py_module); Py_XDECREF(result); return NULL; } #endif /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/math/chistogramnd.pyx0000644023630100076410000016736213202530432020306 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "02/10/2017" cimport numpy # noqa cimport cython import numpy as np cimport histogramnd_c def chistogramnd(sample, histo_range, n_bins, weights=None, weight_min=None, weight_max=None, last_bin_closed=False, histo=None, weighted_histo=None, wh_dtype=None): """Computes the multidimensional histogram of some data. :param sample: The data to be histogrammed. Its shape must be either (N,) if it contains one dimensional coordinates, or an (N,D) array where the rows are the coordinates of points in a D dimensional space. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. .. warning:: if sample is not a C_CONTIGUOUS ndarray (e.g : a non contiguous slice) then histogramnd will have to do make an internal copy. :type sample: :class:`numpy.array` :param histo_range: A (N, 2) array containing the histogram range along each dimension, where N is the sample's number of dimensions. :type histo_range: array_like :param n_bins: The number of bins : * a scalar (same number of bins for all dimensions) * a D elements array (number of bins for each dimensions) :type n_bins: scalar or array_like :param weights: A N elements numpy array of values associated with each sample. The values of the *weighted_histo* array returned by the function are equal to the sum of the weights associated with the samples falling into each bin. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. .. note:: If None, the weighted histogram returned will be None. :type weights: *optional*, :class:`numpy.array` :param weight_min: Use this parameter to filter out all samples whose weights are lower than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_min: *optional*, scalar :param weight_max: Use this parameter to filter out all samples whose weights are higher than this value. .. note:: This value will be cast to the same type as *weights*. :type weight_max: *optional*, scalar :param last_bin_closed: By default the last bin is half open (i.e.: [x,y) ; x included, y excluded), like all the other bins. Set this parameter to true if you want the LAST bin to be closed. :type last_bin_closed: *optional*, :class:`python.boolean` :param histo: Use this parameter if you want to pass your own histogram array instead of the one created by this function. New values will be added to this array. The returned array will then be this one (same reference). .. warning:: If the histo array was created by a previous call to histogramnd then the user is responsible for providing the same parameters (*n_bins*, *histo_range*, ...). :type histo: *optional*, :class:`numpy.array` :param weighted_histo: Use this parameter if you want to pass your own weighted histogram array instead of the created by this function. New values will be added to this array. The returned array will then be this one (same reference). .. warning:: If the weighted_histo array was created by a previous call to histogramnd then the user is responsible for providing the same parameters (*n_bins*, *histo_range*, ...). .. warning:: if weighted_histo is not a C_CONTIGUOUS ndarray (e.g : a non contiguous slice) then histogramnd will have to do make an internal copy. :type weighted_histo: *optional*, :class:`numpy.array` :param wh_dtype: type of the weighted histogram array. This parameter is ignored if *weighted_histo* is provided. If not provided, the weighted histogram array will contain values of the same type as *weights*. Allowed values are : `numpu.double` and `numpy.float32`. :type wh_dtype: *optional*, numpy data type :return: Histogram (bin counts, always returned), weighted histogram of the sample (or *None* if weights is *None*) and bin edges for each dimension. :rtype: *tuple* (:class:`numpy.array`, :class:`numpy.array`, `tuple`) or (:class:`numpy.array`, None, `tuple`) """ if wh_dtype is None: wh_dtype = np.double elif wh_dtype not in (np.double, np.float32): raise ValueError(' type not supported : {0}.'.format(wh_dtype)) if (weighted_histo is not None and weighted_histo.flags['C_CONTIGUOUS'] is False): raise ValueError(' must be a C_CONTIGUOUS numpy array.') if histo is not None and histo.flags['C_CONTIGUOUS'] is False: raise ValueError(' must be a C_CONTIGUOUS numpy array.') s_shape = sample.shape n_dims = 1 if len(s_shape) == 1 else s_shape[1] if weights is not None: w_shape = weights.shape # making sure the sample and weights sizes are coherent # 2 different cases : 2D sample (N,M) and 1D (N) if len(w_shape) != 1 or w_shape[0] != s_shape[0]: raise ValueError(' must be an array whose length ' 'is equal to the number of samples.') weights_type = weights.dtype else: weights_type = None # just in case those arent numpy arrays # (this allows the user to provide native python lists, # => easier for testing) i_histo_range = histo_range histo_range = np.array(histo_range) err_histo_range = False if n_dims == 1: if histo_range.shape == (2,): pass elif histo_range.shape == (1, 2): histo_range.shape = -1 else: err_histo_range = True elif n_dims != 1 and histo_range.shape != (n_dims, 2): err_histo_range = True if err_histo_range: raise ValueError(' error : expected {n_dims} sets of ' 'lower and upper bin edges, ' 'got the following instead : {histo_range}. ' '(provided contains ' '{n_dims}D values)' ''.format(histo_range=i_histo_range, n_dims=n_dims)) # check range value if np.inf in histo_range: raise ValueError('Range parameter should be finite value') if np.nan in histo_range: raise ValueError('Range value can\'t be nan') # checking n_bins size n_bins = np.array(n_bins, ndmin=1) if len(n_bins) == 1: n_bins = np.tile(n_bins, n_dims) elif n_bins.shape != (n_dims,): raise ValueError('n_bins must be either a scalar (same number ' 'of bins for all dimensions) or ' 'an array (number of bins for each ' 'dimension).') # checking if None is in n_bins, otherwise a rather cryptic # exception is thrown when calling np.zeros # also testing for negative/null values if np.any(np.equal(n_bins, None)) or np.any(n_bins <= 0): raise ValueError(' : only positive values allowed.') output_shape = tuple(n_bins) # checking the histo array, if provided if histo is None: histo = np.zeros(output_shape, dtype=np.uint32) else: if histo.shape != output_shape: raise ValueError('Provided array doesn\'t have ' 'a shape compatible with ' ': should be {0} instead of {1}.' ''.format(output_shape, histo.shape)) if histo.dtype != np.uint32: raise ValueError('Provided array doesn\'t have ' 'the expected type ' ': should be {0} instead of {1}.' ''.format(np.uint32, histo.dtype)) # checking the weighted_histo array, if provided if weights_type is None: # no weights provided, not creating the weighted_histo array weighted_histo = None elif weighted_histo is None: # weights provided, but no weighted_histo, creating it if wh_dtype is None: wh_dtype = weights_type weighted_histo = np.zeros(output_shape, dtype=wh_dtype) else: # weighted_histo provided, checking shape/dtype if weighted_histo.shape != output_shape: raise ValueError('Provided array doesn\'t have ' 'a shape compatible with ' ': should be {0} instead of {1}.' ''.format(output_shape, weighted_histo.shape)) if (weighted_histo.dtype != np.float64 and weighted_histo.dtype != np.float32): raise ValueError('Provided array doesn\'t have ' 'the expected type ' ': should be {0} or {1} instead of {2}.' ''.format(np.double, np.float32, weighted_histo.dtype)) option_flags = 0 if weight_min is not None: option_flags |= histogramnd_c.HISTO_WEIGHT_MIN else: weight_min = 0 if weight_max is not None: option_flags |= histogramnd_c.HISTO_WEIGHT_MAX else: weight_max = 0 if last_bin_closed is not None and last_bin_closed: option_flags |= histogramnd_c.HISTO_LAST_BIN_CLOSED sample_type = sample.dtype sample_type = sample_type.newbyteorder('N') n_elem = sample.size // n_dims bin_edges = np.zeros(n_bins.sum() + n_bins.size, dtype=np.double) # wanted to store the functions in a dict (with the supported types # as keys, but I couldn't find a way to make it work with cdef # functions. so I have to explicitly list them all... def raise_unsupported_type(): raise TypeError('Case not supported - sample:{0} ' 'and weights:{1}.' ''.format(sample_type, weights_type)) sample_c = np.ascontiguousarray(sample.reshape((sample.size,)), dtype=sample_type) weights_c = (np.ascontiguousarray(weights.reshape((weights.size,)), dtype=weights.dtype.newbyteorder('N')) if weights is not None else None) histo_range_c = np.ascontiguousarray(histo_range.reshape((histo_range.size,)), dtype=np.double) n_bins_c = np.ascontiguousarray(n_bins.reshape((n_bins.size,)), dtype=np.int32) histo_c = histo.reshape((histo.size,)) if weighted_histo is not None: cumul_c = weighted_histo.reshape((weighted_histo.size,)) else: cumul_c = None bin_edges_c = np.ascontiguousarray(bin_edges.reshape((bin_edges.size,)), dtype=bin_edges.dtype.newbyteorder('N')) rc = 0 if weighted_histo is None or weighted_histo.dtype == np.double: if sample_type == np.float64: if weights_type == np.float64 or weights_type is None: rc = _histogramnd_double_double_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.float32: rc = _histogramnd_double_float_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.int32: rc = _histogramnd_double_int32_t_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) else: raise_unsupported_type() # endif sample_type == np.float64 elif sample_type == np.float32: if weights_type == np.float64 or weights_type is None: rc = _histogramnd_float_double_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.float32: rc = _histogramnd_float_float_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.int32: rc = _histogramnd_float_int32_t_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) else: raise_unsupported_type() # endif sample_type == np.float32 elif sample_type == np.int32: if weights_type == np.float64 or weights_type is None: rc = _histogramnd_int32_t_double_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.float32: rc = _histogramnd_int32_t_float_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.int32: rc = _histogramnd_int32_t_int32_t_double(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) else: raise_unsupported_type() # endif sample_type == np.int32: else: raise_unsupported_type() # endif weighted_histo is None or weighted_histo.dtype == np.double: elif weighted_histo.dtype == np.float32: if sample_type == np.float64: if weights_type == np.float64 or weights_type is None: rc = _histogramnd_double_double_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.float32: rc = _histogramnd_double_float_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.int32: rc = _histogramnd_double_int32_t_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) else: raise_unsupported_type() # endif sample_type == np.float64 elif sample_type == np.float32: if weights_type == np.float64 or weights_type is None: rc = _histogramnd_float_double_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.float32: rc = _histogramnd_float_float_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.int32: rc = _histogramnd_float_int32_t_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) else: raise_unsupported_type() # endif sample_type == np.float32 elif sample_type == np.int32: if weights_type == np.float64 or weights_type is None: rc = _histogramnd_int32_t_double_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.float32: rc = _histogramnd_int32_t_float_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) elif weights_type == np.int32: rc = _histogramnd_int32_t_int32_t_float(sample_c, weights_c, n_dims, n_elem, histo_range_c, n_bins_c, histo_c, cumul_c, bin_edges_c, option_flags, weight_min=weight_min, weight_max=weight_max) else: raise_unsupported_type() # endif sample_type == np.int32: else: raise_unsupported_type() # end elseif weighted_histo.dtype == np.float32: else: # this isnt supposed to happen since weighted_histo type was checked earlier raise_unsupported_type() if rc != histogramnd_c.HISTO_OK: if rc == histogramnd_c.HISTO_ERR_ALLOC: raise MemoryError('histogramnd failed to allocate memory.') else: raise Exception('histogramnd returned an error : {0}' ''.format(rc)) edges = [] offset = 0 for i_dim in range(n_dims): edges.append(bin_edges[offset:offset + n_bins[i_dim] + 1]) offset += n_bins[i_dim] + 1 return histo, weighted_histo, tuple(edges) # ===================== # double sample, double cumul # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_double_double_double(double[:] sample, double[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, double weight_min, double weight_max) nogil: return histogramnd_c.histogramnd_double_double_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_double_float_double(double[:] sample, float[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, float weight_min, float weight_max) nogil: return histogramnd_c.histogramnd_double_float_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_double_int32_t_double(double[:] sample, numpy.int32_t[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, numpy.int32_t weight_min, numpy.int32_t weight_max) nogil: return histogramnd_c.histogramnd_double_int32_t_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) # ===================== # float sample, double cumul # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_float_double_double(float[:] sample, double[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, double weight_min, double weight_max) nogil: return histogramnd_c.histogramnd_float_double_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_float_float_double(float[:] sample, float[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, float weight_min, float weight_max) nogil: return histogramnd_c.histogramnd_float_float_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_float_int32_t_double(float[:] sample, numpy.int32_t[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, numpy.int32_t weight_min, numpy.int32_t weight_max) nogil: return histogramnd_c.histogramnd_float_int32_t_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) # ===================== # numpy.int32_t sample, double cumul # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_int32_t_double_double(numpy.int32_t[:] sample, double[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, double weight_min, double weight_max) nogil: return histogramnd_c.histogramnd_int32_t_double_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_int32_t_float_double(numpy.int32_t[:] sample, float[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, float weight_min, float weight_max) nogil: return histogramnd_c.histogramnd_int32_t_float_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_int32_t_int32_t_double(numpy.int32_t[:] sample, numpy.int32_t[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, double[:] cumul, double[:] bin_edges, int option_flags, numpy.int32_t weight_min, numpy.int32_t weight_max) nogil: return histogramnd_c.histogramnd_int32_t_int32_t_double(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) # ===================== # double sample, float cumul # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_double_double_float(double[:] sample, double[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, double weight_min, double weight_max) nogil: return histogramnd_c.histogramnd_double_double_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_double_float_float(double[:] sample, float[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, float weight_min, float weight_max) nogil: return histogramnd_c.histogramnd_double_float_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_double_int32_t_float(double[:] sample, numpy.int32_t[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, numpy.int32_t weight_min, numpy.int32_t weight_max) nogil: return histogramnd_c.histogramnd_double_int32_t_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) # ===================== # float sample, float cumul # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_float_double_float(float[:] sample, double[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, double weight_min, double weight_max) nogil: return histogramnd_c.histogramnd_float_double_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_float_float_float(float[:] sample, float[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, float weight_min, float weight_max) nogil: return histogramnd_c.histogramnd_float_float_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_float_int32_t_float(float[:] sample, numpy.int32_t[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, numpy.int32_t weight_min, numpy.int32_t weight_max) nogil: return histogramnd_c.histogramnd_float_int32_t_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) # ===================== # numpy.int32_t sample, float cumul # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_int32_t_double_float(numpy.int32_t[:] sample, double[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, double weight_min, double weight_max) nogil: return histogramnd_c.histogramnd_int32_t_double_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_int32_t_float_float(numpy.int32_t[:] sample, float[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, float weight_min, float weight_max) nogil: return histogramnd_c.histogramnd_int32_t_float_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) cdef int _histogramnd_int32_t_int32_t_float(numpy.int32_t[:] sample, numpy.int32_t[:] weights, int n_dims, int n_elem, double[:] histo_range, int[:] n_bins, numpy.uint32_t[:] histo, float[:] cumul, double[:] bin_edges, int option_flags, numpy.int32_t weight_min, numpy.int32_t weight_max) nogil: return histogramnd_c.histogramnd_int32_t_int32_t_float(&sample[0], &weights[0], n_dims, n_elem, &histo_range[0], &n_bins[0], &histo[0], &cumul[0], &bin_edges[0], option_flags, weight_min, weight_max) silx-0.6.1/silx/math/__init__.py0000644023630100076410000000301213202530432017150 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet", "V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "11/05/2017" from .histogram import Histogramnd # noqa from .histogram import HistogramndLut # noqa from .medianfilter import medfilt, medfilt1d, medfilt2d silx-0.6.1/silx/math/combo.pyx0000644023630100076410000002476013202530432016715 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module provides combination of statistics as single operation. For now it provides min/max (and optionally positive min) and indices of first occurrences (i.e., argmin/argmax) in a single pass. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "18/10/2017" cimport cython # Windows compatibility: Cross-platform INFINITY from libc.float cimport DBL_MAX cdef double INFINITY = DBL_MAX + DBL_MAX # from libc.math cimport INFINITY # Replacement from libc.math cimport isnan # which is not available on Windows for Python2.7 cdef extern from "isnan.h": bint isnan(double x) nogil bint isfinite(double x) nogil import numpy # All supported types ctypedef fused _number: float double long double signed char signed short signed int signed long signed long long unsigned char unsigned short unsigned int unsigned long unsigned long long # All supported floating types: # cython.floating + long double ctypedef fused _floating: float double long double class _MinMaxResult(object): """Object storing result from :func:`min_max`""" def __init__(self, minimum, min_pos, maximum, argmin, argmin_pos, argmax): self._minimum = minimum self._min_positive = min_pos self._maximum = maximum self._argmin = argmin self._argmin_positive = argmin_pos self._argmax = argmax minimum = property( lambda self: self._minimum, doc="Minimum value of the array") maximum = property( lambda self: self._maximum, doc="Maximum value of the array") argmin = property( lambda self: self._argmin, doc="Index of the first occurrence of the minimum value") argmax = property( lambda self: self._argmax, doc="Index of the first occurrence of the maximum value") min_positive = property( lambda self: self._min_positive, doc="""Strictly positive minimum value It is None if no value is strictly positive. """) argmin_positive = property( lambda self: self._argmin_positive, doc="""Index of the strictly positive minimum value. It is None if no value is strictly positive. It is the index of the first occurrence.""") def __getitem__(self, key): if key == 0: return self.minimum elif key == 1: return self.maximum else: raise IndexError("Index out of range") @cython.initializedcheck(False) @cython.boundscheck(False) @cython.wraparound(False) def _min_max(_number[::1] data, bint min_positive=False): """:func:`min_max` implementation including infinite values See :func:`min_max` for documentation. """ cdef: _number value, minimum, min_pos, maximum unsigned int length unsigned int index = 0 unsigned int min_index = 0 unsigned int min_pos_index = 0 unsigned int max_index = 0 length = len(data) if length == 0: raise ValueError('Zero-size array') with nogil: # Init starting values value = data[0] minimum = value maximum = value if min_positive and value > 0: min_pos = value else: min_pos = 0 if _number in _floating: # For floating, loop until first not NaN value for index in range(length): value = data[index] if not isnan(value): minimum = value min_index = index maximum = value max_index = index break if not min_positive: for index in range(index, length): value = data[index] if value > maximum: maximum = value max_index = index elif value < minimum: minimum = value min_index = index else: # Loop until min_pos is defined for index in range(index, length): value = data[index] if value > maximum: maximum = value max_index = index elif value < minimum: minimum = value min_index = index if value > 0: min_pos = value min_pos_index = index break # Loop until the end for index in range(index + 1, length): value = data[index] if value > maximum: maximum = value max_index = index else: if value < minimum: minimum = value min_index = index if 0 < value < min_pos: min_pos = value min_pos_index = index return _MinMaxResult(minimum, min_pos if min_pos > 0 else None, maximum, min_index, min_pos_index if min_pos > 0 else None, max_index) @cython.initializedcheck(False) @cython.boundscheck(False) @cython.wraparound(False) def _finite_min_max(_floating[::1] data, bint min_positive=False): """:func:`min_max` implementation for floats skipping infinite values See :func:`min_max` for documentation. """ cdef: _floating value, minimum, min_pos, maximum unsigned int length unsigned int index = 0 unsigned int min_index = 0 unsigned int min_pos_index = 0 unsigned int max_index = 0 length = len(data) if length == 0: raise ValueError('Zero-size array') with nogil: minimum = INFINITY maximum = -INFINITY min_pos = INFINITY if not min_positive: for index in range(length): value = data[index] if isfinite(value): if value > maximum: maximum = value max_index = index if value < minimum: minimum = value min_index = index else: for index in range(index, length): value = data[index] if isfinite(value): if value > maximum: maximum = value max_index = index if value < minimum: minimum = value min_index = index if 0. < value < min_pos: min_pos = value min_pos_index = index return _MinMaxResult(minimum if isfinite(minimum) else None, min_pos if isfinite(min_pos) else None, maximum if isfinite(maximum) else None, min_index if isfinite(minimum) else None, min_pos_index if isfinite(min_pos) else None, max_index if isfinite(maximum) else None) def min_max(data not None, bint min_positive=False, bint finite=False): """Returns min, max and optionally strictly positive min of data. It also computes the indices of first occurrence of min/max. NaNs are ignored while computing min/max unless all data is NaNs, in which case returned min/max are NaNs. Examples: >>> import numpy >>> data = numpy.arange(10) Usage as a function returning min and max: >>> min_, max_ = min_max(data) Usage as a function returning a result object to access all information: >>> result = min_max(data) # Do not get positive min >>> result.minimum, result.argmin 0, 0 >>> result.maximum, result.argmax 9, 10 >>> result.min_positive, result.argmin_positive # Not computed None, None Getting strictly positive min information: >>> result = min_max(data, min_positive=True) >>> result.min_positive, result.argmin_positive # Computed 1, 1 If *finite* is True, min/max information is computed only from finite data. Then, all result fields (include minimum and maximum) can be None when all data is infinity or NaN. :param data: Array-like dataset :param bool min_positive: True to compute the positive min and argmin Default: False. :param bool finite: True to compute min/max from finite data only Default: False. :returns: An object with minimum, maximum and min_positive attributes and the indices of first occurrence in the flattened data: argmin, argmax and argmin_positive attributes. If all data is <= 0 or min_positive argument is False, then min_positive and argmin_positive are None. :raises: ValueError if data is empty """ data = numpy.array(data, copy=False) native_endian_dtype = data.dtype.newbyteorder('N') data = numpy.ascontiguousarray(data, dtype=native_endian_dtype).ravel() if finite and data.dtype.kind == 'f': return _finite_min_max(data, min_positive) else: return _min_max(data, min_positive) silx-0.6.1/silx/math/marchingcubes/0000755023630100076410000000000013202537043017662 5ustar knobelusers00000000000000silx-0.6.1/silx/math/marchingcubes/mc.hpp0000644023630100076410000006060613202530306020775 0ustar knobelusers00000000000000/*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ #ifndef __mc_HPP__ #define __mc_HPP__ #include #include #include #include #include #include extern const int MCTriangleTable[256][16]; extern const unsigned int MCEdgeIndexToCoordOffsets[12][4]; #define DEPTH_IDX 0 #define HEIGHT_IDX 1 #define WIDTH_IDX 2 /** Class Marching cubes * * Implements the marching cube algorithm and provides an API to process * data image by image. * * Dimension convention used is (dim0, dim1, dim2) denoted as * (depth, height, width) with dim2 (= width) being contiguous in memory. * * If data is provided as (depth, height, width), resulting vertices * and normals will be stored as (z, y, x) * * Indices in memory for a single cube: * * dim 0 (depth) * | * | * 4 +------+ 5 * /| /| * / | / | * 6 +------+ 7| * | | | | * |0 +---|--+ 1 --- dim 2 (width) * | / | / * |/ |/ * 2 +------+ 3 * / * / * dim 1 (height) */ template class MarchingCubes { public: /** Create a marching cube object. * * @param level Level at which to build the isosurface */ MarchingCubes(const FloatIn level); ~MarchingCubes(); /** Process a 3D scalar field * * @param data Pointer to the data set * @param depth The 1st dimension of the data set * @param height The 2nd dimension of the data set * @param width The 3rd dimension of the data set * (tightly packed in memory) */ void process(const FloatIn * data, const unsigned int depth, const unsigned int height, const unsigned int width); /** Init dimension of slices * * @param height Height in pixels of the slices * @param width Width in pixels of the slices */ void set_slice_size(const unsigned int height, const unsigned int width); /** Process a slice (i.e., an image) * * The size of the images MUST match height and width provided to * set_slice_size. * * The marching cube process 2 consecutive images at a time. * A slice provided as next parameter MUST be provided as current * parameter for the next call. * Example with 3 images: * * float * img1; * float * img2; * float * img3; * ... * mc = MarchingCubes(100.); * mc.set_slice_size(10, 10); * mc.process_slice(img1, img2); * mc.process_slice(img2, img3); * mc.finish_process(); * * @param slice0 Pointer to the nth slice data * @param slice1 Pointer to the (n+1)th slice of data */ void process_slice(const FloatIn * slice0, const FloatIn * slice1); /** Clear marching cube processing internal cache. */ void finish_process(); /** Reset all internal data and counters. */ void reset(); /** Vertices of the isosurface (x, y, z) */ std::vector vertices; /** Approximation of normals at the vertices (nx, ny, nz) * * Current implementation provides coarse (but fast) normals computation */ std::vector normals; /** Triangle indices */ std::vector indices; unsigned int depth; /**< Number of images currently processed */ unsigned int height; /**< Images height in pixels */ unsigned int width; /**< Images width in pixels */ /** Sampling of the data (depth, height, width) * * Default: 1, 1, 1 */ unsigned int sampling[3]; FloatIn isolevel; /**< Iso level to use */ bool invert_normals; /**< True to inverse gradient as normals */ private: /** Start to build isosurface starting with first slice * * Bootstrap cache edge_indices * * @param slice The first slice of the data * @param next The second slice */ void first_slice(const FloatIn * slice, const FloatIn * next); /** Process an edge * * @param value0 Data at 'begining' of edge * @param value Data at 'end' of edge * @param depth Depth coordinate of the edge position * @param row Row coordinate of the edge * @param col Column coordinate of the edge * @param direction Direction of the edge: 0 for x, 1 for y and 2 for z * @param previous * @param current * @param next */ void process_edge(const FloatIn value0, const FloatIn value, const unsigned int depth, const unsigned int row, const unsigned int col, const unsigned int direction, const FloatIn * previous, const FloatIn * current, const FloatIn * next); /** Return the bit mask of cube corners <= the iso-value. * * @param slice1 1st slice of the cube to consider * @param slice2 2nd slice of the cube to consider * @param row Row of the cube to consider * @param col Column of the cube to consider * @return The bit mask of cube corners <= the iso-value */ unsigned char get_cell_code(const FloatIn * slice1, const FloatIn * slice2, const unsigned int row, const unsigned int col); /** Compute an edge index from position and edge direction. * * @param depth Depth of the origin of the edge * @param row Row of the origin of the edge * @param col Column of the origin of the edge * @param direction 0 for x, 1 for y, 2 for z * @return The (4D) index of the edge */ unsigned int edge_index(const unsigned int depth, const unsigned int row, const unsigned int col, const unsigned int direction); /** For each dimension, a map from edge index to vertex index * * This caches indices for previously processed slice. * * Edge index is the linearized position of the edge using size + 1 * in all dimensions as coordinates plus the direction as 4th coord. * WARNING: direction 0 for x, 1 for y and 2 for z */ std::map * edge_indices; }; /* Implementation */ template MarchingCubes::MarchingCubes(const FloatIn level) { this->edge_indices = 0; this->reset(); this->height = 0; this->width = 0; this->isolevel = level; this->invert_normals = true; this->sampling[0] = 1; this->sampling[1] = 1; this->sampling[2] = 1; } template MarchingCubes::~MarchingCubes() { } template void MarchingCubes::reset() { this->depth = 0; this->vertices.clear(); this->normals.clear(); this->indices.clear(); if (this->edge_indices != 0) { delete this->edge_indices; this->edge_indices = 0; } } template void MarchingCubes::finish_process() { if (this->edge_indices != 0) { delete this->edge_indices; this->edge_indices = 0; } } template void MarchingCubes::process(const FloatIn * data, const unsigned int depth, const unsigned int height, const unsigned int width) { assert(data != NULL); unsigned int size = height * width * this->sampling[DEPTH_IDX]; /* number of slices minus - 1 to process */ const unsigned int nb_slices = (depth - 1) / this->sampling[DEPTH_IDX]; this->reset(); this->set_slice_size(height, width); for (unsigned int index=0; index < nb_slices; index++) { const FloatIn * slice0 = data + (index * size); const FloatIn * slice1 = slice0 + size; this->process_slice(slice0, slice1); } this->finish_process(); this->depth = depth; /* Forced as it might be < depth otherwise */ } template void MarchingCubes::set_slice_size(const unsigned int height, const unsigned int width) { this->reset(); this->height = height; this->width = width; } template void MarchingCubes::process_slice(const FloatIn * slice0, const FloatIn * slice1) { assert(slice0 != NULL); assert(slice1 != NULL); unsigned int row, col; if (this->edge_indices == 0) { /* No previously processed slice, bootstrap */ this->first_slice(slice0, slice1); } /* Keep reference to cache from previous slice */ std::map * previous_edge_indices = this->edge_indices; /* Init cache for this slice */ this->edge_indices = new std::map(); /* Loop over slice to add vertices */ for (row=0; row < this->height; row += this->sampling[HEIGHT_IDX]) { unsigned int line_index = row * this->width; for (col=0; col < this->width; col += this->sampling[WIDTH_IDX]) { unsigned int item_index = line_index + col; FloatIn value0 = slice1[item_index]; /* Test forward edges and add vertices in the current slice plane */ if (col < (width - this->sampling[WIDTH_IDX])) { FloatIn value = slice1[item_index + this->sampling[WIDTH_IDX]]; this->process_edge(value0, value, this->depth, row, col, 0, slice0, slice1, 0); } if (row < (height - this->sampling[HEIGHT_IDX])) { /* Value from next line*/ FloatIn value = slice1[item_index + this->width * this->sampling[HEIGHT_IDX]]; this->process_edge(value0, value, this->depth, row, col, 1, slice0, slice1, 0); } /* Test backward edges and add vertices in z direction */ { FloatIn value = slice0[item_index]; /* Expect forward edge, so pass: previous, current */ this->process_edge(value, value0, this->depth - this->sampling[DEPTH_IDX], row, col, 2, 0, slice0, slice1); } } } /* Loop over cubes to add triangle indices */ for (row=0; row < this->height - this->sampling[HEIGHT_IDX]; row += this->sampling[HEIGHT_IDX]) { for (col=0; col < this->width - this->sampling[WIDTH_IDX]; col += this->sampling[WIDTH_IDX]) { unsigned char code = this->get_cell_code(slice0, slice1, row, col); if (code == 0) { continue; } const int * edgeIndexPtr = &MCTriangleTable[code][0]; for (; *edgeIndexPtr >= 0; edgeIndexPtr++) { const unsigned int * offsets = \ MCEdgeIndexToCoordOffsets[*edgeIndexPtr]; unsigned int edge_index = this->edge_index( this->depth - this->sampling[DEPTH_IDX] + offsets[DEPTH_IDX] * this->sampling[DEPTH_IDX], row + offsets[HEIGHT_IDX] * this->sampling[HEIGHT_IDX], col + offsets[WIDTH_IDX] * this->sampling[WIDTH_IDX], offsets[3]); /* Add vertex index to the list of indices */ std::map::iterator it, end; if (offsets[DEPTH_IDX] == 0 && offsets[3] != 2) { it = previous_edge_indices->find(edge_index); end = previous_edge_indices->end(); } else { it = this->edge_indices->find(edge_index); end = this->edge_indices->end(); } if (it == end) { throw std::runtime_error( "Internal error: cannot build triangle indices."); } else { this->indices.push_back(it->second); } } } } /* Clean-up previous slice cache */ delete previous_edge_indices; this->depth += this->sampling[DEPTH_IDX]; } template void MarchingCubes::first_slice(const FloatIn * slice, const FloatIn * next) { assert(slice != NULL); assert(next != NULL); /* Init cache for this slice */ this->edge_indices = new std::map(); unsigned int row, col; /* Loop over slice, and add isosurface vertices in the slice plane */ for (row=0; row < this->height; row += this->sampling[HEIGHT_IDX]) { unsigned int line_index = row * this->width; for (col=0; col < this->width; col += this->sampling[WIDTH_IDX]) { unsigned int item_index = line_index + col; /* For each point test forward edges */ FloatIn value0 = slice[item_index]; if (col < (width - this->sampling[WIDTH_IDX])) { FloatIn value = slice[item_index + this->sampling[WIDTH_IDX]]; this->process_edge(value0, value, this->depth, row, col, 0, 0, slice, next); } if (row < (height - this->sampling[HEIGHT_IDX])) { /* Value from next line */ FloatIn value = slice[item_index + this->width * this->sampling[HEIGHT_IDX]]; this->process_edge(value0, value, this->depth, row, col, 1, 0, slice, next); } } } this->depth += this->sampling[DEPTH_IDX]; } template inline unsigned int MarchingCubes::edge_index(const unsigned int depth, const unsigned int row, const unsigned int col, const unsigned int direction) { return ((depth * (this->height + 1) + row) * (this->width + 1) + col) * 3 + direction; } template inline void MarchingCubes::process_edge(const FloatIn value0, const FloatIn value, const unsigned int depth, const unsigned int row, const unsigned int col, const unsigned int direction, const FloatIn * previous, const FloatIn * current, const FloatIn * next) { assert(current != NULL); if ((value0 <= this->isolevel) ^ (value <= this->isolevel)) { /* Crossing iso-surface, store it */ FloatIn offset = (this->isolevel - value0) / (value - value0); /* Store edge to vertex index correspondance */ unsigned int edge_index = this->edge_index(depth, row, col, direction); (*this->edge_indices)[edge_index] = this->vertices.size() / 3; /* Store vertex as (z, y, x) */ if (direction == 0) { this->vertices.push_back((FloatOut) depth); this->vertices.push_back((FloatOut) row); this->vertices.push_back( (FloatOut) col + offset * this->sampling[WIDTH_IDX]); } else if (direction == 1) { this->vertices.push_back((FloatOut) depth); this->vertices.push_back( (FloatOut) row + offset * this->sampling[HEIGHT_IDX]); this->vertices.push_back((FloatOut) col); } else if (direction == 2) { this->vertices.push_back( (FloatOut) depth + offset * this->sampling[DEPTH_IDX]); this->vertices.push_back((FloatOut) row); this->vertices.push_back((FloatOut) col); } else { throw std::runtime_error( "Internal error: dimension > 3, never event."); } /* Store normal as (nz, ny, nx) */ FloatOut nz, ny, nx; const FloatIn * slice0 = (previous != 0) ? previous : current; const FloatIn * slice1 = (previous != 0) ? current : next; unsigned int row_offset = this->width * this->sampling[HEIGHT_IDX]; if (direction == 0) { { /* nz */ unsigned int item, item_next_col; item = row * this->width + col; if (col >= this->width - this->sampling[WIDTH_IDX]) { /* For last column, use previous column */ item -= this->sampling[WIDTH_IDX]; } item_next_col = item + this->sampling[WIDTH_IDX]; nz = ((1. - offset) * (slice1[item] - slice0[item]) + offset * (slice1[item_next_col] - slice0[item_next_col])); } { /* ny */ unsigned int item, item_next_col; item = row * this->width + col; if (row >= this->height - this->sampling[HEIGHT_IDX]) { /* For last row, use previous row */ item -= row_offset; } if (col >= this->width - this->sampling[WIDTH_IDX]) { /* For last column, use previous column */ item -= this->sampling[WIDTH_IDX]; } item_next_col = item + this->sampling[WIDTH_IDX]; ny = ((1. - offset) * (current[item + row_offset] - current[item]) + offset * (current[item_next_col + row_offset] - current[item_next_col])); } nx = value - value0; } else if (direction == 1) { { /* nz */ unsigned int item, item_next_row; item = row * this->width + col; if (row >= this->height - this->sampling[HEIGHT_IDX]) { /* For last row, use previous row */ item -= row_offset; } item_next_row = item + row_offset; nz = ((1. - offset) * (slice1[item] - slice0[item]) + offset * (slice1[item_next_row] - slice0[item_next_row])); } ny = value - value0; { /* nx */ unsigned int item, item_next_row; item = row * this->width + col; if (row >= this->height - this->sampling[HEIGHT_IDX]) { /* For last row, use previous row */ item -= row_offset; } if (col >= this->width - this->sampling[WIDTH_IDX]) { /* For last column, use previous column */ item -= this->sampling[WIDTH_IDX]; } item_next_row = item + row_offset; nx = ((1. - offset) * (current[item + this->sampling[WIDTH_IDX]] - current[item]) + offset * (current[item_next_row + this->sampling[WIDTH_IDX]] - current[item_next_row])); } } else { /* direction == 2 */ assert(direction == 2); /* Previous should always be 0, only here in case this changes */ const FloatIn * other_slice = (previous != 0) ? previous : next; nz = value - value0; { /* ny */ unsigned int item, item_next_row; item = row * this->width + col; if (row >= this->height - this->sampling[HEIGHT_IDX]) { /* For last row, use previous row */ item -= row_offset; } item_next_row = item + row_offset; ny = ((1. - offset) * (current[item_next_row] - current[item]) + offset * (other_slice[item_next_row] - other_slice[item])); } { /* nx */ unsigned int item; item = row * this->width + col; if (col >= this->width - this->sampling[WIDTH_IDX]) { /* For last column, use previous column */ item -= this->sampling[WIDTH_IDX]; } const unsigned int item_next_col = item + this->sampling[WIDTH_IDX]; nx = ((1. - offset) * (current[item_next_col] - current[item]) + offset * (other_slice[item_next_col] - other_slice[item])); } } /* apply sampling scaling */ nz /= (FloatOut) this->sampling[0]; ny /= (FloatOut) this->sampling[1]; nx /= (FloatOut) this->sampling[2]; /* normalisation */ FloatOut norm = sqrt(nz * nz + ny * ny + nx * nx); if (this->invert_normals) { /* Normal inversion */ norm *= -1.; } if (norm != 0) { nz /= norm; ny /= norm; nx /= norm; } this->normals.push_back(nz); this->normals.push_back(ny); this->normals.push_back(nx); } } template inline unsigned char MarchingCubes::get_cell_code(const FloatIn * slice1, const FloatIn * slice2, const unsigned int row, const unsigned int col) { assert(slice1 != NULL); assert(slice2 != NULL); unsigned int item = row * this->width + col; unsigned int item_next_row = item + this->width * this->sampling[HEIGHT_IDX]; unsigned char code = 0; /* Cube convention for cell code: * WARNING: This differ from layout in memory * * 4 +------+ 5 * /| /| * / | / | * 7 +------+ 6| * | | | | * |0 +---|--+ 1 * | / | / * |/ |/ * 3 +------+ 2 * */ /* First slice */ if (slice1[item] <= this->isolevel) { code |= 1 << 0; } if (slice1[item + this->sampling[WIDTH_IDX]] <= this->isolevel) { code |= 1 << 1; } if (slice1[item_next_row + this->sampling[WIDTH_IDX]] <= this->isolevel) { code |= 1 << 2; } if (slice1[item_next_row] <= this->isolevel) { code |= 1 << 3; } /* Second slice */ if (slice2[item] <= this->isolevel) { code |= 1 << 4; } if (slice2[item + this->sampling[WIDTH_IDX]] <= this->isolevel) { code |= 1 << 5; } if (slice2[item_next_row + this->sampling[WIDTH_IDX]] <= this->isolevel) { code |= 1 << 6; } if (slice2[item_next_row] <= this->isolevel) { code |= 1 << 7; } return code; } #endif /*__mc_HPP__*/ silx-0.6.1/silx/math/marchingcubes/mc_lut.cpp0000644023630100076410000004324613202530306021655 0ustar knobelusers00000000000000# /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ #include "mc.hpp" /** Gives edge index of triangles vertices for each of the 256 possible cubes. * * Table taken from http://paulbourke.net/geometry/polygonise/ * Author: Cory Bloyd * Originially this code is public domain, * relicensed here as MIT to provide a license. * * The cube index is a bit mask of cube corners <= isoValue. * See vertexOffset for the place of each corner in the bit mask. */ const int MCTriangleTable[256][16] = { {-1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 1, 9, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 8, 3, 9, 8, 1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 3, 1, 2, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {9, 2, 10, 0, 2, 9, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {2, 8, 3, 2, 10, 8, 10, 9, 8, -1, -1, -1, -1, -1, -1, -1}, {3, 11, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 11, 2, 8, 11, 0, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 9, 0, 2, 3, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 11, 2, 1, 9, 11, 9, 8, 11, -1, -1, -1, -1, -1, -1, -1}, {3, 10, 1, 11, 10, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 10, 1, 0, 8, 10, 8, 11, 10, -1, -1, -1, -1, -1, -1, -1}, {3, 9, 0, 3, 11, 9, 11, 10, 9, -1, -1, -1, -1, -1, -1, -1}, {9, 8, 10, 10, 8, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 7, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 3, 0, 7, 3, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 1, 9, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 1, 9, 4, 7, 1, 7, 3, 1, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 10, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {3, 4, 7, 3, 0, 4, 1, 2, 10, -1, -1, -1, -1, -1, -1, -1}, {9, 2, 10, 9, 0, 2, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1}, {2, 10, 9, 2, 9, 7, 2, 7, 3, 7, 9, 4, -1, -1, -1, -1}, {8, 4, 7, 3, 11, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {11, 4, 7, 11, 2, 4, 2, 0, 4, -1, -1, -1, -1, -1, -1, -1}, {9, 0, 1, 8, 4, 7, 2, 3, 11, -1, -1, -1, -1, -1, -1, -1}, {4, 7, 11, 9, 4, 11, 9, 11, 2, 9, 2, 1, -1, -1, -1, -1}, {3, 10, 1, 3, 11, 10, 7, 8, 4, -1, -1, -1, -1, -1, -1, -1}, {1, 11, 10, 1, 4, 11, 1, 0, 4, 7, 11, 4, -1, -1, -1, -1}, {4, 7, 8, 9, 0, 11, 9, 11, 10, 11, 0, 3, -1, -1, -1, -1}, {4, 7, 11, 4, 11, 9, 9, 11, 10, -1, -1, -1, -1, -1, -1, -1}, {9, 5, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {9, 5, 4, 0, 8, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 5, 4, 1, 5, 0, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {8, 5, 4, 8, 3, 5, 3, 1, 5, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 10, 9, 5, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {3, 0, 8, 1, 2, 10, 4, 9, 5, -1, -1, -1, -1, -1, -1, -1}, {5, 2, 10, 5, 4, 2, 4, 0, 2, -1, -1, -1, -1, -1, -1, -1}, {2, 10, 5, 3, 2, 5, 3, 5, 4, 3, 4, 8, -1, -1, -1, -1}, {9, 5, 4, 2, 3, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 11, 2, 0, 8, 11, 4, 9, 5, -1, -1, -1, -1, -1, -1, -1}, {0, 5, 4, 0, 1, 5, 2, 3, 11, -1, -1, -1, -1, -1, -1, -1}, {2, 1, 5, 2, 5, 8, 2, 8, 11, 4, 8, 5, -1, -1, -1, -1}, {10, 3, 11, 10, 1, 3, 9, 5, 4, -1, -1, -1, -1, -1, -1, -1}, {4, 9, 5, 0, 8, 1, 8, 10, 1, 8, 11, 10, -1, -1, -1, -1}, {5, 4, 0, 5, 0, 11, 5, 11, 10, 11, 0, 3, -1, -1, -1, -1}, {5, 4, 8, 5, 8, 10, 10, 8, 11, -1, -1, -1, -1, -1, -1, -1}, {9, 7, 8, 5, 7, 9, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {9, 3, 0, 9, 5, 3, 5, 7, 3, -1, -1, -1, -1, -1, -1, -1}, {0, 7, 8, 0, 1, 7, 1, 5, 7, -1, -1, -1, -1, -1, -1, -1}, {1, 5, 3, 3, 5, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {9, 7, 8, 9, 5, 7, 10, 1, 2, -1, -1, -1, -1, -1, -1, -1}, {10, 1, 2, 9, 5, 0, 5, 3, 0, 5, 7, 3, -1, -1, -1, -1}, {8, 0, 2, 8, 2, 5, 8, 5, 7, 10, 5, 2, -1, -1, -1, -1}, {2, 10, 5, 2, 5, 3, 3, 5, 7, -1, -1, -1, -1, -1, -1, -1}, {7, 9, 5, 7, 8, 9, 3, 11, 2, -1, -1, -1, -1, -1, -1, -1}, {9, 5, 7, 9, 7, 2, 9, 2, 0, 2, 7, 11, -1, -1, -1, -1}, {2, 3, 11, 0, 1, 8, 1, 7, 8, 1, 5, 7, -1, -1, -1, -1}, {11, 2, 1, 11, 1, 7, 7, 1, 5, -1, -1, -1, -1, -1, -1, -1}, {9, 5, 8, 8, 5, 7, 10, 1, 3, 10, 3, 11, -1, -1, -1, -1}, {5, 7, 0, 5, 0, 9, 7, 11, 0, 1, 0, 10, 11, 10, 0, -1}, {11, 10, 0, 11, 0, 3, 10, 5, 0, 8, 0, 7, 5, 7, 0, -1}, {11, 10, 5, 7, 11, 5, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {10, 6, 5, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 3, 5, 10, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {9, 0, 1, 5, 10, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 8, 3, 1, 9, 8, 5, 10, 6, -1, -1, -1, -1, -1, -1, -1}, {1, 6, 5, 2, 6, 1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 6, 5, 1, 2, 6, 3, 0, 8, -1, -1, -1, -1, -1, -1, -1}, {9, 6, 5, 9, 0, 6, 0, 2, 6, -1, -1, -1, -1, -1, -1, -1}, {5, 9, 8, 5, 8, 2, 5, 2, 6, 3, 2, 8, -1, -1, -1, -1}, {2, 3, 11, 10, 6, 5, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {11, 0, 8, 11, 2, 0, 10, 6, 5, -1, -1, -1, -1, -1, -1, -1}, {0, 1, 9, 2, 3, 11, 5, 10, 6, -1, -1, -1, -1, -1, -1, -1}, {5, 10, 6, 1, 9, 2, 9, 11, 2, 9, 8, 11, -1, -1, -1, -1}, {6, 3, 11, 6, 5, 3, 5, 1, 3, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 11, 0, 11, 5, 0, 5, 1, 5, 11, 6, -1, -1, -1, -1}, {3, 11, 6, 0, 3, 6, 0, 6, 5, 0, 5, 9, -1, -1, -1, -1}, {6, 5, 9, 6, 9, 11, 11, 9, 8, -1, -1, -1, -1, -1, -1, -1}, {5, 10, 6, 4, 7, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 3, 0, 4, 7, 3, 6, 5, 10, -1, -1, -1, -1, -1, -1, -1}, {1, 9, 0, 5, 10, 6, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1}, {10, 6, 5, 1, 9, 7, 1, 7, 3, 7, 9, 4, -1, -1, -1, -1}, {6, 1, 2, 6, 5, 1, 4, 7, 8, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 5, 5, 2, 6, 3, 0, 4, 3, 4, 7, -1, -1, -1, -1}, {8, 4, 7, 9, 0, 5, 0, 6, 5, 0, 2, 6, -1, -1, -1, -1}, {7, 3, 9, 7, 9, 4, 3, 2, 9, 5, 9, 6, 2, 6, 9, -1}, {3, 11, 2, 7, 8, 4, 10, 6, 5, -1, -1, -1, -1, -1, -1, -1}, {5, 10, 6, 4, 7, 2, 4, 2, 0, 2, 7, 11, -1, -1, -1, -1}, {0, 1, 9, 4, 7, 8, 2, 3, 11, 5, 10, 6, -1, -1, -1, -1}, {9, 2, 1, 9, 11, 2, 9, 4, 11, 7, 11, 4, 5, 10, 6, -1}, {8, 4, 7, 3, 11, 5, 3, 5, 1, 5, 11, 6, -1, -1, -1, -1}, {5, 1, 11, 5, 11, 6, 1, 0, 11, 7, 11, 4, 0, 4, 11, -1}, {0, 5, 9, 0, 6, 5, 0, 3, 6, 11, 6, 3, 8, 4, 7, -1}, {6, 5, 9, 6, 9, 11, 4, 7, 9, 7, 11, 9, -1, -1, -1, -1}, {10, 4, 9, 6, 4, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 10, 6, 4, 9, 10, 0, 8, 3, -1, -1, -1, -1, -1, -1, -1}, {10, 0, 1, 10, 6, 0, 6, 4, 0, -1, -1, -1, -1, -1, -1, -1}, {8, 3, 1, 8, 1, 6, 8, 6, 4, 6, 1, 10, -1, -1, -1, -1}, {1, 4, 9, 1, 2, 4, 2, 6, 4, -1, -1, -1, -1, -1, -1, -1}, {3, 0, 8, 1, 2, 9, 2, 4, 9, 2, 6, 4, -1, -1, -1, -1}, {0, 2, 4, 4, 2, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {8, 3, 2, 8, 2, 4, 4, 2, 6, -1, -1, -1, -1, -1, -1, -1}, {10, 4, 9, 10, 6, 4, 11, 2, 3, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 2, 2, 8, 11, 4, 9, 10, 4, 10, 6, -1, -1, -1, -1}, {3, 11, 2, 0, 1, 6, 0, 6, 4, 6, 1, 10, -1, -1, -1, -1}, {6, 4, 1, 6, 1, 10, 4, 8, 1, 2, 1, 11, 8, 11, 1, -1}, {9, 6, 4, 9, 3, 6, 9, 1, 3, 11, 6, 3, -1, -1, -1, -1}, {8, 11, 1, 8, 1, 0, 11, 6, 1, 9, 1, 4, 6, 4, 1, -1}, {3, 11, 6, 3, 6, 0, 0, 6, 4, -1, -1, -1, -1, -1, -1, -1}, {6, 4, 8, 11, 6, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {7, 10, 6, 7, 8, 10, 8, 9, 10, -1, -1, -1, -1, -1, -1, -1}, {0, 7, 3, 0, 10, 7, 0, 9, 10, 6, 7, 10, -1, -1, -1, -1}, {10, 6, 7, 1, 10, 7, 1, 7, 8, 1, 8, 0, -1, -1, -1, -1}, {10, 6, 7, 10, 7, 1, 1, 7, 3, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 6, 1, 6, 8, 1, 8, 9, 8, 6, 7, -1, -1, -1, -1}, {2, 6, 9, 2, 9, 1, 6, 7, 9, 0, 9, 3, 7, 3, 9, -1}, {7, 8, 0, 7, 0, 6, 6, 0, 2, -1, -1, -1, -1, -1, -1, -1}, {7, 3, 2, 6, 7, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {2, 3, 11, 10, 6, 8, 10, 8, 9, 8, 6, 7, -1, -1, -1, -1}, {2, 0, 7, 2, 7, 11, 0, 9, 7, 6, 7, 10, 9, 10, 7, -1}, {1, 8, 0, 1, 7, 8, 1, 10, 7, 6, 7, 10, 2, 3, 11, -1}, {11, 2, 1, 11, 1, 7, 10, 6, 1, 6, 7, 1, -1, -1, -1, -1}, {8, 9, 6, 8, 6, 7, 9, 1, 6, 11, 6, 3, 1, 3, 6, -1}, {0, 9, 1, 11, 6, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {7, 8, 0, 7, 0, 6, 3, 11, 0, 11, 6, 0, -1, -1, -1, -1}, {7, 11, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {7, 6, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {3, 0, 8, 11, 7, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 1, 9, 11, 7, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {8, 1, 9, 8, 3, 1, 11, 7, 6, -1, -1, -1, -1, -1, -1, -1}, {10, 1, 2, 6, 11, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 10, 3, 0, 8, 6, 11, 7, -1, -1, -1, -1, -1, -1, -1}, {2, 9, 0, 2, 10, 9, 6, 11, 7, -1, -1, -1, -1, -1, -1, -1}, {6, 11, 7, 2, 10, 3, 10, 8, 3, 10, 9, 8, -1, -1, -1, -1}, {7, 2, 3, 6, 2, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {7, 0, 8, 7, 6, 0, 6, 2, 0, -1, -1, -1, -1, -1, -1, -1}, {2, 7, 6, 2, 3, 7, 0, 1, 9, -1, -1, -1, -1, -1, -1, -1}, {1, 6, 2, 1, 8, 6, 1, 9, 8, 8, 7, 6, -1, -1, -1, -1}, {10, 7, 6, 10, 1, 7, 1, 3, 7, -1, -1, -1, -1, -1, -1, -1}, {10, 7, 6, 1, 7, 10, 1, 8, 7, 1, 0, 8, -1, -1, -1, -1}, {0, 3, 7, 0, 7, 10, 0, 10, 9, 6, 10, 7, -1, -1, -1, -1}, {7, 6, 10, 7, 10, 8, 8, 10, 9, -1, -1, -1, -1, -1, -1, -1}, {6, 8, 4, 11, 8, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {3, 6, 11, 3, 0, 6, 0, 4, 6, -1, -1, -1, -1, -1, -1, -1}, {8, 6, 11, 8, 4, 6, 9, 0, 1, -1, -1, -1, -1, -1, -1, -1}, {9, 4, 6, 9, 6, 3, 9, 3, 1, 11, 3, 6, -1, -1, -1, -1}, {6, 8, 4, 6, 11, 8, 2, 10, 1, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 10, 3, 0, 11, 0, 6, 11, 0, 4, 6, -1, -1, -1, -1}, {4, 11, 8, 4, 6, 11, 0, 2, 9, 2, 10, 9, -1, -1, -1, -1}, {10, 9, 3, 10, 3, 2, 9, 4, 3, 11, 3, 6, 4, 6, 3, -1}, {8, 2, 3, 8, 4, 2, 4, 6, 2, -1, -1, -1, -1, -1, -1, -1}, {0, 4, 2, 4, 6, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 9, 0, 2, 3, 4, 2, 4, 6, 4, 3, 8, -1, -1, -1, -1}, {1, 9, 4, 1, 4, 2, 2, 4, 6, -1, -1, -1, -1, -1, -1, -1}, {8, 1, 3, 8, 6, 1, 8, 4, 6, 6, 10, 1, -1, -1, -1, -1}, {10, 1, 0, 10, 0, 6, 6, 0, 4, -1, -1, -1, -1, -1, -1, -1}, {4, 6, 3, 4, 3, 8, 6, 10, 3, 0, 3, 9, 10, 9, 3, -1}, {10, 9, 4, 6, 10, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 9, 5, 7, 6, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 3, 4, 9, 5, 11, 7, 6, -1, -1, -1, -1, -1, -1, -1}, {5, 0, 1, 5, 4, 0, 7, 6, 11, -1, -1, -1, -1, -1, -1, -1}, {11, 7, 6, 8, 3, 4, 3, 5, 4, 3, 1, 5, -1, -1, -1, -1}, {9, 5, 4, 10, 1, 2, 7, 6, 11, -1, -1, -1, -1, -1, -1, -1}, {6, 11, 7, 1, 2, 10, 0, 8, 3, 4, 9, 5, -1, -1, -1, -1}, {7, 6, 11, 5, 4, 10, 4, 2, 10, 4, 0, 2, -1, -1, -1, -1}, {3, 4, 8, 3, 5, 4, 3, 2, 5, 10, 5, 2, 11, 7, 6, -1}, {7, 2, 3, 7, 6, 2, 5, 4, 9, -1, -1, -1, -1, -1, -1, -1}, {9, 5, 4, 0, 8, 6, 0, 6, 2, 6, 8, 7, -1, -1, -1, -1}, {3, 6, 2, 3, 7, 6, 1, 5, 0, 5, 4, 0, -1, -1, -1, -1}, {6, 2, 8, 6, 8, 7, 2, 1, 8, 4, 8, 5, 1, 5, 8, -1}, {9, 5, 4, 10, 1, 6, 1, 7, 6, 1, 3, 7, -1, -1, -1, -1}, {1, 6, 10, 1, 7, 6, 1, 0, 7, 8, 7, 0, 9, 5, 4, -1}, {4, 0, 10, 4, 10, 5, 0, 3, 10, 6, 10, 7, 3, 7, 10, -1}, {7, 6, 10, 7, 10, 8, 5, 4, 10, 4, 8, 10, -1, -1, -1, -1}, {6, 9, 5, 6, 11, 9, 11, 8, 9, -1, -1, -1, -1, -1, -1, -1}, {3, 6, 11, 0, 6, 3, 0, 5, 6, 0, 9, 5, -1, -1, -1, -1}, {0, 11, 8, 0, 5, 11, 0, 1, 5, 5, 6, 11, -1, -1, -1, -1}, {6, 11, 3, 6, 3, 5, 5, 3, 1, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 10, 9, 5, 11, 9, 11, 8, 11, 5, 6, -1, -1, -1, -1}, {0, 11, 3, 0, 6, 11, 0, 9, 6, 5, 6, 9, 1, 2, 10, -1}, {11, 8, 5, 11, 5, 6, 8, 0, 5, 10, 5, 2, 0, 2, 5, -1}, {6, 11, 3, 6, 3, 5, 2, 10, 3, 10, 5, 3, -1, -1, -1, -1}, {5, 8, 9, 5, 2, 8, 5, 6, 2, 3, 8, 2, -1, -1, -1, -1}, {9, 5, 6, 9, 6, 0, 0, 6, 2, -1, -1, -1, -1, -1, -1, -1}, {1, 5, 8, 1, 8, 0, 5, 6, 8, 3, 8, 2, 6, 2, 8, -1}, {1, 5, 6, 2, 1, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 3, 6, 1, 6, 10, 3, 8, 6, 5, 6, 9, 8, 9, 6, -1}, {10, 1, 0, 10, 0, 6, 9, 5, 0, 5, 6, 0, -1, -1, -1, -1}, {0, 3, 8, 5, 6, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {10, 5, 6, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {11, 5, 10, 7, 5, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {11, 5, 10, 11, 7, 5, 8, 3, 0, -1, -1, -1, -1, -1, -1, -1}, {5, 11, 7, 5, 10, 11, 1, 9, 0, -1, -1, -1, -1, -1, -1, -1}, {10, 7, 5, 10, 11, 7, 9, 8, 1, 8, 3, 1, -1, -1, -1, -1}, {11, 1, 2, 11, 7, 1, 7, 5, 1, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 3, 1, 2, 7, 1, 7, 5, 7, 2, 11, -1, -1, -1, -1}, {9, 7, 5, 9, 2, 7, 9, 0, 2, 2, 11, 7, -1, -1, -1, -1}, {7, 5, 2, 7, 2, 11, 5, 9, 2, 3, 2, 8, 9, 8, 2, -1}, {2, 5, 10, 2, 3, 5, 3, 7, 5, -1, -1, -1, -1, -1, -1, -1}, {8, 2, 0, 8, 5, 2, 8, 7, 5, 10, 2, 5, -1, -1, -1, -1}, {9, 0, 1, 5, 10, 3, 5, 3, 7, 3, 10, 2, -1, -1, -1, -1}, {9, 8, 2, 9, 2, 1, 8, 7, 2, 10, 2, 5, 7, 5, 2, -1}, {1, 3, 5, 3, 7, 5, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 7, 0, 7, 1, 1, 7, 5, -1, -1, -1, -1, -1, -1, -1}, {9, 0, 3, 9, 3, 5, 5, 3, 7, -1, -1, -1, -1, -1, -1, -1}, {9, 8, 7, 5, 9, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {5, 8, 4, 5, 10, 8, 10, 11, 8, -1, -1, -1, -1, -1, -1, -1}, {5, 0, 4, 5, 11, 0, 5, 10, 11, 11, 3, 0, -1, -1, -1, -1}, {0, 1, 9, 8, 4, 10, 8, 10, 11, 10, 4, 5, -1, -1, -1, -1}, {10, 11, 4, 10, 4, 5, 11, 3, 4, 9, 4, 1, 3, 1, 4, -1}, {2, 5, 1, 2, 8, 5, 2, 11, 8, 4, 5, 8, -1, -1, -1, -1}, {0, 4, 11, 0, 11, 3, 4, 5, 11, 2, 11, 1, 5, 1, 11, -1}, {0, 2, 5, 0, 5, 9, 2, 11, 5, 4, 5, 8, 11, 8, 5, -1}, {9, 4, 5, 2, 11, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {2, 5, 10, 3, 5, 2, 3, 4, 5, 3, 8, 4, -1, -1, -1, -1}, {5, 10, 2, 5, 2, 4, 4, 2, 0, -1, -1, -1, -1, -1, -1, -1}, {3, 10, 2, 3, 5, 10, 3, 8, 5, 4, 5, 8, 0, 1, 9, -1}, {5, 10, 2, 5, 2, 4, 1, 9, 2, 9, 4, 2, -1, -1, -1, -1}, {8, 4, 5, 8, 5, 3, 3, 5, 1, -1, -1, -1, -1, -1, -1, -1}, {0, 4, 5, 1, 0, 5, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {8, 4, 5, 8, 5, 3, 9, 0, 5, 0, 3, 5, -1, -1, -1, -1}, {9, 4, 5, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 11, 7, 4, 9, 11, 9, 10, 11, -1, -1, -1, -1, -1, -1, -1}, {0, 8, 3, 4, 9, 7, 9, 11, 7, 9, 10, 11, -1, -1, -1, -1}, {1, 10, 11, 1, 11, 4, 1, 4, 0, 7, 4, 11, -1, -1, -1, -1}, {3, 1, 4, 3, 4, 8, 1, 10, 4, 7, 4, 11, 10, 11, 4, -1}, {4, 11, 7, 9, 11, 4, 9, 2, 11, 9, 1, 2, -1, -1, -1, -1}, {9, 7, 4, 9, 11, 7, 9, 1, 11, 2, 11, 1, 0, 8, 3, -1}, {11, 7, 4, 11, 4, 2, 2, 4, 0, -1, -1, -1, -1, -1, -1, -1}, {11, 7, 4, 11, 4, 2, 8, 3, 4, 3, 2, 4, -1, -1, -1, -1}, {2, 9, 10, 2, 7, 9, 2, 3, 7, 7, 4, 9, -1, -1, -1, -1}, {9, 10, 7, 9, 7, 4, 10, 2, 7, 8, 7, 0, 2, 0, 7, -1}, {3, 7, 10, 3, 10, 2, 7, 4, 10, 1, 10, 0, 4, 0, 10, -1}, {1, 10, 2, 8, 7, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 9, 1, 4, 1, 7, 7, 1, 3, -1, -1, -1, -1, -1, -1, -1}, {4, 9, 1, 4, 1, 7, 0, 8, 1, 8, 7, 1, -1, -1, -1, -1}, {4, 0, 3, 7, 4, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {4, 8, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {9, 10, 8, 10, 11, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {3, 0, 9, 3, 9, 11, 11, 9, 10, -1, -1, -1, -1, -1, -1, -1}, {0, 1, 10, 0, 10, 8, 8, 10, 11, -1, -1, -1, -1, -1, -1, -1}, {3, 1, 10, 11, 3, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 2, 11, 1, 11, 9, 9, 11, 8, -1, -1, -1, -1, -1, -1, -1}, {3, 0, 9, 3, 9, 11, 1, 2, 9, 2, 11, 9, -1, -1, -1, -1}, {0, 2, 11, 8, 0, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {3, 2, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {2, 3, 8, 2, 8, 10, 10, 8, 9, -1, -1, -1, -1, -1, -1, -1}, {9, 10, 2, 0, 9, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {2, 3, 8, 2, 8, 10, 0, 1, 8, 1, 10, 8, -1, -1, -1, -1}, {1, 10, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {1, 3, 8, 9, 1, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 9, 1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {0, 3, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}, {-1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1} }; /** List edge origin and direction for each edge index in [0-12). * * For each edge, gives the first vertices as 3 coordinates from the origin * of the cube and the direction of the edge as the 4th value. */ const unsigned int MCEdgeIndexToCoordOffsets[12][4] = { {0, 0, 0, 0}, {0, 0, 1, 1}, {0, 1, 0, 0}, {0, 0, 0, 1}, {1, 0, 0, 0}, {1, 0, 1, 1}, {1, 1, 0, 0}, {1, 0, 0, 1}, {0, 0, 0, 2}, {0, 0, 1, 2}, {0, 1, 1, 2}, {0, 1, 0, 2} }; silx-0.6.1/silx/math/histogramnd_c.pxd0000644023630100076410000003550113202530432020405 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "01/02/2016" cimport numpy cdef extern from "histogramnd_c.h": ctypedef enum histo_opt_type: HISTO_NONE HISTO_WEIGHT_MIN HISTO_WEIGHT_MAX HISTO_LAST_BIN_CLOSED ctypedef enum histo_rc_t: HISTO_OK HISTO_ERR_ALLOC # ===================== # double sample, double cumul # ===================== int histogramnd_double_double_double(double *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max) nogil int histogramnd_double_float_double(double *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max) nogil int histogramnd_double_int32_t_double(double *i_sample, numpy.int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, numpy.int32_t i_weight_min, numpy.int32_t i_weight_max) nogil # ===================== # float sample, double cumul # ===================== int histogramnd_float_double_double(float *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max) nogil int histogramnd_float_float_double(float *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max) nogil int histogramnd_float_int32_t_double(float *i_sample, numpy.int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, numpy.int32_t i_weight_min, numpy.int32_t i_weight_max) nogil # ===================== # numpy.int32_t sample, double cumul # ===================== int histogramnd_int32_t_double_double(numpy.int32_t *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max) nogil int histogramnd_int32_t_float_double(numpy.int32_t *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max) nogil int histogramnd_int32_t_int32_t_double(numpy.int32_t *i_sample, numpy.int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, double *o_cumul, double * bin_edges, int i_opt_flags, numpy.int32_t i_weight_min, numpy.int32_t i_weight_max) nogil # ===================== # double sample, float cumul # ===================== int histogramnd_double_double_float(double *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max) nogil int histogramnd_double_float_float(double *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max) nogil int histogramnd_double_int32_t_float(double *i_sample, numpy.int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, numpy.int32_t i_weight_min, numpy.int32_t i_weight_max) nogil # ===================== # float sample, float cumul # ===================== int histogramnd_float_double_float(float *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max) nogil int histogramnd_float_float_float(float *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max) nogil int histogramnd_float_int32_t_float(float *i_sample, numpy.int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, numpy.int32_t i_weight_min, numpy.int32_t i_weight_max) nogil # ===================== # numpy.int32_t sample, float cumul # ===================== int histogramnd_int32_t_double_float(numpy.int32_t *i_sample, double *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, double i_weight_min, double i_weight_max) nogil int histogramnd_int32_t_float_float(numpy.int32_t *i_sample, float *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, float i_weight_min, float i_weight_max) nogil int histogramnd_int32_t_int32_t_float(numpy.int32_t *i_sample, numpy.int32_t *i_weigths, int i_n_dim, int i_n_elem, double *i_bin_ranges, int *i_n_bin, numpy.uint32_t *o_histo, float *o_cumul, double * bin_edges, int i_opt_flags, numpy.int32_t i_weight_min, numpy.int32_t i_weight_max) nogil silx-0.6.1/silx/math/chistogramnd_lut.pyx0000644023630100076410000003537413202530432021167 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "15/05/2016" cimport numpy as np # noqa cimport cython import numpy as np ctypedef fused sample_t: np.float64_t np.float32_t np.int32_t np.int64_t ctypedef fused cumul_t: np.float64_t np.float32_t np.int32_t np.int64_t ctypedef fused weights_t: np.float64_t np.float32_t np.int32_t np.int64_t ctypedef fused lut_t: np.int64_t np.int32_t np.int16_t def histogramnd_get_lut(sample, histo_range, n_bins, last_bin_closed=False): """TBD :param sample: The data to be histogrammed. Its shape must be either (N,) if it contains one dimensional coordinates, or an (N, D) array where the rows are the coordinates of points in a D dimensional space. The following dtypes are supported : :class:`numpy.float64`, :class:`numpy.float32`, :class:`numpy.int32`. :type sample: :class:`numpy.array` :param histo_range: A (N, 2) array containing the histogram range along each dimension, where N is the sample's number of dimensions. :type histo_range: array_like :param n_bins: The number of bins : * a scalar (same number of bins for all dimensions) * a D elements array (number of bins for each dimensions) :type n_bins: scalar or array_like :param last_bin_closed: By default the last bin is half open (i.e.: [x,y) ; x included, y excluded), like all the other bins. Set this parameter to true if you want the LAST bin to be closed. :type last_bin_closed: *optional*, :class:`python.boolean` :return: The indices for each sample and the histogram (bin counts). :rtype: tuple : (:class:`numpy.array`, :class:`numpy.array`) """ s_shape = sample.shape n_dims = 1 if len(s_shape) == 1 else s_shape[1] # just in case those arent numpy arrays # (this allows the user to provide native python lists, # => easier for testing) i_histo_range = histo_range histo_range = np.array(histo_range) err_histo_range = False if n_dims == 1: if histo_range.shape == (2,): pass elif histo_range.shape == (1, 2): histo_range.reshape(-1) else: err_histo_range = True elif n_dims != 1 and histo_range.shape != (n_dims, 2): err_histo_range = True if err_histo_range: raise ValueError(' error : expected {n_dims} sets of ' 'lower and upper bin edges, ' 'got the following instead : {histo_range}. ' '(provided contains ' '{n_dims}D values)' ''.format(histo_range=i_histo_range, n_dims=n_dims)) histo_range = np.double(histo_range) # checking n_bins size n_bins = np.array(n_bins, ndmin=1) if len(n_bins) == 1: n_bins = np.tile(n_bins, n_dims) elif n_bins.shape != (n_dims,): raise ValueError('n_bins must be either a scalar (same number ' 'of bins for all dimensions) or ' 'an array (number of bins for each ' 'dimension).') # checking if None is in n_bins, otherwise a rather cryptic # exception is thrown when calling np.zeros # also testing for negative/null values if np.any(np.equal(n_bins, None)) or np.any(n_bins <= 0): raise ValueError(' : only positive values allowed.') sample_type = sample.dtype n_elem = sample.size // n_dims if n_bins.prod(dtype=np.uint64) < 2**15: lut_dtype = np.int16 elif n_bins.prod(dtype=np.uint64) < 2**31: lut_dtype = np.int32 else: lut_dtype = np.int64 # allocating the output arrays lut = np.zeros(n_elem, dtype=lut_dtype) histo = np.zeros(n_bins, dtype=np.uint32) dtype = sample.dtype.newbyteorder("N") sample_c = np.ascontiguousarray(sample.reshape((sample.size,)), dtype=dtype) histo_range_c = np.ascontiguousarray(histo_range.reshape((histo_range.size,)), dtype=histo_range.dtype.newbyteorder("N")) n_bins_c = np.ascontiguousarray(n_bins.reshape((n_bins.size,)), dtype=np.int32) lut_c = np.ascontiguousarray(lut.reshape((lut.size,))) histo_c = np.ascontiguousarray(histo.reshape((histo.size,)), dtype=histo.dtype.newbyteorder('N')) rc = 0 try: rc = _histogramnd_get_lut_fused(sample_c, n_dims, n_elem, histo_range_c, n_bins_c, lut_c, histo_c, last_bin_closed) except TypeError as ex: raise TypeError('Type not supported - sample : {0}' ''.format(sample_type)) if rc != 0: raise Exception('histogramnd returned an error : {0}' ''.format(rc)) edges = [] histo_range = histo_range.reshape(-1) for i_dim in range(n_dims): dim_edges = np.zeros(n_bins[i_dim] + 1) rng_min = histo_range[2 * i_dim] rng_max = histo_range[2 * i_dim + 1] dim_edges[:-1] = (rng_min + np.arange(n_bins[i_dim]) * ((rng_max - rng_min) / n_bins[i_dim])) dim_edges[-1] = rng_max edges.append(dim_edges) return lut, histo, tuple(edges) # ===================== # ===================== def histogramnd_from_lut(weights, histo_lut, histo=None, weighted_histo=None, shape=None, dtype=None, weight_min=None, weight_max=None): """ dtype ignored if weighted_histo provided """ if histo is None and weighted_histo is None: if shape is None: raise ValueError('At least one of the following parameters has to ' 'be provided : or or ' '') if shape is not None: if histo is not None and list(histo.shape) != list(shape): raise ValueError('The value does not match' 'the shape.') if(weighted_histo is not None and list(weighted_histo.shape) != list(shape)): raise ValueError('The value does not match' 'the shape.') else: if histo is not None: shape = histo.shape else: shape = weighted_histo.shape if histo is not None: if histo.dtype != np.uint32: raise ValueError('Provided array doesn\'t have ' 'the expected type ' ': should be {0} instead of {1}.' ''.format(np.uint32, histo.dtype)) if weighted_histo is not None: if histo.shape != weighted_histo.shape: raise ValueError('The shape does not match' 'the shape.') else: histo = np.zeros(shape, dtype=np.uint32) w_dtype = weights.dtype if dtype is None: if weighted_histo is None: dtype = w_dtype else: dtype = weighted_histo.dtype elif weighted_histo is not None: if weighted_histo.dtype != dtype: raise ValueError('Provided and \'s dtype' ' do not match.') dtype = weighted_histo.dtype if weighted_histo is None: weighted_histo = np.zeros(shape, dtype=dtype) if histo_lut.size != weights.size: raise ValueError('The LUT and weights arrays must have the same ' 'number of elements.') w_c = np.ascontiguousarray(weights.reshape((weights.size,)), dtype=weights.dtype.newbyteorder('N')) h_c = np.ascontiguousarray(histo.reshape((histo.size,)), dtype=histo.dtype.newbyteorder('N')) w_h_c = np.ascontiguousarray(weighted_histo.reshape((weighted_histo.size,)), dtype=weighted_histo.dtype.newbyteorder('N')) # noqa h_lut_c = np.ascontiguousarray(histo_lut.reshape((histo_lut.size,)), histo_lut.dtype.newbyteorder('N')) rc = 0 if weight_min is None: weight_min = 0 filt_min_weights = False else: filt_min_weights = True if weight_max is None: weight_max = 0 filt_max_weights = False else: filt_max_weights = True try: _histogramnd_from_lut_fused(w_c, h_lut_c, h_c, w_h_c, weights.size, filt_min_weights, w_dtype.type(weight_min), filt_max_weights, w_dtype.type(weight_max)) except TypeError as ex: print(ex) raise TypeError('Case not supported - weights:{0} ' 'and histo:{1}.' ''.format(weights.dtype, histo.dtype)) return histo, weighted_histo # ===================== # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) @cython.cdivision(True) def _histogramnd_from_lut_fused(weights_t[:] i_weights, lut_t[:] i_lut, np.uint32_t[:] o_histo, cumul_t[:] o_weighted_histo, int i_n_elems, bint i_filt_min_weights, weights_t i_weight_min, bint i_filt_max_weights, weights_t i_weight_max): with nogil: for i in range(i_n_elems): if (i_lut[i] >= 0): if i_filt_min_weights and i_weights[i] < i_weight_min: continue if i_filt_max_weights and i_weights[i] > i_weight_max: continue o_histo[i_lut[i]] += 1 o_weighted_histo[i_lut[i]] += i_weights[i] # noqa # ===================== # ===================== @cython.wraparound(False) @cython.boundscheck(False) @cython.initializedcheck(False) @cython.nonecheck(False) @cython.cdivision(True) def _histogramnd_get_lut_fused(sample_t[:] i_sample, int i_n_dims, int i_n_elems, double[:] i_histo_range, int[:] i_n_bins, lut_t[:] o_lut, np.uint32_t[:] o_histo, bint last_bin_closed): cdef: int i = 0 long elem_idx = 0 long max_idx = 0 long lut_idx = -1 # computed bin index (i_sample -> grid) long bin_idx = 0 sample_t elem_coord = 0 double[50] g_min double[50] g_max double[50] bins_range for i in range(i_n_dims): g_min[i] = i_histo_range[2*i] g_max[i] = i_histo_range[2*i+1] bins_range[i] = g_max[i] - g_min[i] elem_idx = 0 - i_n_dims max_idx = i_n_elems * i_n_dims - i_n_dims with nogil: while elem_idx < max_idx: elem_idx += i_n_dims lut_idx += 1 bin_idx = 0 for i in range(i_n_dims): elem_coord = i_sample[elem_idx+i] # ===================== # Element is rejected if any of the following is NOT true : # 1. coordinate is >= than the minimum value # 2. coordinate is <= than the maximum value # 3. coordinate==maximum value and last_bin_closed is True # ===================== if elem_coord < g_min[i]: bin_idx = -1 break # Here we make the assumption that most of the time # there will be more coordinates inside the grid interval # (one test) # than coordinates higher or equal to the max # (two tests) if elem_coord < g_max[i]: bin_idx = (bin_idx * i_n_bins[i] + # noqa (((elem_coord - g_min[i]) * i_n_bins[i]) / bins_range[i])) else: # if equal and the last bin is closed : # put it in the last bin # else : discard if last_bin_closed and elem_coord == g_max[i]: bin_idx = (bin_idx + 1) * i_n_bins[i] - 1 else: bin_idx = -1 break o_lut[lut_idx] = bin_idx if bin_idx >= 0: o_histo[bin_idx] += 1 return 0 silx-0.6.1/silx/math/setup.py0000644023630100076410000000617113202530432016562 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["D. Naudet"] __license__ = "MIT" __date__ = "27/03/2017" import os.path import numpy from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('math', parent_package, top_path) config.add_subpackage('test') config.add_subpackage('fit') config.add_subpackage('medianfilter') # ===================================== # histogramnd # ===================================== histo_src = [os.path.join('histogramnd', 'src', 'histogramnd_c.c'), 'chistogramnd.pyx'] histo_inc = [os.path.join('histogramnd', 'include'), numpy.get_include()] config.add_extension('chistogramnd', sources=histo_src, include_dirs=histo_inc, language='c') # ===================================== # histogramnd_lut # ===================================== config.add_extension('chistogramnd_lut', sources=['chistogramnd_lut.pyx'], include_dirs=histo_inc, language='c') # ===================================== # marching cubes # ===================================== mc_src = [os.path.join('marchingcubes', 'mc_lut.cpp'), 'marchingcubes.pyx'] config.add_extension('marchingcubes', sources=mc_src, include_dirs=['marchingcubes', numpy.get_include()], language='c++') # min/max config.add_extension('combo', sources=['combo.pyx'], include_dirs=['include'], language='c') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/third_party/0000755023630100076410000000000013202537043016450 5ustar knobelusers00000000000000silx-0.6.1/silx/third_party/_local/0000755023630100076410000000000013202537043017701 5ustar knobelusers00000000000000silx-0.6.1/silx/third_party/_local/six.py0000644023630100076410000007262213202530432021062 0ustar knobelusers00000000000000"""Utilities for writing code that runs on Python 2 and 3""" # Copyright (c) 2010-2015 Benjamin Peterson # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in all # copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. from __future__ import absolute_import import functools import itertools import operator import sys import types __author__ = "Benjamin Peterson " __version__ = "1.10.0" # Useful for very coarse version differentiation. PY2 = sys.version_info[0] == 2 PY3 = sys.version_info[0] == 3 PY34 = sys.version_info[0:2] >= (3, 4) if PY3: string_types = str, integer_types = int, class_types = type, text_type = str binary_type = bytes MAXSIZE = sys.maxsize else: string_types = basestring, integer_types = (int, long) class_types = (type, types.ClassType) text_type = unicode binary_type = str if sys.platform.startswith("java"): # Jython always uses 32 bits. MAXSIZE = int((1 << 31) - 1) else: # It's possible to have sizeof(long) != sizeof(Py_ssize_t). class X(object): def __len__(self): return 1 << 31 try: len(X()) except OverflowError: # 32-bit MAXSIZE = int((1 << 31) - 1) else: # 64-bit MAXSIZE = int((1 << 63) - 1) del X def _add_doc(func, doc): """Add documentation to a function.""" func.__doc__ = doc def _import_module(name): """Import module, returning the module after the last dot.""" __import__(name) return sys.modules[name] class _LazyDescr(object): def __init__(self, name): self.name = name def __get__(self, obj, tp): result = self._resolve() setattr(obj, self.name, result) # Invokes __set__. try: # This is a bit ugly, but it avoids running this again by # removing this descriptor. delattr(obj.__class__, self.name) except AttributeError: pass return result class MovedModule(_LazyDescr): def __init__(self, name, old, new=None): super(MovedModule, self).__init__(name) if PY3: if new is None: new = name self.mod = new else: self.mod = old def _resolve(self): return _import_module(self.mod) def __getattr__(self, attr): _module = self._resolve() value = getattr(_module, attr) setattr(self, attr, value) return value class _LazyModule(types.ModuleType): def __init__(self, name): super(_LazyModule, self).__init__(name) self.__doc__ = self.__class__.__doc__ def __dir__(self): attrs = ["__doc__", "__name__"] attrs += [attr.name for attr in self._moved_attributes] return attrs # Subclasses should override this _moved_attributes = [] class MovedAttribute(_LazyDescr): def __init__(self, name, old_mod, new_mod, old_attr=None, new_attr=None): super(MovedAttribute, self).__init__(name) if PY3: if new_mod is None: new_mod = name self.mod = new_mod if new_attr is None: if old_attr is None: new_attr = name else: new_attr = old_attr self.attr = new_attr else: self.mod = old_mod if old_attr is None: old_attr = name self.attr = old_attr def _resolve(self): module = _import_module(self.mod) return getattr(module, self.attr) class _SixMetaPathImporter(object): """ A meta path importer to import six.moves and its submodules. This class implements a PEP302 finder and loader. It should be compatible with Python 2.5 and all existing versions of Python3 """ def __init__(self, six_module_name): self.name = six_module_name self.known_modules = {} def _add_module(self, mod, *fullnames): for fullname in fullnames: self.known_modules[self.name + "." + fullname] = mod def _get_module(self, fullname): return self.known_modules[self.name + "." + fullname] def find_module(self, fullname, path=None): if fullname in self.known_modules: return self return None def __get_module(self, fullname): try: return self.known_modules[fullname] except KeyError: raise ImportError("This loader does not know module " + fullname) def load_module(self, fullname): try: # in case of a reload return sys.modules[fullname] except KeyError: pass mod = self.__get_module(fullname) if isinstance(mod, MovedModule): mod = mod._resolve() else: mod.__loader__ = self sys.modules[fullname] = mod return mod def is_package(self, fullname): """ Return true, if the named module is a package. We need this method to get correct spec objects with Python 3.4 (see PEP451) """ return hasattr(self.__get_module(fullname), "__path__") def get_code(self, fullname): """Return None Required, if is_package is implemented""" self.__get_module(fullname) # eventually raises ImportError return None get_source = get_code # same as get_code _importer = _SixMetaPathImporter(__name__) class _MovedItems(_LazyModule): """Lazy loading of moved objects""" __path__ = [] # mark as package _moved_attributes = [ MovedAttribute("cStringIO", "cStringIO", "io", "StringIO"), MovedAttribute("filter", "itertools", "builtins", "ifilter", "filter"), MovedAttribute("filterfalse", "itertools", "itertools", "ifilterfalse", "filterfalse"), MovedAttribute("input", "__builtin__", "builtins", "raw_input", "input"), MovedAttribute("intern", "__builtin__", "sys"), MovedAttribute("map", "itertools", "builtins", "imap", "map"), MovedAttribute("getcwd", "os", "os", "getcwdu", "getcwd"), MovedAttribute("getcwdb", "os", "os", "getcwd", "getcwdb"), MovedAttribute("range", "__builtin__", "builtins", "xrange", "range"), MovedAttribute("reload_module", "__builtin__", "importlib" if PY34 else "imp", "reload"), MovedAttribute("reduce", "__builtin__", "functools"), MovedAttribute("shlex_quote", "pipes", "shlex", "quote"), MovedAttribute("StringIO", "StringIO", "io"), MovedAttribute("UserDict", "UserDict", "collections"), MovedAttribute("UserList", "UserList", "collections"), MovedAttribute("UserString", "UserString", "collections"), MovedAttribute("xrange", "__builtin__", "builtins", "xrange", "range"), MovedAttribute("zip", "itertools", "builtins", "izip", "zip"), MovedAttribute("zip_longest", "itertools", "itertools", "izip_longest", "zip_longest"), MovedModule("builtins", "__builtin__"), MovedModule("configparser", "ConfigParser"), MovedModule("copyreg", "copy_reg"), MovedModule("dbm_gnu", "gdbm", "dbm.gnu"), MovedModule("_dummy_thread", "dummy_thread", "_dummy_thread"), MovedModule("http_cookiejar", "cookielib", "http.cookiejar"), MovedModule("http_cookies", "Cookie", "http.cookies"), MovedModule("html_entities", "htmlentitydefs", "html.entities"), MovedModule("html_parser", "HTMLParser", "html.parser"), MovedModule("http_client", "httplib", "http.client"), MovedModule("email_mime_multipart", "email.MIMEMultipart", "email.mime.multipart"), MovedModule("email_mime_nonmultipart", "email.MIMENonMultipart", "email.mime.nonmultipart"), MovedModule("email_mime_text", "email.MIMEText", "email.mime.text"), MovedModule("email_mime_base", "email.MIMEBase", "email.mime.base"), MovedModule("BaseHTTPServer", "BaseHTTPServer", "http.server"), MovedModule("CGIHTTPServer", "CGIHTTPServer", "http.server"), MovedModule("SimpleHTTPServer", "SimpleHTTPServer", "http.server"), MovedModule("cPickle", "cPickle", "pickle"), MovedModule("queue", "Queue"), MovedModule("reprlib", "repr"), MovedModule("socketserver", "SocketServer"), MovedModule("_thread", "thread", "_thread"), MovedModule("tkinter", "Tkinter"), MovedModule("tkinter_dialog", "Dialog", "tkinter.dialog"), MovedModule("tkinter_filedialog", "FileDialog", "tkinter.filedialog"), MovedModule("tkinter_scrolledtext", "ScrolledText", "tkinter.scrolledtext"), MovedModule("tkinter_simpledialog", "SimpleDialog", "tkinter.simpledialog"), MovedModule("tkinter_tix", "Tix", "tkinter.tix"), MovedModule("tkinter_ttk", "ttk", "tkinter.ttk"), MovedModule("tkinter_constants", "Tkconstants", "tkinter.constants"), MovedModule("tkinter_dnd", "Tkdnd", "tkinter.dnd"), MovedModule("tkinter_colorchooser", "tkColorChooser", "tkinter.colorchooser"), MovedModule("tkinter_commondialog", "tkCommonDialog", "tkinter.commondialog"), MovedModule("tkinter_tkfiledialog", "tkFileDialog", "tkinter.filedialog"), MovedModule("tkinter_font", "tkFont", "tkinter.font"), MovedModule("tkinter_messagebox", "tkMessageBox", "tkinter.messagebox"), MovedModule("tkinter_tksimpledialog", "tkSimpleDialog", "tkinter.simpledialog"), MovedModule("urllib_parse", __name__ + ".moves.urllib_parse", "urllib.parse"), MovedModule("urllib_error", __name__ + ".moves.urllib_error", "urllib.error"), MovedModule("urllib", __name__ + ".moves.urllib", __name__ + ".moves.urllib"), MovedModule("urllib_robotparser", "robotparser", "urllib.robotparser"), MovedModule("xmlrpc_client", "xmlrpclib", "xmlrpc.client"), MovedModule("xmlrpc_server", "SimpleXMLRPCServer", "xmlrpc.server"), ] # Add windows specific modules. if sys.platform == "win32": _moved_attributes += [ MovedModule("winreg", "_winreg"), ] for attr in _moved_attributes: setattr(_MovedItems, attr.name, attr) if isinstance(attr, MovedModule): _importer._add_module(attr, "moves." + attr.name) del attr _MovedItems._moved_attributes = _moved_attributes moves = _MovedItems(__name__ + ".moves") _importer._add_module(moves, "moves") class Module_six_moves_urllib_parse(_LazyModule): """Lazy loading of moved objects in six.moves.urllib_parse""" _urllib_parse_moved_attributes = [ MovedAttribute("ParseResult", "urlparse", "urllib.parse"), MovedAttribute("SplitResult", "urlparse", "urllib.parse"), MovedAttribute("parse_qs", "urlparse", "urllib.parse"), MovedAttribute("parse_qsl", "urlparse", "urllib.parse"), MovedAttribute("urldefrag", "urlparse", "urllib.parse"), MovedAttribute("urljoin", "urlparse", "urllib.parse"), MovedAttribute("urlparse", "urlparse", "urllib.parse"), MovedAttribute("urlsplit", "urlparse", "urllib.parse"), MovedAttribute("urlunparse", "urlparse", "urllib.parse"), MovedAttribute("urlunsplit", "urlparse", "urllib.parse"), MovedAttribute("quote", "urllib", "urllib.parse"), MovedAttribute("quote_plus", "urllib", "urllib.parse"), MovedAttribute("unquote", "urllib", "urllib.parse"), MovedAttribute("unquote_plus", "urllib", "urllib.parse"), MovedAttribute("urlencode", "urllib", "urllib.parse"), MovedAttribute("splitquery", "urllib", "urllib.parse"), MovedAttribute("splittag", "urllib", "urllib.parse"), MovedAttribute("splituser", "urllib", "urllib.parse"), MovedAttribute("uses_fragment", "urlparse", "urllib.parse"), MovedAttribute("uses_netloc", "urlparse", "urllib.parse"), MovedAttribute("uses_params", "urlparse", "urllib.parse"), MovedAttribute("uses_query", "urlparse", "urllib.parse"), MovedAttribute("uses_relative", "urlparse", "urllib.parse"), ] for attr in _urllib_parse_moved_attributes: setattr(Module_six_moves_urllib_parse, attr.name, attr) del attr Module_six_moves_urllib_parse._moved_attributes = _urllib_parse_moved_attributes _importer._add_module(Module_six_moves_urllib_parse(__name__ + ".moves.urllib_parse"), "moves.urllib_parse", "moves.urllib.parse") class Module_six_moves_urllib_error(_LazyModule): """Lazy loading of moved objects in six.moves.urllib_error""" _urllib_error_moved_attributes = [ MovedAttribute("URLError", "urllib2", "urllib.error"), MovedAttribute("HTTPError", "urllib2", "urllib.error"), MovedAttribute("ContentTooShortError", "urllib", "urllib.error"), ] for attr in _urllib_error_moved_attributes: setattr(Module_six_moves_urllib_error, attr.name, attr) del attr Module_six_moves_urllib_error._moved_attributes = _urllib_error_moved_attributes _importer._add_module(Module_six_moves_urllib_error(__name__ + ".moves.urllib.error"), "moves.urllib_error", "moves.urllib.error") class Module_six_moves_urllib_request(_LazyModule): """Lazy loading of moved objects in six.moves.urllib_request""" _urllib_request_moved_attributes = [ MovedAttribute("urlopen", "urllib2", "urllib.request"), MovedAttribute("install_opener", "urllib2", "urllib.request"), MovedAttribute("build_opener", "urllib2", "urllib.request"), MovedAttribute("pathname2url", "urllib", "urllib.request"), MovedAttribute("url2pathname", "urllib", "urllib.request"), MovedAttribute("getproxies", "urllib", "urllib.request"), MovedAttribute("Request", "urllib2", "urllib.request"), MovedAttribute("OpenerDirector", "urllib2", "urllib.request"), MovedAttribute("HTTPDefaultErrorHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPRedirectHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPCookieProcessor", "urllib2", "urllib.request"), MovedAttribute("ProxyHandler", "urllib2", "urllib.request"), MovedAttribute("BaseHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPPasswordMgr", "urllib2", "urllib.request"), MovedAttribute("HTTPPasswordMgrWithDefaultRealm", "urllib2", "urllib.request"), MovedAttribute("AbstractBasicAuthHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPBasicAuthHandler", "urllib2", "urllib.request"), MovedAttribute("ProxyBasicAuthHandler", "urllib2", "urllib.request"), MovedAttribute("AbstractDigestAuthHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPDigestAuthHandler", "urllib2", "urllib.request"), MovedAttribute("ProxyDigestAuthHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPSHandler", "urllib2", "urllib.request"), MovedAttribute("FileHandler", "urllib2", "urllib.request"), MovedAttribute("FTPHandler", "urllib2", "urllib.request"), MovedAttribute("CacheFTPHandler", "urllib2", "urllib.request"), MovedAttribute("UnknownHandler", "urllib2", "urllib.request"), MovedAttribute("HTTPErrorProcessor", "urllib2", "urllib.request"), MovedAttribute("urlretrieve", "urllib", "urllib.request"), MovedAttribute("urlcleanup", "urllib", "urllib.request"), MovedAttribute("URLopener", "urllib", "urllib.request"), MovedAttribute("FancyURLopener", "urllib", "urllib.request"), MovedAttribute("proxy_bypass", "urllib", "urllib.request"), ] for attr in _urllib_request_moved_attributes: setattr(Module_six_moves_urllib_request, attr.name, attr) del attr Module_six_moves_urllib_request._moved_attributes = _urllib_request_moved_attributes _importer._add_module(Module_six_moves_urllib_request(__name__ + ".moves.urllib.request"), "moves.urllib_request", "moves.urllib.request") class Module_six_moves_urllib_response(_LazyModule): """Lazy loading of moved objects in six.moves.urllib_response""" _urllib_response_moved_attributes = [ MovedAttribute("addbase", "urllib", "urllib.response"), MovedAttribute("addclosehook", "urllib", "urllib.response"), MovedAttribute("addinfo", "urllib", "urllib.response"), MovedAttribute("addinfourl", "urllib", "urllib.response"), ] for attr in _urllib_response_moved_attributes: setattr(Module_six_moves_urllib_response, attr.name, attr) del attr Module_six_moves_urllib_response._moved_attributes = _urllib_response_moved_attributes _importer._add_module(Module_six_moves_urllib_response(__name__ + ".moves.urllib.response"), "moves.urllib_response", "moves.urllib.response") class Module_six_moves_urllib_robotparser(_LazyModule): """Lazy loading of moved objects in six.moves.urllib_robotparser""" _urllib_robotparser_moved_attributes = [ MovedAttribute("RobotFileParser", "robotparser", "urllib.robotparser"), ] for attr in _urllib_robotparser_moved_attributes: setattr(Module_six_moves_urllib_robotparser, attr.name, attr) del attr Module_six_moves_urllib_robotparser._moved_attributes = _urllib_robotparser_moved_attributes _importer._add_module(Module_six_moves_urllib_robotparser(__name__ + ".moves.urllib.robotparser"), "moves.urllib_robotparser", "moves.urllib.robotparser") class Module_six_moves_urllib(types.ModuleType): """Create a six.moves.urllib namespace that resembles the Python 3 namespace""" __path__ = [] # mark as package parse = _importer._get_module("moves.urllib_parse") error = _importer._get_module("moves.urllib_error") request = _importer._get_module("moves.urllib_request") response = _importer._get_module("moves.urllib_response") robotparser = _importer._get_module("moves.urllib_robotparser") def __dir__(self): return ['parse', 'error', 'request', 'response', 'robotparser'] _importer._add_module(Module_six_moves_urllib(__name__ + ".moves.urllib"), "moves.urllib") def add_move(move): """Add an item to six.moves.""" setattr(_MovedItems, move.name, move) def remove_move(name): """Remove item from six.moves.""" try: delattr(_MovedItems, name) except AttributeError: try: del moves.__dict__[name] except KeyError: raise AttributeError("no such move, %r" % (name,)) if PY3: _meth_func = "__func__" _meth_self = "__self__" _func_closure = "__closure__" _func_code = "__code__" _func_defaults = "__defaults__" _func_globals = "__globals__" else: _meth_func = "im_func" _meth_self = "im_self" _func_closure = "func_closure" _func_code = "func_code" _func_defaults = "func_defaults" _func_globals = "func_globals" try: advance_iterator = next except NameError: def advance_iterator(it): return it.next() next = advance_iterator try: callable = callable except NameError: def callable(obj): return any("__call__" in klass.__dict__ for klass in type(obj).__mro__) if PY3: def get_unbound_function(unbound): return unbound create_bound_method = types.MethodType def create_unbound_method(func, cls): return func Iterator = object else: def get_unbound_function(unbound): return unbound.im_func def create_bound_method(func, obj): return types.MethodType(func, obj, obj.__class__) def create_unbound_method(func, cls): return types.MethodType(func, None, cls) class Iterator(object): def next(self): return type(self).__next__(self) callable = callable _add_doc(get_unbound_function, """Get the function out of a possibly unbound function""") get_method_function = operator.attrgetter(_meth_func) get_method_self = operator.attrgetter(_meth_self) get_function_closure = operator.attrgetter(_func_closure) get_function_code = operator.attrgetter(_func_code) get_function_defaults = operator.attrgetter(_func_defaults) get_function_globals = operator.attrgetter(_func_globals) if PY3: def iterkeys(d, **kw): return iter(d.keys(**kw)) def itervalues(d, **kw): return iter(d.values(**kw)) def iteritems(d, **kw): return iter(d.items(**kw)) def iterlists(d, **kw): return iter(d.lists(**kw)) viewkeys = operator.methodcaller("keys") viewvalues = operator.methodcaller("values") viewitems = operator.methodcaller("items") else: def iterkeys(d, **kw): return d.iterkeys(**kw) def itervalues(d, **kw): return d.itervalues(**kw) def iteritems(d, **kw): return d.iteritems(**kw) def iterlists(d, **kw): return d.iterlists(**kw) viewkeys = operator.methodcaller("viewkeys") viewvalues = operator.methodcaller("viewvalues") viewitems = operator.methodcaller("viewitems") _add_doc(iterkeys, "Return an iterator over the keys of a dictionary.") _add_doc(itervalues, "Return an iterator over the values of a dictionary.") _add_doc(iteritems, "Return an iterator over the (key, value) pairs of a dictionary.") _add_doc(iterlists, "Return an iterator over the (key, [values]) pairs of a dictionary.") if PY3: def b(s): return s.encode("latin-1") def u(s): return s unichr = chr import struct int2byte = struct.Struct(">B").pack del struct byte2int = operator.itemgetter(0) indexbytes = operator.getitem iterbytes = iter import io StringIO = io.StringIO BytesIO = io.BytesIO _assertCountEqual = "assertCountEqual" if sys.version_info[1] <= 1: _assertRaisesRegex = "assertRaisesRegexp" _assertRegex = "assertRegexpMatches" else: _assertRaisesRegex = "assertRaisesRegex" _assertRegex = "assertRegex" else: def b(s): return s # Workaround for standalone backslash def u(s): return unicode(s.replace(r'\\', r'\\\\'), "unicode_escape") unichr = unichr int2byte = chr def byte2int(bs): return ord(bs[0]) def indexbytes(buf, i): return ord(buf[i]) iterbytes = functools.partial(itertools.imap, ord) import StringIO StringIO = BytesIO = StringIO.StringIO _assertCountEqual = "assertItemsEqual" _assertRaisesRegex = "assertRaisesRegexp" _assertRegex = "assertRegexpMatches" _add_doc(b, """Byte literal""") _add_doc(u, """Text literal""") def assertCountEqual(self, *args, **kwargs): return getattr(self, _assertCountEqual)(*args, **kwargs) def assertRaisesRegex(self, *args, **kwargs): return getattr(self, _assertRaisesRegex)(*args, **kwargs) def assertRegex(self, *args, **kwargs): return getattr(self, _assertRegex)(*args, **kwargs) if PY3: exec_ = getattr(moves.builtins, "exec") def reraise(tp, value, tb=None): if value is None: value = tp() if value.__traceback__ is not tb: raise value.with_traceback(tb) raise value else: def exec_(_code_, _globs_=None, _locs_=None): """Execute code in a namespace.""" if _globs_ is None: frame = sys._getframe(1) _globs_ = frame.f_globals if _locs_ is None: _locs_ = frame.f_locals del frame elif _locs_ is None: _locs_ = _globs_ exec("""exec _code_ in _globs_, _locs_""") exec_("""def reraise(tp, value, tb=None): raise tp, value, tb """) if sys.version_info[:2] == (3, 2): exec_("""def raise_from(value, from_value): if from_value is None: raise value raise value from from_value """) elif sys.version_info[:2] > (3, 2): exec_("""def raise_from(value, from_value): raise value from from_value """) else: def raise_from(value, from_value): raise value print_ = getattr(moves.builtins, "print", None) if print_ is None: def print_(*args, **kwargs): """The new-style print function for Python 2.4 and 2.5.""" fp = kwargs.pop("file", sys.stdout) if fp is None: return def write(data): if not isinstance(data, basestring): data = str(data) # If the file has an encoding, encode unicode with it. if (isinstance(fp, file) and isinstance(data, unicode) and fp.encoding is not None): errors = getattr(fp, "errors", None) if errors is None: errors = "strict" data = data.encode(fp.encoding, errors) fp.write(data) want_unicode = False sep = kwargs.pop("sep", None) if sep is not None: if isinstance(sep, unicode): want_unicode = True elif not isinstance(sep, str): raise TypeError("sep must be None or a string") end = kwargs.pop("end", None) if end is not None: if isinstance(end, unicode): want_unicode = True elif not isinstance(end, str): raise TypeError("end must be None or a string") if kwargs: raise TypeError("invalid keyword arguments to print()") if not want_unicode: for arg in args: if isinstance(arg, unicode): want_unicode = True break if want_unicode: newline = unicode("\n") space = unicode(" ") else: newline = "\n" space = " " if sep is None: sep = space if end is None: end = newline for i, arg in enumerate(args): if i: write(sep) write(arg) write(end) if sys.version_info[:2] < (3, 3): _print = print_ def print_(*args, **kwargs): fp = kwargs.get("file", sys.stdout) flush = kwargs.pop("flush", False) _print(*args, **kwargs) if flush and fp is not None: fp.flush() _add_doc(reraise, """Reraise an exception.""") if sys.version_info[0:2] < (3, 4): def wraps(wrapped, assigned=functools.WRAPPER_ASSIGNMENTS, updated=functools.WRAPPER_UPDATES): def wrapper(f): f = functools.wraps(wrapped, assigned, updated)(f) f.__wrapped__ = wrapped return f return wrapper else: wraps = functools.wraps def with_metaclass(meta, *bases): """Create a base class with a metaclass.""" # This requires a bit of explanation: the basic idea is to make a dummy # metaclass for one level of class instantiation that replaces itself with # the actual metaclass. class metaclass(meta): def __new__(cls, name, this_bases, d): return meta(name, bases, d) return type.__new__(metaclass, 'temporary_class', (), {}) def add_metaclass(metaclass): """Class decorator for creating a class with a metaclass.""" def wrapper(cls): orig_vars = cls.__dict__.copy() slots = orig_vars.get('__slots__') if slots is not None: if isinstance(slots, str): slots = [slots] for slots_var in slots: orig_vars.pop(slots_var) orig_vars.pop('__dict__', None) orig_vars.pop('__weakref__', None) return metaclass(cls.__name__, cls.__bases__, orig_vars) return wrapper def python_2_unicode_compatible(klass): """ A decorator that defines __unicode__ and __str__ methods under Python 2. Under Python 3 it does nothing. To support Python 2 and 3 with a single code base, define a __str__ method returning text and apply this decorator to the class. """ if PY2: if '__str__' not in klass.__dict__: raise ValueError("@python_2_unicode_compatible cannot be applied " "to %s because it doesn't define __str__()." % klass.__name__) klass.__unicode__ = klass.__str__ klass.__str__ = lambda self: self.__unicode__().encode('utf-8') return klass # Complete the moves implementation. # This code is at the end of this module to speed up module loading. # Turn this module into a package. __path__ = [] # required for PEP 302 and PEP 451 __package__ = __name__ # see PEP 366 @ReservedAssignment if globals().get("__spec__") is not None: __spec__.submodule_search_locations = [] # PEP 451 @UndefinedVariable # Remove other six meta path importers, since they cause problems. This can # happen if six is removed from sys.modules and then reloaded. (Setuptools does # this for some reason.) if sys.meta_path: for i, importer in enumerate(sys.meta_path): # Here's some real nastiness: Another "instance" of the six module might # be floating around. Therefore, we can't use isinstance() to check for # the six meta path importer, since the other six instance will have # inserted an importer with different class. if (type(importer).__name__ == "_SixMetaPathImporter" and importer.name == __name__): del sys.meta_path[i] break del i, importer # Finally, add the importer to the meta path import hook. sys.meta_path.append(_importer) silx-0.6.1/silx/third_party/_local/enum.py0000644023630100076410000010013413202530432021211 0ustar knobelusers00000000000000# coding: utf-8 # enum34 is the new Python stdlib enum module available in Python 3.4 # backported for previous versions of Python from 2.4 to 3.3. # tested on 2.6, 2.7, and 3.3+ # # Downloaded from: https://pypi.python.org/pypi/enum34 # # Copyright (c) 2013, Ethan Furman. # All rights reserved. # # Redistribution and use in source and binary forms, with or without # modification, are permitted provided that the following conditions # are met: # # Redistributions of source code must retain the above # copyright notice, this list of conditions and the # following disclaimer. # # Redistributions in binary form must reproduce the above # copyright notice, this list of conditions and the following # disclaimer in the documentation and/or other materials # provided with the distribution. # # Neither the name Ethan Furman nor the names of any # contributors may be used to endorse or promote products # derived from this software without specific prior written # permission. # # THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" # AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE # IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE # ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE # LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR # CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF # SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS # INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN # CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) # ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE # POSSIBILITY OF SUCH DAMAGE. """Python Enumerations""" import sys as _sys __all__ = ['Enum', 'IntEnum', 'unique'] version = 1, 1, 6 pyver = float('%s.%s' % _sys.version_info[:2]) try: any except NameError: def any(iterable): for element in iterable: if element: return True return False try: from collections import OrderedDict except ImportError: OrderedDict = None try: basestring except NameError: # In Python 2 basestring is the ancestor of both str and unicode # in Python 3 it's just str, but was missing in 3.1 basestring = str try: unicode except NameError: # In Python 3 unicode no longer exists (it's just str) unicode = str class _RouteClassAttributeToGetattr(object): """Route attribute access on a class to __getattr__. This is a descriptor, used to define attributes that act differently when accessed through an instance and through a class. Instance access remains normal, but access to an attribute through a class will be routed to the class's __getattr__ method; this is done by raising AttributeError. """ def __init__(self, fget=None): self.fget = fget def __get__(self, instance, ownerclass=None): if instance is None: raise AttributeError() return self.fget(instance) def __set__(self, instance, value): raise AttributeError("can't set attribute") def __delete__(self, instance): raise AttributeError("can't delete attribute") def _is_descriptor(obj): """Returns True if obj is a descriptor, False otherwise.""" return ( hasattr(obj, '__get__') or hasattr(obj, '__set__') or hasattr(obj, '__delete__')) def _is_dunder(name): """Returns True if a __dunder__ name, False otherwise.""" return (name[:2] == name[-2:] == '__' and name[2:3] != '_' and name[-3:-2] != '_' and len(name) > 4) def _is_sunder(name): """Returns True if a _sunder_ name, False otherwise.""" return (name[0] == name[-1] == '_' and name[1:2] != '_' and name[-2:-1] != '_' and len(name) > 2) def _make_class_unpicklable(cls): """Make the given class un-picklable.""" def _break_on_call_reduce(self, protocol=None): raise TypeError('%r cannot be pickled' % self) cls.__reduce_ex__ = _break_on_call_reduce cls.__module__ = '' class _EnumDict(dict): """Track enum member order and ensure member names are not reused. EnumMeta will use the names found in self._member_names as the enumeration member names. """ def __init__(self): super(_EnumDict, self).__init__() self._member_names = [] def __setitem__(self, key, value): """Changes anything not dundered or not a descriptor. If a descriptor is added with the same name as an enum member, the name is removed from _member_names (this may leave a hole in the numerical sequence of values). If an enum member name is used twice, an error is raised; duplicate values are not checked for. Single underscore (sunder) names are reserved. Note: in 3.x __order__ is simply discarded as a not necessary piece leftover from 2.x """ if pyver >= 3.0 and key in ('_order_', '__order__'): return elif key == '__order__': key = '_order_' if _is_sunder(key): if key != '_order_': raise ValueError('_names_ are reserved for future Enum use') elif _is_dunder(key): pass elif key in self._member_names: # descriptor overwriting an enum? raise TypeError('Attempted to reuse key: %r' % key) elif not _is_descriptor(value): if key in self: # enum overwriting a descriptor? raise TypeError('Key already defined as: %r' % self[key]) self._member_names.append(key) super(_EnumDict, self).__setitem__(key, value) # Dummy value for Enum as EnumMeta explicity checks for it, but of course until # EnumMeta finishes running the first time the Enum class doesn't exist. This # is also why there are checks in EnumMeta like `if Enum is not None` Enum = None class EnumMeta(type): """Metaclass for Enum""" @classmethod def __prepare__(metacls, cls, bases): return _EnumDict() def __new__(metacls, cls, bases, classdict): # an Enum class is final once enumeration items have been defined; it # cannot be mixed with other types (int, float, etc.) if it has an # inherited __new__ unless a new __new__ is defined (or the resulting # class will fail). if type(classdict) is dict: original_dict = classdict classdict = _EnumDict() for k, v in original_dict.items(): classdict[k] = v member_type, first_enum = metacls._get_mixins_(bases) __new__, save_new, use_args = metacls._find_new_(classdict, member_type, first_enum) # save enum items into separate mapping so they don't get baked into # the new class members = dict((k, classdict[k]) for k in classdict._member_names) for name in classdict._member_names: del classdict[name] # py2 support for definition order _order_ = classdict.get('_order_') if _order_ is None: if pyver < 3.0: try: _order_ = [name for (name, value) in sorted(members.items(), key=lambda item: item[1])] except TypeError: _order_ = [name for name in sorted(members.keys())] else: _order_ = classdict._member_names else: del classdict['_order_'] if pyver < 3.0: _order_ = _order_.replace(',', ' ').split() aliases = [name for name in members if name not in _order_] _order_ += aliases # check for illegal enum names (any others?) invalid_names = set(members) & set(['mro']) if invalid_names: raise ValueError('Invalid enum member name(s): %s' % ( ', '.join(invalid_names), )) # save attributes from super classes so we know if we can take # the shortcut of storing members in the class dict base_attributes = set([a for b in bases for a in b.__dict__]) # create our new Enum type enum_class = super(EnumMeta, metacls).__new__(metacls, cls, bases, classdict) enum_class._member_names_ = [] # names in random order if OrderedDict is not None: enum_class._member_map_ = OrderedDict() else: enum_class._member_map_ = {} # name->value map enum_class._member_type_ = member_type # Reverse value->name map for hashable values. enum_class._value2member_map_ = {} # instantiate them, checking for duplicates as we go # we instantiate first instead of checking for duplicates first in case # a custom __new__ is doing something funky with the values -- such as # auto-numbering ;) if __new__ is None: __new__ = enum_class.__new__ for member_name in _order_: value = members[member_name] if not isinstance(value, tuple): args = (value, ) else: args = value if member_type is tuple: # special case for tuple enums args = (args, ) # wrap it one more time if not use_args or not args: enum_member = __new__(enum_class) if not hasattr(enum_member, '_value_'): enum_member._value_ = value else: enum_member = __new__(enum_class, *args) if not hasattr(enum_member, '_value_'): enum_member._value_ = member_type(*args) value = enum_member._value_ enum_member._name_ = member_name enum_member.__objclass__ = enum_class enum_member.__init__(*args) # If another member with the same value was already defined, the # new member becomes an alias to the existing one. for name, canonical_member in enum_class._member_map_.items(): if canonical_member.value == enum_member._value_: enum_member = canonical_member break else: # Aliases don't appear in member names (only in __members__). enum_class._member_names_.append(member_name) # performance boost for any member that would not shadow # a DynamicClassAttribute (aka _RouteClassAttributeToGetattr) if member_name not in base_attributes: setattr(enum_class, member_name, enum_member) # now add to _member_map_ enum_class._member_map_[member_name] = enum_member try: # This may fail if value is not hashable. We can't add the value # to the map, and by-value lookups for this value will be # linear. enum_class._value2member_map_[value] = enum_member except TypeError: pass # If a custom type is mixed into the Enum, and it does not know how # to pickle itself, pickle.dumps will succeed but pickle.loads will # fail. Rather than have the error show up later and possibly far # from the source, sabotage the pickle protocol for this class so # that pickle.dumps also fails. # # However, if the new class implements its own __reduce_ex__, do not # sabotage -- it's on them to make sure it works correctly. We use # __reduce_ex__ instead of any of the others as it is preferred by # pickle over __reduce__, and it handles all pickle protocols. unpicklable = False if '__reduce_ex__' not in classdict: if member_type is not object: methods = ('__getnewargs_ex__', '__getnewargs__', '__reduce_ex__', '__reduce__') if not any(m in member_type.__dict__ for m in methods): _make_class_unpicklable(enum_class) unpicklable = True # double check that repr and friends are not the mixin's or various # things break (such as pickle) for name in ('__repr__', '__str__', '__format__', '__reduce_ex__'): class_method = getattr(enum_class, name) obj_method = getattr(member_type, name, None) enum_method = getattr(first_enum, name, None) if name not in classdict and class_method is not enum_method: if name == '__reduce_ex__' and unpicklable: continue setattr(enum_class, name, enum_method) # method resolution and int's are not playing nice # Python's less than 2.6 use __cmp__ if pyver < 2.6: if issubclass(enum_class, int): setattr(enum_class, '__cmp__', getattr(int, '__cmp__')) elif pyver < 3.0: if issubclass(enum_class, int): for method in ( '__le__', '__lt__', '__gt__', '__ge__', '__eq__', '__ne__', '__hash__', ): setattr(enum_class, method, getattr(int, method)) # replace any other __new__ with our own (as long as Enum is not None, # anyway) -- again, this is to support pickle if Enum is not None: # if the user defined their own __new__, save it before it gets # clobbered in case they subclass later if save_new: setattr(enum_class, '__member_new__', enum_class.__dict__['__new__']) setattr(enum_class, '__new__', Enum.__dict__['__new__']) return enum_class def __bool__(cls): """ classes/types should always be True. """ return True def __call__(cls, value, names=None, module=None, type=None, start=1): """Either returns an existing member, or creates a new enum class. This method is used both when an enum class is given a value to match to an enumeration member (i.e. Color(3)) and for the functional API (i.e. Color = Enum('Color', names='red green blue')). When used for the functional API: `module`, if set, will be stored in the new class' __module__ attribute; `type`, if set, will be mixed in as the first base class. Note: if `module` is not set this routine will attempt to discover the calling module by walking the frame stack; if this is unsuccessful the resulting class will not be pickleable. """ if names is None: # simple value lookup return cls.__new__(cls, value) # otherwise, functional API: we're creating a new Enum type return cls._create_(value, names, module=module, type=type, start=start) def __contains__(cls, member): return isinstance(member, cls) and member.name in cls._member_map_ def __delattr__(cls, attr): # nicer error message when someone tries to delete an attribute # (see issue19025). if attr in cls._member_map_: raise AttributeError( "%s: cannot delete Enum member." % cls.__name__) super(EnumMeta, cls).__delattr__(attr) def __dir__(self): return (['__class__', '__doc__', '__members__', '__module__'] + self._member_names_) @property def __members__(cls): """Returns a mapping of member name->value. This mapping lists all enum members, including aliases. Note that this is a copy of the internal mapping. """ return cls._member_map_.copy() def __getattr__(cls, name): """Return the enum member matching `name` We use __getattr__ instead of descriptors or inserting into the enum class' __dict__ in order to support `name` and `value` being both properties for enum members (which live in the class' __dict__) and enum members themselves. """ if _is_dunder(name): raise AttributeError(name) try: return cls._member_map_[name] except KeyError: raise AttributeError(name) def __getitem__(cls, name): return cls._member_map_[name] def __iter__(cls): return (cls._member_map_[name] for name in cls._member_names_) def __reversed__(cls): return (cls._member_map_[name] for name in reversed(cls._member_names_)) def __len__(cls): return len(cls._member_names_) __nonzero__ = __bool__ def __repr__(cls): return "" % cls.__name__ def __setattr__(cls, name, value): """Block attempts to reassign Enum members. A simple assignment to the class namespace only changes one of the several possible ways to get an Enum member from the Enum class, resulting in an inconsistent Enumeration. """ member_map = cls.__dict__.get('_member_map_', {}) if name in member_map: raise AttributeError('Cannot reassign members.') super(EnumMeta, cls).__setattr__(name, value) def _create_(cls, class_name, names=None, module=None, type=None, start=1): """Convenience method to create a new Enum class. `names` can be: * A string containing member names, separated either with spaces or commas. Values are auto-numbered from 1. * An iterable of member names. Values are auto-numbered from 1. * An iterable of (member name, value) pairs. * A mapping of member name -> value. """ if pyver < 3.0: # if class_name is unicode, attempt a conversion to ASCII if isinstance(class_name, unicode): try: class_name = class_name.encode('ascii') except UnicodeEncodeError: raise TypeError('%r is not representable in ASCII' % class_name) metacls = cls.__class__ if type is None: bases = (cls, ) else: bases = (type, cls) classdict = metacls.__prepare__(class_name, bases) _order_ = [] # special processing needed for names? if isinstance(names, basestring): names = names.replace(',', ' ').split() if isinstance(names, (tuple, list)) and isinstance(names[0], basestring): names = [(e, i+start) for (i, e) in enumerate(names)] # Here, names is either an iterable of (name, value) or a mapping. item = None # in case names is empty for item in names: if isinstance(item, basestring): member_name, member_value = item, names[item] else: member_name, member_value = item classdict[member_name] = member_value _order_.append(member_name) # only set _order_ in classdict if name/value was not from a mapping if not isinstance(item, basestring): classdict['_order_'] = ' '.join(_order_) enum_class = metacls.__new__(metacls, class_name, bases, classdict) # TODO: replace the frame hack if a blessed way to know the calling # module is ever developed if module is None: try: module = _sys._getframe(2).f_globals['__name__'] except (AttributeError, ValueError): pass if module is None: _make_class_unpicklable(enum_class) else: enum_class.__module__ = module return enum_class @staticmethod def _get_mixins_(bases): """Returns the type for creating enum members, and the first inherited enum class. bases: the tuple of bases that was given to __new__ """ if not bases or Enum is None: return object, Enum # double check that we are not subclassing a class with existing # enumeration members; while we're at it, see if any other data # type has been mixed in so we can use the correct __new__ member_type = first_enum = None for base in bases: if (base is not Enum and issubclass(base, Enum) and base._member_names_): raise TypeError("Cannot extend enumerations") # base is now the last base in bases if not issubclass(base, Enum): raise TypeError("new enumerations must be created as " "`ClassName([mixin_type,] enum_type)`") # get correct mix-in type (either mix-in type of Enum subclass, or # first base if last base is Enum) if not issubclass(bases[0], Enum): member_type = bases[0] # first data type first_enum = bases[-1] # enum type else: for base in bases[0].__mro__: # most common: (IntEnum, int, Enum, object) # possible: (, , # , , # ) if issubclass(base, Enum): if first_enum is None: first_enum = base else: if member_type is None: member_type = base return member_type, first_enum if pyver < 3.0: @staticmethod def _find_new_(classdict, member_type, first_enum): """Returns the __new__ to be used for creating the enum members. classdict: the class dictionary given to __new__ member_type: the data type whose __new__ will be used by default first_enum: enumeration to check for an overriding __new__ """ # now find the correct __new__, checking to see of one was defined # by the user; also check earlier enum classes in case a __new__ was # saved as __member_new__ __new__ = classdict.get('__new__', None) if __new__: return None, True, True # __new__, save_new, use_args N__new__ = getattr(None, '__new__') O__new__ = getattr(object, '__new__') if Enum is None: E__new__ = N__new__ else: E__new__ = Enum.__dict__['__new__'] # check all possibles for __member_new__ before falling back to # __new__ for method in ('__member_new__', '__new__'): for possible in (member_type, first_enum): try: target = possible.__dict__[method] except (AttributeError, KeyError): target = getattr(possible, method, None) if target not in [ None, N__new__, O__new__, E__new__, ]: if method == '__member_new__': classdict['__new__'] = target return None, False, True if isinstance(target, staticmethod): target = target.__get__(member_type) __new__ = target break if __new__ is not None: break else: __new__ = object.__new__ # if a non-object.__new__ is used then whatever value/tuple was # assigned to the enum member name will be passed to __new__ and to the # new enum member's __init__ if __new__ is object.__new__: use_args = False else: use_args = True return __new__, False, use_args else: @staticmethod def _find_new_(classdict, member_type, first_enum): """Returns the __new__ to be used for creating the enum members. classdict: the class dictionary given to __new__ member_type: the data type whose __new__ will be used by default first_enum: enumeration to check for an overriding __new__ """ # now find the correct __new__, checking to see of one was defined # by the user; also check earlier enum classes in case a __new__ was # saved as __member_new__ __new__ = classdict.get('__new__', None) # should __new__ be saved as __member_new__ later? save_new = __new__ is not None if __new__ is None: # check all possibles for __member_new__ before falling back to # __new__ for method in ('__member_new__', '__new__'): for possible in (member_type, first_enum): target = getattr(possible, method, None) if target not in ( None, None.__new__, object.__new__, Enum.__new__, ): __new__ = target break if __new__ is not None: break else: __new__ = object.__new__ # if a non-object.__new__ is used then whatever value/tuple was # assigned to the enum member name will be passed to __new__ and to the # new enum member's __init__ if __new__ is object.__new__: use_args = False else: use_args = True return __new__, save_new, use_args ######################################################## # In order to support Python 2 and 3 with a single # codebase we have to create the Enum methods separately # and then use the `type(name, bases, dict)` method to # create the class. ######################################################## temp_enum_dict = {} temp_enum_dict['__doc__'] = "Generic enumeration.\n\n Derive from this class to define new enumerations.\n\n" def __new__(cls, value): # all enum instances are actually created during class construction # without calling this method; this method is called by the metaclass' # __call__ (i.e. Color(3) ), and by pickle if type(value) is cls: # For lookups like Color(Color.red) value = value.value #return value # by-value search for a matching enum member # see if it's in the reverse mapping (for hashable values) try: if value in cls._value2member_map_: return cls._value2member_map_[value] except TypeError: # not there, now do long search -- O(n) behavior for member in cls._member_map_.values(): if member.value == value: return member raise ValueError("%s is not a valid %s" % (value, cls.__name__)) temp_enum_dict['__new__'] = __new__ del __new__ def __repr__(self): return "<%s.%s: %r>" % ( self.__class__.__name__, self._name_, self._value_) temp_enum_dict['__repr__'] = __repr__ del __repr__ def __str__(self): return "%s.%s" % (self.__class__.__name__, self._name_) temp_enum_dict['__str__'] = __str__ del __str__ if pyver >= 3.0: def __dir__(self): added_behavior = [ m for cls in self.__class__.mro() for m in cls.__dict__ if m[0] != '_' and m not in self._member_map_ ] return (['__class__', '__doc__', '__module__', ] + added_behavior) temp_enum_dict['__dir__'] = __dir__ del __dir__ def __format__(self, format_spec): # mixed-in Enums should use the mixed-in type's __format__, otherwise # we can get strange results with the Enum name showing up instead of # the value # pure Enum branch if self._member_type_ is object: cls = str val = str(self) # mix-in branch else: cls = self._member_type_ val = self.value return cls.__format__(val, format_spec) temp_enum_dict['__format__'] = __format__ del __format__ #################################### # Python's less than 2.6 use __cmp__ if pyver < 2.6: def __cmp__(self, other): if type(other) is self.__class__: if self is other: return 0 return -1 return NotImplemented raise TypeError("unorderable types: %s() and %s()" % (self.__class__.__name__, other.__class__.__name__)) temp_enum_dict['__cmp__'] = __cmp__ del __cmp__ else: def __le__(self, other): raise TypeError("unorderable types: %s() <= %s()" % (self.__class__.__name__, other.__class__.__name__)) temp_enum_dict['__le__'] = __le__ del __le__ def __lt__(self, other): raise TypeError("unorderable types: %s() < %s()" % (self.__class__.__name__, other.__class__.__name__)) temp_enum_dict['__lt__'] = __lt__ del __lt__ def __ge__(self, other): raise TypeError("unorderable types: %s() >= %s()" % (self.__class__.__name__, other.__class__.__name__)) temp_enum_dict['__ge__'] = __ge__ del __ge__ def __gt__(self, other): raise TypeError("unorderable types: %s() > %s()" % (self.__class__.__name__, other.__class__.__name__)) temp_enum_dict['__gt__'] = __gt__ del __gt__ def __eq__(self, other): if type(other) is self.__class__: return self is other return NotImplemented temp_enum_dict['__eq__'] = __eq__ del __eq__ def __ne__(self, other): if type(other) is self.__class__: return self is not other return NotImplemented temp_enum_dict['__ne__'] = __ne__ del __ne__ def __hash__(self): return hash(self._name_) temp_enum_dict['__hash__'] = __hash__ del __hash__ def __reduce_ex__(self, proto): return self.__class__, (self._value_, ) temp_enum_dict['__reduce_ex__'] = __reduce_ex__ del __reduce_ex__ # _RouteClassAttributeToGetattr is used to provide access to the `name` # and `value` properties of enum members while keeping some measure of # protection from modification, while still allowing for an enumeration # to have members named `name` and `value`. This works because enumeration # members are not set directly on the enum class -- __getattr__ is # used to look them up. @_RouteClassAttributeToGetattr def name(self): return self._name_ temp_enum_dict['name'] = name del name @_RouteClassAttributeToGetattr def value(self): return self._value_ temp_enum_dict['value'] = value del value @classmethod def _convert(cls, name, module, filter, source=None): """ Create a new Enum subclass that replaces a collection of global constants """ # convert all constants from source (or module) that pass filter() to # a new Enum called name, and export the enum and its members back to # module; # also, replace the __reduce_ex__ method so unpickling works in # previous Python versions module_globals = vars(_sys.modules[module]) if source: source = vars(source) else: source = module_globals members = dict((name, value) for name, value in source.items() if filter(name)) cls = cls(name, members, module=module) cls.__reduce_ex__ = _reduce_ex_by_name module_globals.update(cls.__members__) module_globals[name] = cls return cls temp_enum_dict['_convert'] = _convert del _convert Enum = EnumMeta('Enum', (object, ), temp_enum_dict) del temp_enum_dict # Enum has now been created ########################### class IntEnum(int, Enum): """Enum where members are also (and must be) ints""" def _reduce_ex_by_name(self, proto): return self.name def unique(enumeration): """Class decorator that ensures only unique members exist in an enumeration.""" duplicates = [] for name, member in enumeration.__members__.items(): if name != member.name: duplicates.append((name, member.name)) if duplicates: duplicate_names = ', '.join( ["%s -> %s" % (alias, name) for (alias, name) in duplicates] ) raise ValueError('duplicate names found in %r: %s' % (enumeration, duplicate_names) ) return enumeration silx-0.6.1/silx/third_party/_local/__init__.py0000644023630100076410000000316413202530432022011 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """ Package containing external modules which can be available as it is as an external python library. They are stored here to reduce python library dependancies. This package can be removed if all dependancies are available in the target system as python libraries. """ __authors__ = ["Valentin Valls"] __license__ = "MIT" __date__ = "26/04/2017" silx-0.6.1/silx/third_party/TiffIO.py0000644023630100076410000014230013202530306020135 0ustar knobelusers00000000000000# /*########################################################################## # # The PyMca X-Ray Fluorescence Toolkit # # Copyright (c) 2004-2015 European Synchrotron Radiation Facility # # This file is part of the PyMca X-ray Fluorescence Toolkit developed at # the ESRF by the Software group. # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __author__ = "V.A. Sole - ESRF Data Analysis" __contact__ = "sole@esrf.fr" __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" import sys import os import struct import numpy DEBUG = 0 ALLOW_MULTIPLE_STRIPS = False TAG_ID = { 256:"NumberOfColumns", # S or L ImageWidth 257:"NumberOfRows", # S or L ImageHeight 258:"BitsPerSample", # S Number of bits per component 259:"Compression", # SHORT (1 - NoCompression, ... 262:"PhotometricInterpretation", # SHORT (0 - WhiteIsZero, 1 -BlackIsZero, 2 - RGB, 3 - Palette color 270:"ImageDescription", # ASCII 273:"StripOffsets", # S or L, for each strip, the byte offset of the strip 277:"SamplesPerPixel", # SHORT (>=3) only for RGB images 278:"RowsPerStrip", # S or L, number of rows in each back may be not for the last 279:"StripByteCounts", # S or L, The number of bytes in the strip AFTER any compression 305:"Software", # ASCII 306:"Date", # ASCII 320:"Colormap", # Colormap of Palette-color Images 339:"SampleFormat", # SHORT Interpretation of data in each pixel } #TILES ARE TO BE SUPPORTED TOO ... TAG_NUMBER_OF_COLUMNS = 256 TAG_NUMBER_OF_ROWS = 257 TAG_BITS_PER_SAMPLE = 258 TAG_PHOTOMETRIC_INTERPRETATION = 262 TAG_COMPRESSION = 259 TAG_IMAGE_DESCRIPTION = 270 TAG_STRIP_OFFSETS = 273 TAG_SAMPLES_PER_PIXEL = 277 TAG_ROWS_PER_STRIP = 278 TAG_STRIP_BYTE_COUNTS = 279 TAG_SOFTWARE = 305 TAG_DATE = 306 TAG_COLORMAP = 320 TAG_SAMPLE_FORMAT = 339 FIELD_TYPE = {1:('BYTE', "B"), 2:('ASCII', "s"), #string ending with binary zero 3:('SHORT', "H"), 4:('LONG', "I"), 5:('RATIONAL',"II"), 6:('SBYTE', "b"), 7:('UNDEFINED',"B"), 8:('SSHORT', "h"), 9:('SLONG', "i"), 10:('SRATIONAL',"ii"), 11:('FLOAT', "f"), 12:('DOUBLE', "d")} FIELD_TYPE_OUT = { 'B': 1, 's': 2, 'H': 3, 'I': 4, 'II': 5, 'b': 6, 'h': 8, 'i': 9, 'ii': 10, 'f': 11, 'd': 12} #sample formats (http://www.awaresystems.be/imaging/tiff/tiffflags/sampleformat.html) SAMPLE_FORMAT_UINT = 1 SAMPLE_FORMAT_INT = 2 SAMPLE_FORMAT_FLOAT = 3 #floating point SAMPLE_FORMAT_VOID = 4 #undefined data, usually assumed UINT SAMPLE_FORMAT_COMPLEXINT = 5 SAMPLE_FORMAT_COMPLEXIEEEFP = 6 class TiffIO(object): def __init__(self, filename, mode=None, cache_length=20, mono_output=False): if mode is None: mode = 'rb' if 'b' not in mode: mode = mode + 'b' if 'a' in mode.lower(): raise IOError("Mode %s makes no sense on TIFF files. Consider 'rb+'" % mode) if ('w' in mode): if '+' not in mode: mode += '+' if hasattr(filename, "seek") and\ hasattr(filename, "read"): fd = filename self._access = None else: #the b is needed for windows and python 3 fd = open(filename, mode) self._access = mode self._initInternalVariables(fd) self._maxImageCacheLength = cache_length self._forceMonoOutput = mono_output def _initInternalVariables(self, fd=None): if fd is None: fd = self.fd else: self.fd = fd # read the order fd.seek(0) order = fd.read(2).decode() if len(order): if order == "II": #intel, little endian fileOrder = "little" self._structChar = '<' elif order == "MM": #motorola, high endian fileOrder = "big" self._structChar = '>' else: raise IOError("File is not a Mar CCD file, nor a TIFF file") a = fd.read(2) fortyTwo = struct.unpack(self._structChar+"H",a)[0] if fortyTwo != 42: raise IOError("Invalid TIFF version %d" % fortyTwo) else: if DEBUG: print("VALID TIFF VERSION") if sys.byteorder != fileOrder: swap = True else: swap = False else: if sys.byteorder == "little": self._structChar = '<' else: self._structChar = '>' swap = False self._swap = swap self._IFD = [] self._imageDataCacheIndex = [] self._imageDataCache = [] self._imageInfoCacheIndex = [] self._imageInfoCache = [] self.getImageFileDirectories(fd) def __makeSureFileIsOpen(self): if not self.fd.closed: return if DEBUG: print("Reopening closed file") fileName = self.fd.name if self._access is None: #we do not own the file #open in read mode newFile = open(fileName,'rb') else: newFile = open(fileName, self._access) self.fd = newFile def __makeSureFileIsClosed(self): if self._access is None: #we do not own the file if DEBUG: print("Not closing not owned file") return if not self.fd.closed: self.fd.close() def close(self): return self.__makeSureFileIsClosed() def getNumberOfImages(self): #update for the case someone has done anything? self._updateIFD() return len(self._IFD) def _updateIFD(self): self.__makeSureFileIsOpen() self.getImageFileDirectories() self.__makeSureFileIsClosed() def getImageFileDirectories(self, fd=None): if fd is None: fd = self.fd else: self.fd = fd st = self._structChar fd.seek(4) self._IFD = [] nImages = 0 fmt = st + 'I' inStr = fd.read(struct.calcsize(fmt)) if not len(inStr): offsetToIFD = 0 else: offsetToIFD = struct.unpack(fmt, inStr)[0] if DEBUG: print("Offset to first IFD = %d" % offsetToIFD) while offsetToIFD != 0: self._IFD.append(offsetToIFD) nImages += 1 fd.seek(offsetToIFD) fmt = st + 'H' numberOfDirectoryEntries = struct.unpack(fmt,fd.read(struct.calcsize(fmt)))[0] if DEBUG: print("Number of directory entries = %d" % numberOfDirectoryEntries) fmt = st + 'I' fd.seek(offsetToIFD + 2 + 12 * numberOfDirectoryEntries) offsetToIFD = struct.unpack(fmt,fd.read(struct.calcsize(fmt)))[0] if DEBUG: print("Next Offset to IFD = %d" % offsetToIFD) #offsetToIFD = 0 if DEBUG: print("Number of images found = %d" % nImages) return nImages def _parseImageFileDirectory(self, nImage): offsetToIFD = self._IFD[nImage] st = self._structChar fd = self.fd fd.seek(offsetToIFD) fmt = st + 'H' numberOfDirectoryEntries = struct.unpack(fmt,fd.read(struct.calcsize(fmt)))[0] if DEBUG: print("Number of directory entries = %d" % numberOfDirectoryEntries) fmt = st + 'HHI4s' tagIDList = [] fieldTypeList = [] nValuesList = [] valueOffsetList = [] for i in range(numberOfDirectoryEntries): tagID, fieldType, nValues, valueOffset = struct.unpack(fmt, fd.read(12)) tagIDList.append(tagID) fieldTypeList.append(fieldType) nValuesList.append(nValues) if nValues == 1: ftype, vfmt = FIELD_TYPE[fieldType] if ftype not in ['ASCII', 'RATIONAL', 'SRATIONAL']: vfmt = st + vfmt actualValue = struct.unpack(vfmt, valueOffset[0: struct.calcsize(vfmt)])[0] valueOffsetList.append(actualValue) else: valueOffsetList.append(valueOffset) elif (nValues < 5) and (fieldType == 2): ftype, vfmt = FIELD_TYPE[fieldType] vfmt = st + "%d%s" % (nValues,vfmt) actualValue = struct.unpack(vfmt, valueOffset[0: struct.calcsize(vfmt)])[0] valueOffsetList.append(actualValue) else: valueOffsetList.append(valueOffset) if DEBUG: if tagID in TAG_ID: print("tagID = %s" % TAG_ID[tagID]) else: print("tagID = %d" % tagID) print("fieldType = %s" % FIELD_TYPE[fieldType][0]) print("nValues = %d" % nValues) #if nValues == 1: # print("valueOffset = %s" % valueOffset) return tagIDList, fieldTypeList, nValuesList, valueOffsetList def _readIFDEntry(self, tag, tagIDList, fieldTypeList, nValuesList, valueOffsetList): fd = self.fd st = self._structChar idx = tagIDList.index(tag) nValues = nValuesList[idx] output = [] ftype, vfmt = FIELD_TYPE[fieldTypeList[idx]] vfmt = st + "%d%s" % (nValues, vfmt) requestedBytes = struct.calcsize(vfmt) if nValues == 1: output.append(valueOffsetList[idx]) elif requestedBytes < 5: output.append(valueOffsetList[idx]) else: fd.seek(struct.unpack(st+"I", valueOffsetList[idx])[0]) output = struct.unpack(vfmt, fd.read(requestedBytes)) return output def getData(self, nImage, **kw): if nImage >= len(self._IFD): #update prior to raise an index error error self._updateIFD() return self._readImage(nImage, **kw) def getImage(self, nImage): return self.getData(nImage) def getInfo(self, nImage, **kw): if nImage >= len(self._IFD): #update prior to raise an index error error self._updateIFD() # current = self._IFD[nImage] return self._readInfo(nImage) def _readInfo(self, nImage, close=True): if nImage in self._imageInfoCacheIndex: if DEBUG: print("Reading info from cache") return self._imageInfoCache[self._imageInfoCacheIndex.index(nImage)] #read the header self.__makeSureFileIsOpen() tagIDList, fieldTypeList, nValuesList, valueOffsetList = self._parseImageFileDirectory(nImage) #rows and columns nColumns = valueOffsetList[tagIDList.index(TAG_NUMBER_OF_COLUMNS)] nRows = valueOffsetList[tagIDList.index(TAG_NUMBER_OF_ROWS)] #bits per sample idx = tagIDList.index(TAG_BITS_PER_SAMPLE) nBits = valueOffsetList[idx] if nValuesList[idx] != 1: #this happens with RGB and friends, nBits is not a single value nBits = self._readIFDEntry(TAG_BITS_PER_SAMPLE, tagIDList, fieldTypeList, nValuesList, valueOffsetList) if TAG_COLORMAP in tagIDList: idx = tagIDList.index(TAG_COLORMAP) tmpColormap = self._readIFDEntry(TAG_COLORMAP, tagIDList, fieldTypeList, nValuesList, valueOffsetList) if max(tmpColormap) > 255: tmpColormap = numpy.array(tmpColormap, dtype=numpy.uint16) tmpColormap = (tmpColormap/256.).astype(numpy.uint8) else: tmpColormap = numpy.array(tmpColormap, dtype=numpy.uint8) tmpColormap.shape = 3, -1 colormap = numpy.zeros((tmpColormap.shape[-1], 3), tmpColormap.dtype) colormap[:,:] = tmpColormap.T tmpColormap = None else: colormap = None #sample format if TAG_SAMPLE_FORMAT in tagIDList: sampleFormat = valueOffsetList[tagIDList.index(TAG_SAMPLE_FORMAT)] else: #set to unknown sampleFormat = SAMPLE_FORMAT_VOID # compression compression = False compression_type = 1 if TAG_COMPRESSION in tagIDList: compression_type = valueOffsetList[tagIDList.index(TAG_COMPRESSION)] if compression_type == 1: compression = False else: compression = True #photometric interpretation interpretation = 1 if TAG_PHOTOMETRIC_INTERPRETATION in tagIDList: interpretation = valueOffsetList[tagIDList.index(TAG_PHOTOMETRIC_INTERPRETATION)] else: print("WARNING: Non standard TIFF. Photometric interpretation TAG missing") helpString = "" if sys.version > '2.6': helpString = eval('b""') if TAG_IMAGE_DESCRIPTION in tagIDList: imageDescription = self._readIFDEntry(TAG_IMAGE_DESCRIPTION, tagIDList, fieldTypeList, nValuesList, valueOffsetList) if type(imageDescription) in [type([1]), type((1,))]: imageDescription =helpString.join(imageDescription) else: imageDescription = "%d/%d" % (nImage+1, len(self._IFD)) if sys.version < '3.0': defaultSoftware = "Unknown Software" else: defaultSoftware = bytes("Unknown Software", encoding='utf-8') if TAG_SOFTWARE in tagIDList: software = self._readIFDEntry(TAG_SOFTWARE, tagIDList, fieldTypeList, nValuesList, valueOffsetList) if type(software) in [type([1]), type((1,))]: software =helpString.join(software) else: software = defaultSoftware if software == defaultSoftware: try: if sys.version < '3.0': if imageDescription.upper().startswith("IMAGEJ"): software = imageDescription.split("=")[0] else: tmpString = imageDescription.decode() if tmpString.upper().startswith("IMAGEJ"): software = bytes(tmpString.split("=")[0], encoding='utf-8') except: pass if TAG_DATE in tagIDList: date = self._readIFDEntry(TAG_DATE, tagIDList, fieldTypeList, nValuesList, valueOffsetList) if type(date) in [type([1]), type((1,))]: date =helpString.join(date) else: date = "Unknown Date" stripOffsets = self._readIFDEntry(TAG_STRIP_OFFSETS, tagIDList, fieldTypeList, nValuesList, valueOffsetList) if TAG_ROWS_PER_STRIP in tagIDList: rowsPerStrip = self._readIFDEntry(TAG_ROWS_PER_STRIP, tagIDList, fieldTypeList, nValuesList, valueOffsetList)[0] else: rowsPerStrip = nRows print("WARNING: Non standard TIFF. Rows per strip TAG missing") if TAG_STRIP_BYTE_COUNTS in tagIDList: stripByteCounts = self._readIFDEntry(TAG_STRIP_BYTE_COUNTS, tagIDList, fieldTypeList, nValuesList, valueOffsetList) else: print("WARNING: Non standard TIFF. Strip byte counts TAG missing") if hasattr(nBits, 'index'): expectedSum = 0 for n in nBits: expectedSum += int(nRows * nColumns * n / 8) else: expectedSum = int(nRows * nColumns * nBits / 8) stripByteCounts = [expectedSum] if close: self.__makeSureFileIsClosed() if self._forceMonoOutput and (interpretation > 1): #color image but asked monochrome output nBits = 32 colormap = None sampleFormat = SAMPLE_FORMAT_FLOAT interpretation = 1 #we cannot rely on any cache in this case useInfoCache = False if DEBUG: print("FORCED MONO") else: useInfoCache = True info = {} info["nRows"] = nRows info["nColumns"] = nColumns info["nBits"] = nBits info["compression"] = compression info["compression_type"] = compression_type info["imageDescription"] = imageDescription info["stripOffsets"] = stripOffsets #This contains the file offsets to the data positions info["rowsPerStrip"] = rowsPerStrip info["stripByteCounts"] = stripByteCounts #bytes in strip since I do not support compression info["software"] = software info["date"] = date info["colormap"] = colormap info["sampleFormat"] = sampleFormat info["photometricInterpretation"] = interpretation infoDict = {} if sys.version < '3.0': testString = 'PyMca' else: testString = eval('b"PyMca"') if software.startswith(testString): #str to make sure python 2.x sees it as string and not unicode if sys.version < '3.0': descriptionString = imageDescription else: descriptionString = str(imageDescription.decode()) #interpret the image description in terms of supplied #information at writing time items = descriptionString.split('=') for i in range(int(len(items)/2)): key = "%s" % items[i*2] #get rid of the \n at the end of the value value = "%s" % items[i*2+1][:-1] infoDict[key] = value info['info'] = infoDict if (self._maxImageCacheLength > 0) and useInfoCache: self._imageInfoCacheIndex.insert(0,nImage) self._imageInfoCache.insert(0, info) if len(self._imageInfoCacheIndex) > self._maxImageCacheLength: self._imageInfoCacheIndex = self._imageInfoCacheIndex[:self._maxImageCacheLength] self._imageInfoCache = self._imageInfoCache[:self._maxImageCacheLength] return info def _readImage(self, nImage, **kw): if DEBUG: print("Reading image %d" % nImage) if 'close' in kw: close = kw['close'] else: close = True rowMin = kw.get('rowMin', None) rowMax = kw.get('rowMax', None) if nImage in self._imageDataCacheIndex: if DEBUG: print("Reading image data from cache") return self._imageDataCache[self._imageDataCacheIndex.index(nImage)] self.__makeSureFileIsOpen() if self._forceMonoOutput: oldMono = True else: oldMono = False try: self._forceMonoOutput = False info = self._readInfo(nImage, close=False) self._forceMonoOutput = oldMono except: self._forceMonoOutput = oldMono raise compression = info['compression'] compression_type = info['compression_type'] if compression: if compression_type != 32773: raise IOError("Compressed TIFF images not supported except packbits") else: #PackBits compression if DEBUG: print("Using PackBits compression") interpretation = info["photometricInterpretation"] if interpretation == 2: #RGB pass #raise IOError("RGB Image. Only grayscale images supported") elif interpretation == 3: #Palette Color Image pass #raise IOError("Palette-color Image. Only grayscale images supported") elif interpretation > 2: #Palette Color Image raise IOError("Only grayscale images supported") nRows = info["nRows"] nColumns = info["nColumns"] nBits = info["nBits"] colormap = info["colormap"] sampleFormat = info["sampleFormat"] if rowMin is None: rowMin = 0 if rowMax is None: rowMax = nRows - 1 if rowMin < 0: rowMin = nRows - rowMin if rowMax < 0: rowMax = nRows - rowMax if rowMax < rowMin: txt = "Max Row smaller than Min Row. Reverse selection not supported" raise NotImplementedError(txt) if rowMin >= nRows: raise IndexError("Image only has %d rows" % nRows) if rowMax >= nRows: raise IndexError("Image only has %d rows" % nRows) if sampleFormat == SAMPLE_FORMAT_FLOAT: if nBits == 32: dtype = numpy.float32 elif nBits == 64: dtype = numpy.float64 else: raise ValueError("Unsupported number of bits for a float: %d" % nBits) elif sampleFormat in [SAMPLE_FORMAT_UINT, SAMPLE_FORMAT_VOID]: if nBits in [8, (8, 8, 8), [8, 8, 8]]: dtype = numpy.uint8 elif nBits in [16, (16, 16, 16), [16, 16, 16]]: dtype = numpy.uint16 elif nBits in [32, (32, 32, 32), [32, 32, 32]]: dtype = numpy.uint32 elif nBits in [64, (64, 64, 64), [64, 64, 64]]: dtype = numpy.uint64 else: raise ValueError("Unsupported number of bits for unsigned int: %s" % (nBits,)) elif sampleFormat == SAMPLE_FORMAT_INT: if nBits in [8, (8, 8, 8), [8, 8, 8]]: dtype = numpy.int8 elif nBits in [16, (16, 16, 16), [16, 16, 16]]: dtype = numpy.int16 elif nBits in [32, (32, 32, 32), [32, 32, 32]]: dtype = numpy.int32 elif nBits in [64, (64, 64, 64), [64, 64, 64]]: dtype = numpy.int64 else: raise ValueError("Unsupported number of bits for signed int: %s" % (nBits,)) else: raise ValueError("Unsupported combination. Bits = %s Format = %d" % (nBits, sampleFormat)) if hasattr(nBits, 'index'): image = numpy.zeros((nRows, nColumns, len(nBits)), dtype=dtype) elif colormap is not None: #should I use colormap dtype? image = numpy.zeros((nRows, nColumns, 3), dtype=dtype) else: image = numpy.zeros((nRows, nColumns), dtype=dtype) fd = self.fd st = self._structChar stripOffsets = info["stripOffsets"] #This contains the file offsets to the data positions rowsPerStrip = info["rowsPerStrip"] stripByteCounts = info["stripByteCounts"] #bytes in strip since I do not support compression rowStart = 0 if len(stripOffsets) == 1: bytesPerRow = int(stripByteCounts[0]/rowsPerStrip) if nRows == rowsPerStrip: actualBytesPerRow = int(image.nbytes/nRows) if actualBytesPerRow != bytesPerRow: print("Warning: Bogus StripByteCounts information") bytesPerRow = actualBytesPerRow fd.seek(stripOffsets[0] + rowMin * bytesPerRow) nBytes = (rowMax-rowMin+1) * bytesPerRow if self._swap: readout = numpy.fromstring(fd.read(nBytes), dtype).byteswap() else: readout = numpy.fromstring(fd.read(nBytes), dtype) if hasattr(nBits, 'index'): readout.shape = -1, nColumns, len(nBits) elif info['colormap'] is not None: readout = colormap[readout] else: readout.shape = -1, nColumns image[rowMin:rowMax+1, :] = readout else: for i in range(len(stripOffsets)): #the amount of rows nRowsToRead = rowsPerStrip rowEnd = int(min(rowStart+nRowsToRead, nRows)) if rowEnd < rowMin: rowStart += nRowsToRead continue if (rowStart > rowMax): break #we are in position fd.seek(stripOffsets[i]) #the amount of bytes to read nBytes = stripByteCounts[i] if compression_type == 32773: try: bufferBytes = bytes() except: #python 2.5 ... bufferBytes = "" #packBits readBytes = 0 #intermediate buffer tmpBuffer = fd.read(nBytes) while readBytes < nBytes: n = struct.unpack('b', tmpBuffer[readBytes:(readBytes+1)])[0] readBytes += 1 if n >= 0: #should I prevent reading more than the #length of the chain? Let's python raise #the exception... bufferBytes += tmpBuffer[readBytes:\ readBytes+(n+1)] readBytes += (n+1) elif n > -128: bufferBytes += (-n+1) * tmpBuffer[readBytes:(readBytes+1)] readBytes += 1 else: #if read -128 ignore the byte continue if self._swap: readout = numpy.fromstring(bufferBytes, dtype).byteswap() else: readout = numpy.fromstring(bufferBytes, dtype) if hasattr(nBits, 'index'): readout.shape = -1, nColumns, len(nBits) elif info['colormap'] is not None: readout = colormap[readout] readout.shape = -1, nColumns, 3 else: readout.shape = -1, nColumns image[rowStart:rowEnd, :] = readout else: if 1: #use numpy if self._swap: readout = numpy.fromstring(fd.read(nBytes), dtype).byteswap() else: readout = numpy.fromstring(fd.read(nBytes), dtype) if hasattr(nBits, 'index'): readout.shape = -1, nColumns, len(nBits) elif colormap is not None: readout = colormap[readout] readout.shape = -1, nColumns, 3 else: readout.shape = -1, nColumns image[rowStart:rowEnd, :] = readout else: #using struct readout = numpy.array(struct.unpack(st+"%df" % int(nBytes/4), fd.read(nBytes)), dtype=dtype) if hasattr(nBits, 'index'): readout.shape = -1, nColumns, len(nBits) elif colormap is not None: readout = colormap[readout] readout.shape = -1, nColumns, 3 else: readout.shape = -1, nColumns image[rowStart:rowEnd, :] = readout rowStart += nRowsToRead if close: self.__makeSureFileIsClosed() if len(image.shape) == 3: #color image if self._forceMonoOutput: #color image, convert to monochrome image = (image[:,:,0] * 0.114 +\ image[:,:,1] * 0.587 +\ image[:,:,2] * 0.299).astype(numpy.float32) if (rowMin == 0) and (rowMax == (nRows-1)): self._imageDataCacheIndex.insert(0,nImage) self._imageDataCache.insert(0, image) if len(self._imageDataCacheIndex) > self._maxImageCacheLength: self._imageDataCacheIndex = self._imageDataCacheIndex[:self._maxImageCacheLength] self._imageDataCache = self._imageDataCache[:self._maxImageCacheLength] return image def writeImage(self, image0, info=None, software=None, date=None): if software is None: software = 'PyMca.TiffIO' #if date is None: # date = time.ctime() self.__makeSureFileIsOpen() fd = self.fd #prior to do anything, perform some tests if not len(image0.shape): raise ValueError("Empty image") if len(image0.shape) == 1: #get a different view image = image0[:] image.shape = 1, -1 else: image = image0 if image.dtype == numpy.float64: image = image.astype(numpy.float32) fd.seek(0) mode = fd.mode name = fd.name if 'w' in mode: #we have to overwrite the file self.__makeSureFileIsClosed() fd = None if os.path.exists(name): os.remove(name) fd = open(name, mode='wb+') self._initEmptyFile(fd) self.fd = fd #read the file size self.__makeSureFileIsOpen() fd = self.fd fd.seek(0, os.SEEK_END) endOfFile = fd.tell() if fd.tell() == 0: self._initEmptyFile(fd) fd.seek(0, os.SEEK_END) endOfFile = fd.tell() #init internal variables self._initInternalVariables(fd) st = self._structChar #get the image file directories nImages = self.getImageFileDirectories() if DEBUG: print("File contains %d images" % nImages) if nImages == 0: fd.seek(4) fmt = st + 'I' fd.write(struct.pack(fmt, endOfFile)) else: fd.seek(self._IFD[-1]) fmt = st + 'H' numberOfDirectoryEntries = struct.unpack(fmt,fd.read(struct.calcsize(fmt)))[0] fmt = st + 'I' pos = self._IFD[-1] + 2 + 12 * numberOfDirectoryEntries fd.seek(pos) fmt = st + 'I' fd.write(struct.pack(fmt, endOfFile)) fd.flush() #and we can write at the end of the file, find out the file length fd.seek(0, os.SEEK_END) #get the description information from the input information if info is None: description = info else: description = "%s" % "" for key in info.keys(): description += "%s=%s\n" % (key, info[key]) #get the image file directory outputIFD = self._getOutputIFD(image, description=description, software=software, date=date) #write the new IFD fd.write(outputIFD) #write the image if self._swap: fd.write(image.byteswap().tostring()) else: fd.write(image.tostring()) fd.flush() self.fd=fd self.__makeSureFileIsClosed() def _initEmptyFile(self, fd=None): if fd is None: fd = self.fd if sys.byteorder == "little": order = "II" #intel, little endian fileOrder = "little" self._structChar = '<' else: order = "MM" #motorola, high endian fileOrder = "big" self._structChar = '>' st = self._structChar if fileOrder == sys.byteorder: self._swap = False else: self._swap = True fd.seek(0) if sys.version < '3.0': fd.write(struct.pack(st+'2s', order)) fd.write(struct.pack(st+'H', 42)) fd.write(struct.pack(st+'I', 0)) else: fd.write(struct.pack(st+'2s', bytes(order,'utf-8'))) fd.write(struct.pack(st+'H', 42)) fd.write(struct.pack(st+'I', 0)) fd.flush() def _getOutputIFD(self, image, description=None, software=None, date=None): #the tags have to be in order #the very minimum is #256:"NumberOfColumns", # S or L ImageWidth #257:"NumberOfRows", # S or L ImageHeight #258:"BitsPerSample", # S Number of bits per component #259:"Compression", # SHORT (1 - NoCompression, ... #262:"PhotometricInterpretation", # SHORT (0 - WhiteIsZero, 1 -BlackIsZero, 2 - RGB, 3 - Palette color #270:"ImageDescription", # ASCII #273:"StripOffsets", # S or L, for each strip, the byte offset of the strip #277:"SamplesPerPixel", # SHORT (>=3) only for RGB images #278:"RowsPerStrip", # S or L, number of rows in each back may be not for the last #279:"StripByteCounts", # S or L, The number of bytes in the strip AFTER any compression #305:"Software", # ASCII #306:"Date", # ASCII #339:"SampleFormat", # SHORT Interpretation of data in each pixel nDirectoryEntries = 9 imageDescription = None if description is not None: descriptionLength = len(description) while descriptionLength < 4: description = description + " " descriptionLength = len(description) if sys.version >= '3.0': description = bytes(description, 'utf-8') elif type(description) != type(""): try: description = description.decode('utf-8') except UnicodeDecodeError: try: description = description.decode('latin-1') except UnicodeDecodeError: description = "%s" % description if sys.version > '2.6': description=description.encode('utf-8', errors="ignore") description = "%s" % description descriptionLength = len(description) imageDescription = struct.pack("%ds" % descriptionLength, description) nDirectoryEntries += 1 #software if software is not None: softwareLength = len(software) while softwareLength < 4: software = software + " " softwareLength = len(software) if sys.version >= '3.0': software = bytes(software, 'utf-8') softwarePackedString = struct.pack("%ds" % softwareLength, software) nDirectoryEntries += 1 else: softwareLength = 0 if date is not None: dateLength = len(date) if sys.version >= '3.0': date = bytes(date, 'utf-8') datePackedString = struct.pack("%ds" % dateLength, date) dateLength = len(datePackedString) nDirectoryEntries += 1 else: dateLength = 0 if len(image.shape) == 2: nRows, nColumns = image.shape nChannels = 1 elif len(image.shape) == 3: nRows, nColumns, nChannels = image.shape else: raise RuntimeError("Image does not have the right shape") dtype = image.dtype bitsPerSample = int(dtype.str[-1]) * 8 #only uncompressed data compression = 1 #interpretation, black is zero if nChannels == 1: interpretation = 1 bitsPerSampleLength = 0 elif nChannels == 3: interpretation = 2 bitsPerSampleLength = 3 * 2 # To store 3 shorts nDirectoryEntries += 1 # For SamplesPerPixel else: raise RuntimeError( "Image with %d color channel(s) not supported" % nChannels) #image description if imageDescription is not None: descriptionLength = len(imageDescription) else: descriptionLength = 0 #strip offsets #we are putting them after the directory and the directory is #at the end of the file self.fd.seek(0, os.SEEK_END) endOfFile = self.fd.tell() if endOfFile == 0: #empty file endOfFile = 8 #rows per strip if ALLOW_MULTIPLE_STRIPS: #try to segment the image in several pieces if not (nRows % 4): rowsPerStrip = int(nRows/4) elif not (nRows % 10): rowsPerStrip = int(nRows/10) elif not (nRows % 8): rowsPerStrip = int(nRows/8) elif not (nRows % 4): rowsPerStrip = int(nRows/4) elif not (nRows % 2): rowsPerStrip = int(nRows/2) else: rowsPerStrip = nRows else: rowsPerStrip = nRows #stripByteCounts stripByteCounts = int(nColumns * rowsPerStrip * bitsPerSample * nChannels / 8) if descriptionLength > 4: stripOffsets0 = endOfFile + dateLength + descriptionLength +\ 2 + 12 * nDirectoryEntries + 4 else: stripOffsets0 = endOfFile + dateLength + \ 2 + 12 * nDirectoryEntries + 4 if softwareLength > 4: stripOffsets0 += softwareLength stripOffsets0 += bitsPerSampleLength stripOffsets = [stripOffsets0] stripOffsetsLength = 0 stripOffsetsString = None st = self._structChar if rowsPerStrip != nRows: nStripOffsets = int(nRows/rowsPerStrip) fmt = st + 'I' stripOffsetsLength = struct.calcsize(fmt) * nStripOffsets stripOffsets0 += stripOffsetsLength #the length for the stripByteCounts will be the same stripOffsets0 += stripOffsetsLength stripOffsets = [] for i in range(nStripOffsets): value = stripOffsets0 + i * stripByteCounts stripOffsets.append(value) if i == 0: stripOffsetsString = struct.pack(fmt, value) stripByteCountsString = struct.pack(fmt, stripByteCounts) else: stripOffsetsString += struct.pack(fmt, value) stripByteCountsString += struct.pack(fmt, stripByteCounts) if DEBUG: print("IMAGE WILL START AT %d" % stripOffsets[0]) #sample format if dtype in [numpy.float32, numpy.float64] or\ dtype.str[-2] == 'f': sampleFormat = SAMPLE_FORMAT_FLOAT elif dtype in [numpy.uint8, numpy.uint16, numpy.uint32, numpy.uint64]: sampleFormat = SAMPLE_FORMAT_UINT elif dtype in [numpy.int8, numpy.int16, numpy.int32, numpy.int64]: sampleFormat = SAMPLE_FORMAT_INT else: raise ValueError("Unsupported data type %s" % dtype) info = {} info["nColumns"] = nColumns info["nRows"] = nRows info["nBits"] = bitsPerSample info["compression"] = compression info["photometricInterpretation"] = interpretation info["stripOffsets"] = stripOffsets if interpretation == 2: info["samplesPerPixel"] = 3 # No support for extra samples info["rowsPerStrip"] = rowsPerStrip info["stripByteCounts"] = stripByteCounts info["date"] = date info["sampleFormat"] = sampleFormat outputIFD = "" if sys.version > '2.6': outputIFD = eval('b""') fmt = st + "H" outputIFD += struct.pack(fmt, nDirectoryEntries) fmt = st + "HHII" outputIFD += struct.pack(fmt, TAG_NUMBER_OF_COLUMNS, FIELD_TYPE_OUT['I'], 1, info["nColumns"]) outputIFD += struct.pack(fmt, TAG_NUMBER_OF_ROWS, FIELD_TYPE_OUT['I'], 1, info["nRows"]) if info["photometricInterpretation"] == 1: fmt = st + 'HHIHH' outputIFD += struct.pack(fmt, TAG_BITS_PER_SAMPLE, FIELD_TYPE_OUT['H'], 1, info["nBits"], 0) elif info["photometricInterpretation"] == 2: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_BITS_PER_SAMPLE, FIELD_TYPE_OUT['H'], 3, info["stripOffsets"][0] - \ 2 * stripOffsetsLength - \ descriptionLength - \ dateLength - \ softwareLength - \ bitsPerSampleLength) else: raise RuntimeError("Unsupported photometric interpretation") fmt = st + 'HHIHH' outputIFD += struct.pack(fmt, TAG_COMPRESSION, FIELD_TYPE_OUT['H'], 1, info["compression"],0) fmt = st + 'HHIHH' outputIFD += struct.pack(fmt, TAG_PHOTOMETRIC_INTERPRETATION, FIELD_TYPE_OUT['H'], 1, info["photometricInterpretation"],0) if imageDescription is not None: descriptionLength = len(imageDescription) if descriptionLength > 4: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_IMAGE_DESCRIPTION, FIELD_TYPE_OUT['s'], descriptionLength, info["stripOffsets"][0]-\ 2*stripOffsetsLength-\ descriptionLength) else: #it has to have length 4 fmt = st + 'HHI%ds' % descriptionLength outputIFD += struct.pack(fmt, TAG_IMAGE_DESCRIPTION, FIELD_TYPE_OUT['s'], descriptionLength, description) if len(stripOffsets) == 1: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_STRIP_OFFSETS, FIELD_TYPE_OUT['I'], 1, info["stripOffsets"][0]) else: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_STRIP_OFFSETS, FIELD_TYPE_OUT['I'], len(stripOffsets), info["stripOffsets"][0]-2*stripOffsetsLength) if info["photometricInterpretation"] == 2: fmt = st + 'HHIHH' outputIFD += struct.pack(fmt, TAG_SAMPLES_PER_PIXEL, FIELD_TYPE_OUT['H'], 1, info["samplesPerPixel"], 0) fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_ROWS_PER_STRIP, FIELD_TYPE_OUT['I'], 1, info["rowsPerStrip"]) if len(stripOffsets) == 1: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_STRIP_BYTE_COUNTS, FIELD_TYPE_OUT['I'], 1, info["stripByteCounts"]) else: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_STRIP_BYTE_COUNTS, FIELD_TYPE_OUT['I'], len(stripOffsets), info["stripOffsets"][0]-stripOffsetsLength) if software is not None: if softwareLength > 4: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_SOFTWARE, FIELD_TYPE_OUT['s'], softwareLength, info["stripOffsets"][0]-\ 2*stripOffsetsLength-\ descriptionLength-softwareLength-dateLength) else: #it has to have length 4 fmt = st + 'HHI%ds' % softwareLength outputIFD += struct.pack(fmt, TAG_SOFTWARE, FIELD_TYPE_OUT['s'], softwareLength, softwarePackedString) if date is not None: fmt = st + 'HHII' outputIFD += struct.pack(fmt, TAG_DATE, FIELD_TYPE_OUT['s'], dateLength, info["stripOffsets"][0]-\ 2*stripOffsetsLength-\ descriptionLength-dateLength) fmt = st + 'HHIHH' outputIFD += struct.pack(fmt, TAG_SAMPLE_FORMAT, FIELD_TYPE_OUT['H'], 1, info["sampleFormat"],0) fmt = st + 'I' outputIFD += struct.pack(fmt, 0) if info["photometricInterpretation"] == 2: outputIFD += struct.pack('HHH', info["nBits"], info["nBits"], info["nBits"]) if softwareLength > 4: outputIFD += softwarePackedString if date is not None: outputIFD += datePackedString if imageDescription is not None: if descriptionLength > 4: outputIFD += imageDescription if stripOffsetsString is not None: outputIFD += stripOffsetsString outputIFD += stripByteCountsString return outputIFD if __name__ == "__main__": filename = sys.argv[1] dtype = numpy.uint16 if not os.path.exists(filename): print("Testing file creation") tif = TiffIO(filename, mode = 'wb+') data = numpy.arange(10000).astype(dtype) data.shape = 100, 100 tif.writeImage(data, info={'Title':'1st'}) tif = None if os.path.exists(filename): print("Testing image appending") tif = TiffIO(filename, mode = 'rb+') tif.writeImage((data*2).astype(dtype), info={'Title':'2nd'}) tif = None tif = TiffIO(filename) print("Number of images = %d" % tif.getNumberOfImages()) for i in range(tif.getNumberOfImages()): info = tif.getInfo(i) for key in info: if key not in ["colormap"]: print("%s = %s" % (key, info[key])) elif info['colormap'] is not None: print("RED %s = %s" % (key, info[key][0:10, 0])) print("GREEN %s = %s" % (key, info[key][0:10, 1])) print("BLUE %s = %s" % (key, info[key][0:10, 2])) data = tif.getImage(i)[0, 0:10] print("data [0, 0:10] = ", data) silx-0.6.1/silx/third_party/six.py0000644023630100076410000000353413202530432017625 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Wrapper module for the `six` library. Feed this module using a local silx copy of `six` if it exists. Else it expect to have an available `six` library installed in the Python path. It should be used like that: .. code-block:: from silx.third_party import six """ from __future__ import absolute_import __authors__ = ["Valentin Valls"] __license__ = "MIT" __date__ = "26/04/2017" try: # try to import our local version of six from ._local.six import * # noqa except ImportError: # else try to import it from the python path from six import * # noqa silx-0.6.1/silx/third_party/enum.py0000644023630100076410000000360413202530432017764 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Wrapper module for the `enum` package. The `enum` package is available in python>=3.4. Try to fill this module with the local copy of `enum` if it exists. Otherwise it expects to have the `enum` packaged installed in the Python path. It should be used like that: .. code-block:: from silx.third_party import enum """ from __future__ import absolute_import __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "22/05/2017" try: # try to import the local version from ._local.enum import * # noqa except ImportError: # else try to import it from the python path from enum import * # noqa silx-0.6.1/silx/third_party/EdfFile.py0000644023630100076410000014267313202530306020330 0ustar knobelusers00000000000000# /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # This file is part of the PyMca X-ray Fluorescence Toolkit developed at # the ESRF by the Software group. # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __author__ = "Alexandre Gobbo, V.A. Sole - ESRF Data Analysis" __contact__ = "sole@esrf.fr" __license__ = "MIT" __copyright__ = "European Synchrotron Radiation Facility, Grenoble, France" """ EdfFile.py Generic class for Edf files manipulation. Interface: =========================== class EdfFile: __init__(self,FileName) GetNumImages(self) def GetData(self,Index, DataType="",Pos=None,Size=None): GetPixel(self,Index,Position) GetHeader(self,Index) GetStaticHeader(self,Index) WriteImage (self,Header,Data,Append=1,DataType="",WriteAsUnsigened=0,ByteOrder="") Edf format assumptions: =========================== The following details were assumed for this implementation: - Each Edf file contains a certain number of data blocks. - Each data block represents data stored in an one, two or three-dimensional array. - Each data block contains a header section, written in ASCII, and a data section of binary information. - The size of the header section in bytes is a multiple of 1024. The header is padded with spaces (0x20). If the header is not padded to a multiple of 1024, the file is recognized, but the output is always made in this format. - The header section starts by '{' and finishes by '}'. It is composed by several pairs 'keyword = value;'. The keywords are case insensitive, but the values are case sensitive. Each pair is put in a new line (they are separeted by 0x0A). In the end of each line, a semicolon (;) separes the pair of a comment, not interpreted. Exemple: { ; Exemple Header HeaderID = EH:000001:000000:000000 ; automatically generated ByteOrder = LowByteFirst ; DataType = FloatValue ; 4 bytes per pixel Size = 4000000 ; size of data section Dim_1= 1000 ; x coordinates Dim_2 = 1000 ; y coordinates (padded with spaces to complete 1024 bytes) } - There are some fields in the header that are required for this implementation. If any of these is missing, or inconsistent, it will be generated an error: Size: Represents size of data block Dim_1: size of x coordinates (Dim_2 for 2-dimentional images, and also Dim_3 for 3d) DataType ByteOrder - For the written images, these fields are automatically genereted: Size,Dim_1 (Dim_2 and Dim_3, if necessary), Byte Order, DataType, HeaderID and Image These fields are called here "static header", and can be retrieved by the method GetStaticHeader. Other header components are taken by GetHeader. Both methods returns a dictionary in which the key is the keyword of the pair. When writting an image through WriteImage method, the Header parameter should not contain the static header information, which is automatically generated. - The indexing of images through these functions is based just on the 0-based position in the file, the header items HeaderID and Image are not considered for referencing the images. - The data section contais a number of bytes equal to the value of Size keyword. Data section is going to be translated into an 1D, 2D or 3D Numpy Array, and accessed through GetData method call. """ DEBUG = 0 ################################################################################ import sys import numpy import os.path try: import gzip GZIP = True except: GZIP = False try: import bz2 BZ2 = True except: BZ2 = False MARCCD_SUPPORT = False PILATUS_CBF_SUPPORT = False CAN_USE_FASTEDF = False # Using local TiffIO from . import TiffIO TIFF_SUPPORT = True # Constants HEADER_BLOCK_SIZE = 1024 STATIC_HEADER_ELEMENTS = ( "HeaderID", "Image", "ByteOrder", "DataType", "Dim_1", "Dim_2", "Dim_3", "Offset_1", "Offset_2", "Offset_3", "Size") STATIC_HEADER_ELEMENTS_CAPS = ( "HEADERID", "IMAGE", "BYTEORDER", "DATATYPE", "DIM_1", "DIM_2", "DIM_3", "OFFSET_1", "OFFSET_2", "OFFSET_3", "SIZE") LOWER_CASE = 0 UPPER_CASE = 1 KEYS = 1 VALUES = 2 class Image(object): """ """ def __init__(self): """ Constructor """ self.Header = {} self.StaticHeader = {} self.HeaderPosition = 0 self.DataPosition = 0 self.Size = 0 self.NumDim = 1 self.Dim1 = 0 self.Dim2 = 0 self.Dim3 = 0 self.DataType = "" class EdfFile(object): """ """ def __init__(self, FileName, access=None, fastedf=None): """ Constructor :param FileName: Name of the file (either existing or to be created) :type FileName: string :param access: access mode "r" for reading (the file should exist) or "w" for writing (if the file does not exist, it does not matter). :type access: string :type fastedf: True to use the fastedf module :param fastedf: bool """ self.Images = [] self.NumImages = 0 self.FileName = FileName self.File = 0 if fastedf is None: fastedf = 0 self.fastedf = fastedf self.ADSC = False self.MARCCD = False self.TIFF = False self.PILATUS_CBF = False self.SPE = False if sys.byteorder == "big": self.SysByteOrder = "HighByteFirst" else: self.SysByteOrder = "LowByteFirst" if hasattr(FileName, "seek") and\ hasattr(FileName, "read"): # this looks like a file descriptor ... self.__ownedOpen = False self.File = FileName try: self.FileName = self.File.name except AttributeError: self.FileName = self.File.filename elif FileName.lower().endswith('.gz'): if GZIP: self.__ownedOpen = False self.File = gzip.GzipFile(FileName) else: raise IOError("No gzip module support in this system") elif FileName.lower().endswith('.bz2'): if BZ2: self.__ownedOpen = False self.File = bz2.BZ2File(FileName) else: raise IOError("No bz2 module support in this system") else: self.__ownedOpen = True if self.File in [0, None]: if access is not None: if access[0].upper() == "R": if not os.path.isfile(self.FileName): raise IOError("File %s not found" % FileName) if 'b' not in access: access += 'b' if 1: if not os.path.isfile(self.FileName): # write access if access is None: # allow writing and reading access = "ab+" self.File = open(self.FileName, access) self.File.seek(0, 0) return if 'b' not in access: access += 'b' self.File = open(self.FileName, access) return else: if access is None: if (os.access(self.FileName, os.W_OK)): access = "r+b" else: access = "rb" self.File = open(self.FileName, access) self.File.seek(0, 0) twoChars = self.File.read(2) tiff = False if sys.version < '3.0': if twoChars in ["II", "MM"]: tiff = True elif twoChars in [eval('b"II"'), eval('b"MM"')]: tiff = True if tiff: fileExtension = os.path.splitext(self.FileName)[-1] if fileExtension.lower() in [".tif", ".tiff"] or\ sys.version > '2.9': if not TIFF_SUPPORT: raise IOError("TIFF support not implemented") else: self.TIFF = True elif not MARCCD_SUPPORT: if not TIFF_SUPPORT: raise IOError("MarCCD support not implemented") else: self.TIFF = True else: self.MARCCD = True basename = os.path.basename(FileName).upper() if basename.endswith('.CBF'): if not PILATUS_CBF_SUPPORT: raise IOError("CBF support not implemented") if twoChars[0] != "{": self.PILATUS_CBF = True elif basename.endswith('.SPE'): if twoChars[0] != "$": self.SPE = True elif basename.endswith('EDF.GZ') or basename.endswith('CCD.GZ'): self.GZIP = True else: try: self.File.close() except: pass raise IOError("EdfFile: Error opening file") self.File.seek(0, 0) if self.TIFF: self._wrapTIFF() self.File.close() return if self.MARCCD: self._wrapMarCCD() self.File.close() return if self.PILATUS_CBF: self._wrapPilatusCBF() self.File.close() return if self.SPE: self._wrapSPE() self.File.close() return Index = 0 line = self.File.readline() selectedLines = [""] if sys.version > '2.6': selectedLines.append(eval('b""')) parsingHeader = False while line not in selectedLines: # decode to make sure I have character string # str to make sure python 2.x sees it as string and not unicode if sys.version < '3.0': if type(line) != type(str("")): line = "%s" % line else: try: line = str(line.decode()) except UnicodeDecodeError: try: line = str(line.decode('utf-8')) except UnicodeDecodeError: try: line = str(line.decode('latin-1')) except UnicodeDecodeError: line = "%s" % line if (line.count("{\n") >= 1) or (line.count("{\r\n") >= 1): parsingHeader = True Index = self.NumImages self.NumImages = self.NumImages + 1 self.Images.append(Image()) if line.count("=") >= 1: listItems = line.split("=", 1) typeItem = listItems[0].strip() listItems = listItems[1].split(";", 1) valueItem = listItems[0].strip() if (typeItem == "HEADER_BYTES") and (Index == 0): self.ADSC = True break # if typeItem in self.Images[Index].StaticHeader.keys(): if typeItem.upper() in STATIC_HEADER_ELEMENTS_CAPS: self.Images[Index].StaticHeader[typeItem] = valueItem else: self.Images[Index].Header[typeItem] = valueItem if ((line.count("}\n") >= 1) or (line.count("}\r") >= 1)) and (parsingHeader): parsingHeader = False # for i in STATIC_HEADER_ELEMENTS_CAPS: # if self.Images[Index].StaticHeader[i]=="": # raise "Bad File Format" self.Images[Index].DataPosition = self.File.tell() # self.File.seek(int(self.Images[Index].StaticHeader["Size"]), 1) StaticPar = SetDictCase(self.Images[Index].StaticHeader, UPPER_CASE, KEYS) if "SIZE" in StaticPar.keys(): self.Images[Index].Size = int(StaticPar["SIZE"]) if self.Images[Index].Size <= 0: self.NumImages = Index line = self.File.readline() continue else: raise TypeError("EdfFile: Image doesn't have size information") if "DIM_1" in StaticPar.keys(): self.Images[Index].Dim1 = int(StaticPar["DIM_1"]) self.Images[Index].Offset1 = int(StaticPar.get("Offset_1", "0")) else: raise TypeError("EdfFile: Image doesn't have dimension information") if "DIM_2" in StaticPar.keys(): self.Images[Index].NumDim = 2 self.Images[Index].Dim2 = int(StaticPar["DIM_2"]) self.Images[Index].Offset2 = int(StaticPar.get("Offset_2", "0")) if "DIM_3" in StaticPar.keys(): self.Images[Index].NumDim = 3 self.Images[Index].Dim3 = int(StaticPar["DIM_3"]) self.Images[Index].Offset3 = int(StaticPar.get("Offset_3", "0")) if "DATATYPE" in StaticPar.keys(): self.Images[Index].DataType = StaticPar["DATATYPE"] else: raise TypeError("EdfFile: Image doesn't have datatype information") if "BYTEORDER" in StaticPar.keys(): self.Images[Index].ByteOrder = StaticPar["BYTEORDER"] else: raise TypeError("EdfFile: Image doesn't have byteorder information") self.File.seek(self.Images[Index].Size, 1) line = self.File.readline() if self.ADSC: self.File.seek(0, 0) self.NumImages = 1 # this is a bad implementation of fabio adscimage # please take a look at the fabio module of fable at sourceforge infile = self.File header_keys = [] header = {} try: """ read an adsc header """ line = infile.readline() bytesread = len(line) while '}' not in line: if '=' in line: (key, val) = line.split('=') header_keys.append(key.strip()) header[key.strip()] = val.strip(' ;\n') line = infile.readline() bytesread = bytesread + len(line) except: raise Exception("Error processing adsc header") # banned by bzip/gzip??? try: infile.seek(int(header['HEADER_BYTES']), 0) except TypeError: # Gzipped does not allow a seek and read header is not # promising to stop in the right place infile.close() infile = self._open(fname, "rb") infile.read(int(header['HEADER_BYTES'])) binary = infile.read() infile.close() # now read the data into the array self.Images[Index].Dim1 = int(header['SIZE1']) self.Images[Index].Dim2 = int(header['SIZE2']) self.Images[Index].NumDim = 2 self.Images[Index].DataType = 'UnsignedShort' try: self.__data = numpy.reshape( numpy.fromstring(binary, numpy.uint16), (self.Images[Index].Dim2, self.Images[Index].Dim1)) except ValueError: msg = 'Size spec in ADSC-header does not match size of image data field' raise IOError(msg) if 'little' in header['BYTE_ORDER']: self.Images[Index].ByteOrder = 'LowByteFirst' else: self.Images[Index].ByteOrder = 'HighByteFirst' if self.SysByteOrder.upper() != self.Images[Index].ByteOrder.upper(): self.__data = self.__data.byteswap() self.Images[Index].ByteOrder = self.SysByteOrder self.Images[Index].StaticHeader['Dim_1'] = self.Images[Index].Dim1 self.Images[Index].StaticHeader['Dim_2'] = self.Images[Index].Dim2 self.Images[Index].StaticHeader['Offset_1'] = 0 self.Images[Index].StaticHeader['Offset_2'] = 0 self.Images[Index].StaticHeader['DataType'] = self.Images[Index].DataType self.__makeSureFileIsClosed() def _wrapTIFF(self): self._wrappedInstance = TiffIO.TiffIO(self.File, cache_length=0, mono_output=True) self.NumImages = self._wrappedInstance.getNumberOfImages() if self.NumImages < 1: return # wrapped image objects have to provide getInfo and getData # info = self._wrappedInstance.getInfo( index) # data = self._wrappedInstance.getData( index) # for the time being I am going to assume all the images # in the file have the same data type type data = None for Index in range(self.NumImages): info = self._wrappedInstance.getInfo(Index) self.Images.append(Image()) self.Images[Index].Dim1 = info['nRows'] self.Images[Index].Dim2 = info['nColumns'] self.Images[Index].NumDim = 2 if data is None: data = self._wrappedInstance.getData(0) self.Images[Index].DataType = self.__GetDefaultEdfType__(data.dtype) self.Images[Index].StaticHeader['Dim_1'] = self.Images[Index].Dim1 self.Images[Index].StaticHeader['Dim_2'] = self.Images[Index].Dim2 self.Images[Index].StaticHeader['Offset_1'] = 0 self.Images[Index].StaticHeader['Offset_2'] = 0 self.Images[Index].StaticHeader['DataType'] = self.Images[Index].DataType self.Images[Index].Header.update(info) def _wrapMarCCD(self): raise NotImplementedError("Look at the module EdfFile from PyMca") def _wrapPilatusCBF(self): raise NotImplementedError("Look at the module EdfFile from PyMca") def _wrapSPE(self): if 0 and sys.version < '3.0': self.File.seek(42) xdim = numpy.int64(numpy.fromfile(self.File, numpy.int16, 1)[0]) self.File.seek(656) ydim = numpy.int64(numpy.fromfile(self.File, numpy.int16, 1)) self.File.seek(4100) self.__data = numpy.fromfile(self.File, numpy.uint16, int(xdim * ydim)) else: import struct self.File.seek(0) a = self.File.read() xdim = numpy.int64(struct.unpack('= self.NumImages: raise ValueError("EdfFile: Index out of limit") if fastedf is None: fastedf = 0 if Pos is None and Size is None: if self.ADSC or self.MARCCD or self.PILATUS_CBF or self.SPE: return self.__data elif self.TIFF: data = self._wrappedInstance.getData(Index) return data else: self.File.seek(self.Images[Index].DataPosition, 0) datatype = self.__GetDefaultNumpyType__(self.Images[Index].DataType, index=Index) try: datasize = self.__GetSizeNumpyType__(datatype) except TypeError: print("What is the meaning of this error?") datasize = 8 if self.Images[Index].NumDim == 3: image = self.Images[Index] sizeToRead = image.Dim1 * image.Dim2 * image.Dim3 * datasize Data = numpy.fromstring(self.File.read(sizeToRead), datatype) Data = numpy.reshape(Data, (self.Images[Index].Dim3, self.Images[Index].Dim2, self.Images[Index].Dim1)) elif self.Images[Index].NumDim == 2: image = self.Images[Index] sizeToRead = image.Dim1 * image.Dim2 * datasize Data = numpy.fromstring(self.File.read(sizeToRead), datatype) # print "datatype = ",datatype # print "Data.type = ", Data.dtype.char # print "self.Images[Index].DataType ", self.Images[Index].DataType # print "Data.shape",Data.shape # print "datasize = ",datasize # print "sizeToRead ",sizeToRead # print "lenData = ", len(Data) Data = numpy.reshape(Data, (self.Images[Index].Dim2, self.Images[Index].Dim1)) elif self.Images[Index].NumDim == 1: sizeToRead = self.Images[Index].Dim1 * datasize Data = numpy.fromstring(self.File.read(sizeToRead), datatype) elif self.ADSC or self.MARCCD or self.PILATUS_CBF or self.SPE: return self.__data[Pos[1]:(Pos[1] + Size[1]), Pos[0]:(Pos[0] + Size[0])] elif self.TIFF: data = self._wrappedInstance.getData(Index) return data[Pos[1]:(Pos[1] + Size[1]), Pos[0]:(Pos[0] + Size[0])] elif fastedf and CAN_USE_FASTEDF: raise NotImplementedError("Look at the module EdfFile from PyMCA") else: if fastedf: print("It could not use fast routines") type_ = self.__GetDefaultNumpyType__(self.Images[Index].DataType, index=Index) size_pixel = self.__GetSizeNumpyType__(type_) Data = numpy.array([], type_) if self.Images[Index].NumDim == 1: if Pos is None: Pos = (0,) if Size is None: Size = (0,) sizex = self.Images[Index].Dim1 Size = list(Size) if Size[0] == 0: Size[0] = sizex - Pos[0] self.File.seek((Pos[0] * size_pixel) + self.Images[Index].DataPosition, 0) Data = numpy.fromstring(self.File.read(Size[0] * size_pixel), type_) elif self.Images[Index].NumDim == 2: if Pos is None: Pos = (0, 0) if Size is None: Size = (0, 0) Size = list(Size) sizex, sizey = self.Images[Index].Dim1, self.Images[Index].Dim2 if Size[0] == 0: Size[0] = sizex - Pos[0] if Size[1] == 0: Size[1] = sizey - Pos[1] # print len(range(Pos[1],Pos[1]+Size[1])), "LECTURES OF ", Size[0], "POINTS" # print "sizex = ", sizex, "sizey = ", sizey Data = numpy.zeros((Size[1], Size[0]), type_) dataindex = 0 for y in range(Pos[1], Pos[1] + Size[1]): self.File.seek((((y * sizex) + Pos[0]) * size_pixel) + self.Images[Index].DataPosition, 0) line = numpy.fromstring(self.File.read(Size[0] * size_pixel), type_) Data[dataindex, :] = line[:] # Data=numpy.concatenate((Data,line)) dataindex += 1 # print "DataSize = ",Data.shape # print "Requested reshape = ",Size[1],'x',Size[0] # Data = numpy.reshape(Data, (Size[1],Size[0])) elif self.Images[Index].NumDim == 3: if Pos is None: Pos = (0, 0, 0) if Size is None: Size = (0, 0, 0) Size = list(Size) sizex, sizey, sizez = self.Images[Index].Dim1, self.Images[Index].Dim2, self.Images[Index].Dim3 if Size[0] == 0: Size[0] = sizex - Pos[0] if Size[1] == 0: Size[1] = sizey - Pos[1] if Size[2] == 0: Size[2] = sizez - Pos[2] for z in range(Pos[2], Pos[2] + Size[2]): for y in range(Pos[1], Pos[1] + Size[1]): self.File.seek(((((z * sizey + y) * sizex) + Pos[0]) * size_pixel) + self.Images[Index].DataPosition, 0) line = numpy.fromstring(self.File.read(Size[0] * size_pixel), type_) Data = numpy.concatenate((Data, line)) Data = numpy.reshape(Data, (Size[2], Size[1], Size[0])) if self.SysByteOrder.upper() != self.Images[Index].ByteOrder.upper(): Data = Data.byteswap() if DataType != "": Data = self.__SetDataType__(Data, DataType) return Data def GetPixel(self, Index, Position): """ Returns double value of the pixel, regardless the format of the array Index: The zero-based index of the image in the file Position: Tuple with the coordinete (x), (x,y) or (x,y,z) """ if Index < 0 or Index >= self.NumImages: raise ValueError("EdfFile: Index out of limit") if len(Position) != self.Images[Index].NumDim: raise ValueError("EdfFile: coordinate with wrong dimension ") size_pixel = self.__GetSizeNumpyType__(self.__GetDefaultNumpyType__(self.Images[Index].DataType), index=Index) offset = Position[0] * size_pixel if self.Images[Index].NumDim > 1: size_row = size_pixel * self.Images[Index].Dim1 offset = offset + (Position[1] * size_row) if self.Images[Index].NumDim == 3: size_img = size_row * self.Images[Index].Dim2 offset = offset + (Position[2] * size_img) self.File.seek(self.Images[Index].DataPosition + offset, 0) Data = numpy.fromstring(self.File.read(size_pixel), self.__GetDefaultNumpyType__(self.Images[Index].DataType, index=Index)) if self.SysByteOrder.upper() != self.Images[Index].ByteOrder.upper(): Data = Data.byteswap() Data = self.__SetDataType__(Data, "DoubleValue") return Data[0] def GetHeader(self, Index): """ Returns dictionary with image header fields. Does not include the basic fields (static) defined by data shape, type and file position. These are get with GetStaticHeader method. Index: The zero-based index of the image in the file """ if Index < 0 or Index >= self.NumImages: raise ValueError("Index out of limit") # return self.Images[Index].Header ret = {} for i in self.Images[Index].Header.keys(): ret[i] = self.Images[Index].Header[i] return ret def GetStaticHeader(self, Index): """ Returns dictionary with static parameters Data format and file position dependent information (dim1,dim2,size,datatype,byteorder,headerId,Image) Index: The zero-based index of the image in the file """ if Index < 0 or Index >= self.NumImages: raise ValueError("Index out of limit") # return self.Images[Index].StaticHeader ret = {} for i in self.Images[Index].StaticHeader.keys(): ret[i] = self.Images[Index].StaticHeader[i] return ret def WriteImage(self, *var, **kw): try: self.__makeSureFileIsOpen() return self._WriteImage(*var, **kw) finally: self.__makeSureFileIsClosed() def _WriteImage(self, Header, Data, Append=1, DataType="", ByteOrder=""): """ Writes image to the file. Header: Dictionary containing the non-static header information (static information is generated according to position of image and data format Append: If equals to 0, overwrites the file. Otherwise, appends to the end of the file DataType: The data type to be saved to the file: SignedByte UnsignedByte SignedShort UnsignedShort SignedInteger UnsignedInteger SignedLong UnsignedLong FloatValue DoubleValue Default: according to Data array typecode: 1: SignedByte b: UnsignedByte s: SignedShort w: UnsignedShort i: SignedInteger l: SignedLong u: UnsignedLong f: FloatValue d: DoubleValue ByteOrder: Byte order of the data in file: HighByteFirst LowByteFirst Default: system's byte order """ if Append == 0: self.File.truncate(0) self.Images = [] self.NumImages = 0 Index = self.NumImages self.NumImages = self.NumImages + 1 self.Images.append(Image()) # self.Images[Index].StaticHeader["Dim_1"] = "%d" % Data.shape[1] # self.Images[Index].StaticHeader["Dim_2"] = "%d" % Data.shape[0] scalarSize = self.__GetSizeNumpyType__(Data.dtype) if len(Data.shape) == 1: self.Images[Index].Dim1 = Data.shape[0] self.Images[Index].StaticHeader["Dim_1"] = "%d" % self.Images[Index].Dim1 self.Images[Index].Size = Data.shape[0] * scalarSize elif len(Data.shape) == 2: self.Images[Index].Dim1 = Data.shape[1] self.Images[Index].Dim2 = Data.shape[0] self.Images[Index].StaticHeader["Dim_1"] = "%d" % self.Images[Index].Dim1 self.Images[Index].StaticHeader["Dim_2"] = "%d" % self.Images[Index].Dim2 self.Images[Index].Size = Data.shape[0] * Data.shape[1] * scalarSize self.Images[Index].NumDim = 2 elif len(Data.shape) == 3: self.Images[Index].Dim1 = Data.shape[2] self.Images[Index].Dim2 = Data.shape[1] self.Images[Index].Dim3 = Data.shape[0] self.Images[Index].StaticHeader["Dim_1"] = "%d" % self.Images[Index].Dim1 self.Images[Index].StaticHeader["Dim_2"] = "%d" % self.Images[Index].Dim2 self.Images[Index].StaticHeader["Dim_3"] = "%d" % self.Images[Index].Dim3 self.Images[Index].Size = Data.shape[0] * Data.shape[1] * Data.shape[2] * scalarSize self.Images[Index].NumDim = 3 elif len(Data.shape) > 3: raise TypeError("EdfFile: Data dimension not suported") if DataType == "": self.Images[Index].DataType = self.__GetDefaultEdfType__(Data.dtype) else: self.Images[Index].DataType = DataType Data = self.__SetDataType__(Data, DataType) if ByteOrder == "": self.Images[Index].ByteOrder = self.SysByteOrder else: self.Images[Index].ByteOrder = ByteOrder self.Images[Index].StaticHeader["Size"] = "%d" % self.Images[Index].Size self.Images[Index].StaticHeader["Image"] = Index + 1 self.Images[Index].StaticHeader["HeaderID"] = "EH:%06d:000000:000000" % self.Images[Index].StaticHeader["Image"] self.Images[Index].StaticHeader["ByteOrder"] = self.Images[Index].ByteOrder self.Images[Index].StaticHeader["DataType"] = self.Images[Index].DataType self.Images[Index].Header = {} self.File.seek(0, 2) StrHeader = "{\n" for i in STATIC_HEADER_ELEMENTS: if i in self.Images[Index].StaticHeader.keys(): StrHeader = StrHeader + ("%s = %s ;\n" % (i, self.Images[Index].StaticHeader[i])) for i in Header.keys(): StrHeader = StrHeader + ("%s = %s ;\n" % (i, Header[i])) self.Images[Index].Header[i] = Header[i] newsize = (((len(StrHeader) + 1) / HEADER_BLOCK_SIZE) + 1) * HEADER_BLOCK_SIZE - 2 newsize = int(newsize) StrHeader = StrHeader.ljust(newsize) StrHeader = StrHeader + "}\n" self.Images[Index].HeaderPosition = self.File.tell() self.File.write(StrHeader.encode()) self.Images[Index].DataPosition = self.File.tell() # if self.Images[Index].StaticHeader["ByteOrder"] != self.SysByteOrder: if self.Images[Index].ByteOrder.upper() != self.SysByteOrder.upper(): self.File.write((Data.byteswap()).tostring()) else: self.File.write(Data.tostring()) def __makeSureFileIsOpen(self): if DEBUG: print("Making sure file is open") if not self.__ownedOpen: return if self.ADSC or self.MARCCD or self.PILATUS_CBF or self.SPE: if DEBUG: print("Special case. Image is buffered") return if self.File in [0, None]: if DEBUG: print("File is None") elif self.File.closed: if DEBUG: print("Reopening closed file") accessMode = self.File.mode fileName = self.File.name newFile = open(fileName, accessMode) self.File = newFile return def __makeSureFileIsClosed(self): if DEBUG: print("Making sure file is closed") if not self.__ownedOpen: return if self.ADSC or self.MARCCD or self.PILATUS_CBF or self.SPE: if DEBUG: print("Special case. Image is buffered") return if self.File in [0, None]: if DEBUG: print("File is None") elif not self.File.closed: if DEBUG: print("Closing file") self.File.close() return def __GetDefaultNumpyType__(self, EdfType, index=None): """ Internal method: returns NumPy type according to Edf type """ return self.GetDefaultNumpyType(EdfType, index) def __GetDefaultEdfType__(self, NumpyType): """ Internal method: returns Edf type according Numpy type """ if NumpyType in ["b", numpy.int8]: return "SignedByte" elif NumpyType in ["B", numpy.uint8]: return "UnsignedByte" elif NumpyType in ["h", numpy.int16]: return "SignedShort" elif NumpyType in ["H", numpy.uint16]: return "UnsignedShort" elif NumpyType in ["i", numpy.int32]: return "SignedInteger" elif NumpyType in ["I", numpy.uint32]: return "UnsignedInteger" elif NumpyType == "l": if sys.platform == 'linux2': return "Signed64" else: return "SignedLong" elif NumpyType == "L": if sys.platform == 'linux2': return "Unsigned64" else: return "UnsignedLong" elif NumpyType == numpy.int64: return "Signed64" elif NumpyType == numpy.uint64: return "Unsigned64" elif NumpyType in ["f", numpy.float32]: return "FloatValue" elif NumpyType in ["d", numpy.float64]: return "DoubleValue" else: raise TypeError("unknown NumpyType %s" % NumpyType) def __GetSizeNumpyType__(self, NumpyType): """ Internal method: returns size of NumPy's Array Types """ if NumpyType in ["b", numpy.int8]: return 1 elif NumpyType in ["B", numpy.uint8]: return 1 elif NumpyType in ["h", numpy.int16]: return 2 elif NumpyType in ["H", numpy.uint16]: return 2 elif NumpyType in ["i", numpy.int32]: return 4 elif NumpyType in ["I", numpy.uint32]: return 4 elif NumpyType == "l": if sys.platform == 'linux2': return 8 # 64 bit else: return 4 # 32 bit elif NumpyType == "L": if sys.platform == 'linux2': return 8 # 64 bit else: return 4 # 32 bit elif NumpyType in ["f", numpy.float32]: return 4 elif NumpyType in ["d", numpy.float64]: return 8 elif NumpyType == "Q": return 8 # unsigned 64 in 32 bit elif NumpyType == "q": return 8 # signed 64 in 32 bit elif NumpyType == numpy.uint64: return 8 elif NumpyType == numpy.int64: return 8 else: raise TypeError("unknown NumpyType %s" % NumpyType) def __SetDataType__(self, Array, DataType): """ Internal method: array type convertion """ # AVOID problems not using FromEdfType= Array.dtype.char FromEdfType = Array.dtype ToEdfType = self.__GetDefaultNumpyType__(DataType) if ToEdfType != FromEdfType: aux = Array.astype(self.__GetDefaultNumpyType__(DataType)) return aux return Array def __del__(self): try: self.__makeSureFileIsClosed() except: pass def GetDefaultNumpyType(self, EdfType, index=None): """ Returns NumPy type according Edf type """ if index is None: return GetDefaultNumpyType(EdfType) EdfType = EdfType.upper() if EdfType in ['SIGNED64']: return numpy.int64 if EdfType in ['UNSIGNED64']: return numpy.uint64 if EdfType in ["SIGNEDLONG", "UNSIGNEDLONG"]: dim1 = 1 dim2 = 1 dim3 = 1 if hasattr(self.Images[index], "Dim1"): dim1 = self.Images[index].Dim1 if hasattr(self.Images[index], "Dim2"): dim2 = self.Images[index].Dim2 if dim2 <= 0: dim2 = 1 if hasattr(self.Images[index], "Dim3"): dim3 = self.Images[index].Dim3 if dim3 <= 0: dim3 = 1 if hasattr(self.Images[index], "Size"): size = self.Images[index].Size if size / (dim1 * dim2 * dim3) == 8: if EdfType == "UNSIGNEDLONG": return numpy.uint64 else: return numpy.int64 if EdfType == "UNSIGNEDLONG": return numpy.uint32 else: return numpy.int32 return GetDefaultNumpyType(EdfType) def GetDefaultNumpyType(EdfType): """ Returns NumPy type according Edf type """ EdfType = EdfType.upper() if EdfType == "SIGNEDBYTE": return numpy.int8 # "b" elif EdfType == "UNSIGNEDBYTE": return numpy.uint8 # "B" elif EdfType == "SIGNEDSHORT": return numpy.int16 # "h" elif EdfType == "UNSIGNEDSHORT": return numpy.uint16 # "H" elif EdfType == "SIGNEDINTEGER": return numpy.int32 # "i" elif EdfType == "UNSIGNEDINTEGER": return numpy.uint32 # "I" elif EdfType == "SIGNEDLONG": return numpy.int32 # "i" #ESRF acquisition is made in 32bit elif EdfType == "UNSIGNEDLONG": return numpy.uint32 # "I" #ESRF acquisition is made in 32bit elif EdfType == "SIGNED64": return numpy.int64 # "l" elif EdfType == "UNSIGNED64": return numpy.uint64 # "L" elif EdfType == "FLOATVALUE": return numpy.float32 # "f" elif EdfType == "FLOAT": return numpy.float32 # "f" elif EdfType == "DOUBLEVALUE": return numpy.float64 # "d" else: raise TypeError("unknown EdfType %s" % EdfType) def SetDictCase(Dict, Case, Flag): """ Returns dictionary with keys and/or values converted into upper or lowercase Dict: input dictionary Case: LOWER_CASE, UPPER_CASE Flag: KEYS, VALUES or KEYS | VALUES """ newdict = {} for i in Dict.keys(): newkey = i newvalue = Dict[i] if Flag & KEYS: if Case == LOWER_CASE: newkey = newkey.lower() else: newkey = newkey.upper() if Flag & VALUES: if Case == LOWER_CASE: newvalue = newvalue.lower() else: newvalue = newvalue.upper() newdict[newkey] = newvalue return newdict def GetRegion(Arr, Pos, Size): """Returns array with refion of Arr. Arr must be 1d, 2d or 3d Pos and Size are tuples in the format (x) or (x,y) or (x,y,z) Both parameters must have the same size as the dimention of Arr """ Dim = len(Arr.shape) if len(Pos) != Dim: return None if len(Size) != Dim: return None if (Dim == 1): SizeX = Size[0] if SizeX == 0: SizeX = Arr.shape[0] - Pos[0] ArrRet = numpy.take(Arr, range(Pos[0], Pos[0] + SizeX)) elif (Dim == 2): SizeX = Size[0] SizeY = Size[1] if SizeX == 0: SizeX = Arr.shape[1] - Pos[0] if SizeY == 0: SizeY = Arr.shape[0] - Pos[1] ArrRet = numpy.take(Arr, range(Pos[1], Pos[1] + SizeY)) ArrRet = numpy.take(ArrRet, range(Pos[0], Pos[0] + SizeX), 1) elif (Dim == 3): SizeX = Size[0] SizeY = Size[1] SizeZ = Size[2] if SizeX == 0: SizeX = Arr.shape[2] - Pos[0] if SizeY == 0: SizeX = Arr.shape[1] - Pos[1] if SizeZ == 0: SizeZ = Arr.shape[0] - Pos[2] ArrRet = numpy.take(Arr, range(Pos[2], Pos[2] + SizeZ)) ArrRet = numpy.take(ArrRet, range(Pos[1], Pos[1] + SizeY), 1) ArrRet = numpy.take(ArrRet, range(Pos[0], Pos[0] + SizeX), 2) else: ArrRet = None return ArrRet if __name__ == "__main__": if 1: a = numpy.zeros((5, 10)) for i in range(5): for j in range(10): a[i, j] = 10 * i + j edf = EdfFile("armando.edf", access="ab+") edf.WriteImage({}, a) del edf # force to close the file inp = EdfFile("armando.edf") b = inp.GetData(0) out = EdfFile("armando2.edf") out.WriteImage({}, b) del out # force to close the file inp2 = EdfFile("armando2.edf") c = inp2.GetData(0) print("A SHAPE = ", a.shape) print("B SHAPE = ", b.shape) print("C SHAPE = ", c.shape) for i in range(5): print("A", a[i, :]) print("B", b[i, :]) print("C", c[i, :]) x = numpy.arange(100) x.shape = 5, 20 for item in ["SignedByte", "UnsignedByte", "SignedShort", "UnsignedShort", "SignedLong", "UnsignedLong", "Signed64", "Unsigned64", "FloatValue", "DoubleValue"]: fname = item + ".edf" if os.path.exists(fname): os.remove(fname) towrite = EdfFile(fname) towrite.WriteImage({}, x, DataType=item, Append=0) sys.exit(0) # Creates object based on file exe.edf exe = EdfFile("images/test_image.edf") x = EdfFile("images/test_getdata.edf") # Gets unsigned short data, storing in an signed long arr = exe.GetData(0, Pos=(100, 200), Size=(200, 400)) x.WriteImage({}, arr, 0) arr = exe.GetData(0, Pos=(100, 200)) x.WriteImage({}, arr) arr = exe.GetData(0, Size=(200, 400)) x.WriteImage({}, arr) arr = exe.GetData(0) x.WriteImage({}, arr) sys.exit() # Creates object based on file exe.edf exe = EdfFile("images/.edf") # Creates long array , filled with 0xFFFFFFFF(-1) la = numpy.zeros((100, 100)) la = la - 1 # Creates a short array, filled with 0xFFFF sa = numpy.zeros((100, 100)) sa = sa + 0xFFFF sa = sa.astype("s") # Writes long array, initializing file (append=0) exe.WriteImage({}, la, 0, "") # Appends short array with new header items exe.WriteImage({'Name': 'Alexandre', 'Date': '16/07/2001'}, sa) # Appends short array, in Edf type unsigned exe.WriteImage({}, sa, DataType="UnsignedShort") # Appends short array, in Edf type unsigned exe.WriteImage({}, sa, DataType="UnsignedLong") # Appends long array as a double, considering unsigned exe.WriteImage({}, la, DataType="DoubleValue", WriteAsUnsigened=1) # Gets unsigned short data, storing in an signed long ushort = exe.GetData(2, "SignedLong") # Makes an operation ushort = ushort - 0x10 # Saves Result as signed long exe.WriteImage({}, ushort) # Saves in the original format (unsigned short) OldHeader = exe.GetStaticHeader(2) exe.WriteImage({}, ushort, 1, OldHeader["DataType"]) silx-0.6.1/silx/third_party/__init__.py0000644023630100076410000000254613202530306020563 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["Jérôme Kieffer"] __license__ = "MIT" __date__ = "09/10/2015" silx-0.6.1/silx/third_party/setup.py0000644023630100076410000000366713202530432020171 0ustar knobelusers00000000000000# coding: ascii # # JK: Numpy.distutils which imports this does not handle utf-8 in version<1.12 # # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["Valentin Valls"] __license__ = "MIT" __date__ = "26/04/2017" import os from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('third_party', parent_package, top_path) # includes _local only if it is available local_path = os.path.join(top_path, parent_package, "third_party", "_local") if os.path.exists(local_path): config.add_subpackage('_local') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/__init__.py0000644023630100076410000000363113202530432016226 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ from __future__ import absolute_import, print_function, division __authors__ = ["Jérôme Kieffer"] __license__ = "MIT" __date__ = "23/05/2016" import os as _os import logging as _logging # Attach a do nothing logging handler for silx _logging.getLogger(__name__).addHandler(_logging.NullHandler()) project = _os.path.basename(_os.path.dirname(_os.path.abspath(__file__))) try: from ._version import __date__ as date # noqa from ._version import version, version_info, hexversion, strictversion # noqa except ImportError: raise RuntimeError("Do NOT use %s from its sources: build it and use the built version" % project) silx-0.6.1/silx/resources/0000755023630100076410000000000013202537043016131 5ustar knobelusers00000000000000silx-0.6.1/silx/resources/opencl/0000755023630100076410000000000013202537043017411 5ustar knobelusers00000000000000silx-0.6.1/silx/resources/opencl/backproj_helper.cl0000644023630100076410000000440513202530432023061 0ustar knobelusers00000000000000/* * Project: silx: backprojection helper functions * * Copyright (C) 2016-2017 European Synchrotron Radiation Facility * Grenoble, France * * Principal authors: P. Paleo * J. Kieffer (kieffer@esrf.fr) * * Permission is hereby granted, free of charge, to any person * obtaining a copy of this software and associated documentation * files (the "Software"), to deal in the Software without * restriction, including without limitation the rights to use, * copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the * Software is furnished to do so, subject to the following * conditions: * * The above copyright notice and this permission notice shall be * included in all copies or substantial portions of the Software. * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES * OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND * NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT * HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, * WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING * FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR * OTHER DEALINGS IN THE SOFTWARE. */ kernel void mult( global float2* d_sino, global float2* d_filter, int num_bins, int num_projs) { int gid0 = get_global_id(0); int gid1 = get_global_id(1); if (gid0 < num_bins && gid1 < num_projs) { // d_sino[gid1*num_bins+gid0] *= d_filter[gid0]; d_sino[gid1*num_bins+gid0].x *= d_filter[gid0].x; d_sino[gid1*num_bins+gid0].y *= d_filter[gid0].x; } } // copy only the real part of the valid data to the real array kernel void cpy2d_c2r( global float* d_sino, global float2* d_sino_complex, int num_bins, int num_projs, int fft_size) { int gid0 = get_global_id(0); int gid1 = get_global_id(1); if (gid0 < num_bins && gid1 < num_projs) { d_sino[gid1*num_bins+gid0] = d_sino_complex[gid1*fft_size+gid0].x; } } silx-0.6.1/silx/resources/opencl/linalg.cl0000644023630100076410000000544413202530432021201 0ustar knobelusers00000000000000/* * Copyright (C) 2017 European Synchrotron Radiation Facility * Grenoble, France * * * Permission is hereby granted, free of charge, to any person obtaining a copy * of this software and associated documentation files (the "Software"), to deal * in the Software without restriction, including without limitation the rights * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the Software is * furnished to do so, subject to the following conditions: * * The above copyright notice and this permission notice shall be included in * all copies or substantial portions of the Software. * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN * THE SOFTWARE. * */ /** * * Compute the spatial gradient of an image. * * slice: input image * slice_grad: output gradient * sizeX: number of columns of the image * sizeY: number of rows of the image * **/ __kernel void kern_gradient2D( __global float* slice, __global float2* slice_grad, int sizeX, int sizeY) { uint gidx = get_global_id(0); uint gidy = get_global_id(1); float val_x = 0, val_y = 0; if (gidx < sizeX && gidy < sizeY) { if (gidx == sizeX-1) val_y = 0; else val_y = slice[(gidy)*sizeX+gidx+1] - slice[(gidy)*sizeX+gidx]; if (gidy == sizeY-1) val_x = 0; else val_x = slice[(gidy+1)*sizeX+gidx] - slice[(gidy)*sizeX+gidx]; slice_grad[(gidy)*sizeX+gidx].x = val_x; slice_grad[(gidy)*sizeX+gidx].y = val_y; } } /** * * Compute the spatial divergence of an image gradient. * * slice_grad: input gradient-like image * slice: output image * sizeX: number of columns of the input * sizeY: number of rows of the input * **/ __kernel void kern_divergence2D( __global float2* slice_grad, __global float* slice, int sizeX, int sizeY) { uint gidx = get_global_id(0); uint gidy = get_global_id(1); float val_x = 0, val_y = 0; if (gidx < sizeX && gidy < sizeY) { if (gidx == 0) val_y = slice_grad[(gidy)*sizeX+gidx].y; else val_y = slice_grad[(gidy)*sizeX+gidx].y - slice_grad[(gidy)*sizeX+gidx-1].y; if (gidy == 0) val_x = slice_grad[(gidy)*sizeX+gidx].x; else val_x = slice_grad[(gidy)*sizeX+gidx].x - slice_grad[(gidy-1)*sizeX+gidx].x; slice[(gidy)*sizeX+gidx] = val_x + val_y; } } silx-0.6.1/silx/resources/opencl/proj.cl0000644023630100076410000002707713202530432020713 0ustar knobelusers00000000000000/* * Copyright (C) 2017-2017 European Synchrotron Radiation Facility * Grenoble, France * * Based on the projector of PyHST2 - https://forge.epn-campus.eu/projects/pyhst2 * * Permission is hereby granted, free of charge, to any person obtaining a copy * of this software and associated documentation files (the "Software"), to deal * in the Software without restriction, including without limitation the rights * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the Software is * furnished to do so, subject to the following conditions: * * The above copyright notice and this permission notice shall be included in * all copies or substantial portions of the Software. * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN * THE SOFTWARE. * */ /*******************************************************************************/ /************************ GPU VERSION (with textures) **************************/ /*******************************************************************************/ kernel void forward_kernel( global float *d_Sino, read_only image2d_t d_slice, int dimslice, int num_bins, global float* angles_per_project , float axis_position, global float *d_axis_corrections, global int* d_beginPos , global int* d_strideJoseph, global int* d_strideLine , int num_projections, int dimrecx, int dimrecy, float cpu_offset_x, float cpu_offset_y, int josephnoclip, int normalize) { const sampler_t sampler = CLK_NORMALIZED_COORDS_FALSE | CLK_ADDRESS_CLAMP_TO_EDGE | CLK_FILTER_LINEAR; const int tidx = get_local_id(0); const int bidx = get_group_id(0); const int tidy = get_local_id(1); const int bidy = get_group_id(1); float angle; float cos_angle,sin_angle ; local float corrections[16]; local int beginPos[16*2]; local int strideJoseph[16*2]; local int strideLine[16*2]; // thread will use corrections[tidy] // All are read by first warp int offset, OFFSET; switch(tidy) { case 0: corrections[ tidx ]= d_axis_corrections[ bidy*16+tidx]; break; case 1: case 2: offset = 16*(tidy-1); OFFSET = dimrecy*(tidy-1); beginPos [offset + tidx ]= d_beginPos[ OFFSET+ bidy*16+tidx] ; break; case 3: case 4: offset = 16*(tidy-3); OFFSET = dimrecy*(tidy-3); strideJoseph[offset + tidx ]= d_strideJoseph[OFFSET + bidy*16+tidx] ; break; case 5: case 6: offset = 16*(tidy-5); OFFSET = dimrecy*(tidy-5); strideLine[offset + tidx ]= d_strideLine[OFFSET + bidy*16+tidx] ; break; } barrier(CLK_LOCAL_MEM_FENCE); angle = angles_per_project[ bidy*16+tidy ] ; cos_angle = cos(angle); sin_angle = sin(angle); if(fabs(cos_angle) > 0.70710678f ) { if( cos_angle>0) { cos_angle = cos(angle); sin_angle = sin(angle); } else { cos_angle = -cos(angle); sin_angle = -sin(angle); } } else { if( sin_angle>0) { cos_angle = sin(angle); sin_angle = -cos(angle); } else { cos_angle = -sin(angle); sin_angle = cos(angle); } } float res=0.0f; float axis_corr = axis_position + corrections[ tidy ]; float axis = axis_position ; float xpix = ( bidx*16+tidx )-cpu_offset_x; float posx = axis*(1.0f-sin_angle/cos_angle ) +(xpix-(axis_corr) )/cos_angle ; float shiftJ = sin_angle/cos_angle; float x1 = min(-sin_angle/cos_angle ,0.f); float x2 = max(-sin_angle/cos_angle ,0.f); float Area; Area=1.0f/cos_angle; int stlA, stlB , stlAJ, stlBJ ; stlA=strideLine[16+tidy]; stlB=strideLine[tidy]; stlAJ=strideJoseph[16+tidy]; stlBJ=strideJoseph[tidy]; int beginA = beginPos[16+tidy ]; int beginB = beginPos[tidy ]; float add; int l; if(josephnoclip) { for(int j=0; j=0.0f )*(x1<(dimslice+2))*( x2>=0.0f)*( x2<(dimslice+2) ) ; add = read_imagef(d_slice, sampler, (float2) (x1, x2)).x; // add = tex2D(texSlice, x1,x2); res += add*l; posx += shiftJ; } } if((bidy*16 + tidy) < num_projections && (bidx*16 + tidx) < num_bins) { res *= Area; if (normalize) res *= M_PI_F * 0.5f / num_projections; d_Sino[dimrecx*(bidy*16 + tidy) + (bidx*16 + tidx)] = res; } } /*******************************************************************************/ /********************* CPU VERSION (without textures) **************************/ /*******************************************************************************/ kernel void forward_kernel_cpu( global float *d_Sino, global float* d_slice, int dimslice, int num_bins, global float* angles_per_project , float axis_position, global float *d_axis_corrections, global int* d_beginPos , global int* d_strideJoseph, global int* d_strideLine , int num_projections, int dimrecx, int dimrecy, float cpu_offset_x, float cpu_offset_y, int josephnoclip, int normalize) { const int tidx = get_local_id(0); const int bidx = get_group_id(0); const int tidy = get_local_id(1); const int bidy = get_group_id(1); float angle; float cos_angle,sin_angle ; local float corrections[16]; local int beginPos[16*2]; local int strideJoseph[16*2]; local int strideLine[16*2]; // thread will use corrections[tidy] // All are read by first warp int offset, OFFSET; switch(tidy) { case 0: corrections[ tidx ]= d_axis_corrections[ bidy*16+tidx]; break; case 1: case 2: offset = 16*(tidy-1); OFFSET = dimrecy*(tidy-1); beginPos [offset + tidx ]= d_beginPos[ OFFSET+ bidy*16+tidx] ; break; case 3: case 4: offset = 16*(tidy-3); OFFSET = dimrecy*(tidy-3); strideJoseph[offset + tidx ]= d_strideJoseph[OFFSET + bidy*16+tidx] ; break; case 5: case 6: offset = 16*(tidy-5); OFFSET = dimrecy*(tidy-5); strideLine[offset + tidx ]= d_strideLine[OFFSET + bidy*16+tidx] ; break; } barrier(CLK_LOCAL_MEM_FENCE); angle = angles_per_project[ bidy*16+tidy ] ; cos_angle = cos(angle); sin_angle = sin(angle); if(fabs(cos_angle) > 0.70710678f ) { if( cos_angle>0) { cos_angle = cos(angle); sin_angle = sin(angle); } else { cos_angle = -cos(angle); sin_angle = -sin(angle); } } else { if( sin_angle>0) { cos_angle = sin(angle); sin_angle = -cos(angle); } else { cos_angle = -sin(angle); sin_angle = cos(angle); } } float res=0.0f; float axis_corr = axis_position + corrections[ tidy ]; float axis = axis_position ; float xpix = ( bidx*16+tidx )-cpu_offset_x; float posx = axis*(1.0f-sin_angle/cos_angle ) +(xpix-(axis_corr) )/cos_angle ; float shiftJ = sin_angle/cos_angle; float x1 = min(-sin_angle/cos_angle ,0.f); float x2 = max(-sin_angle/cos_angle ,0.f); float Area; Area=1.0f/cos_angle; int stlA, stlB , stlAJ, stlBJ ; stlA=strideLine[16+tidy]; stlB=strideLine[tidy]; stlAJ=strideJoseph[16+tidy]; stlBJ=strideJoseph[tidy]; int beginA = beginPos[16+tidy ]; int beginB = beginPos[tidy ]; int l; int ym, yp, xm, xp; float yc, xc; float val; if(josephnoclip) { for(int j=0; j=0.0f )*(x1<(dimslice+2))*( x2>=0.0f)*( x2<(dimslice+2) ) ; /* Bilinear interpolation */ yc = fmin(fmax(x2, 0.0f), ((dimslice+2) - 1.0f)); // y_clipped ym = (int) floor(yc); // y_minus yp = (int) ceil(yc); // y_plus xc = fmin(fmax(x1, 0.0f), ((dimslice+2) - 1.0f)); // x_clipped xm = (int) floor(xc); // x_minus xp = (int) ceil(xc); // x_plus if ((ym == yp) && (xm == xp)) val = d_slice[ym*(dimslice+2) + xm]; else if (ym == yp) val = (d_slice[ym*(dimslice+2) + xm] * (xp - xc)) + (d_slice[ym*(dimslice+2) + xp] * (xc - xm)); else if (xm == xp) val = (d_slice[ym*(dimslice+2) + xm] * (yp - yc)) + (d_slice[yp*(dimslice+2) + xm] * (yc - ym)); else val = (d_slice[ym*(dimslice+2) + xm] * (yp - yc) * (xp - xc)) + (d_slice[yp*(dimslice+2) + xm] * (yc - ym) * (xp - xc)) + (d_slice[ym*(dimslice+2) + xp] * (yp - yc) * (xc - xm)) + (d_slice[yp*(dimslice+2) + xp] * (yc - ym) * (xc - xm)); // ---------- res += val*l; posx += shiftJ; } } if((bidy*16 + tidy) < num_projections && (bidx*16 + tidx) < num_bins) { res *= Area; if (normalize) res *= M_PI_F * 0.5f / num_projections; d_Sino[dimrecx*(bidy*16 + tidy) + (bidx*16 + tidx)] = res; } } silx-0.6.1/silx/resources/opencl/preprocess.cl0000644023630100076410000005407313202530432022122 0ustar knobelusers00000000000000/* * Project: Azimuthal regroupping OpenCL kernel for PyFAI. * Preprocessing program * * * Copyright (C) 2012-2017 European Synchrotron Radiation Facility * Grenoble, France * * Principal authors: J. Kieffer (kieffer@esrf.fr) * Last revision: 19/01/2017 * * Permission is hereby granted, free of charge, to any person obtaining a copy * of this software and associated documentation files (the "Software"), to deal * in the Software without restriction, including without limitation the rights * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the Software is * furnished to do so, subject to the following conditions: * * The above copyright notice and this permission notice shall be included in * all copies or substantial portions of the Software. * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN * THE SOFTWARE. */ /** * \file * * \brief OpenCL kernels for image array casting, array mem-setting and normalizing * * Constant to be provided at build time: * NIMAGE: size of the image * */ #include "for_eclipse.h" /** * \brief cast values of an array of int8 into a float output array. * * - array_s8: Pointer to global memory with the input data as signed8 array * - array_float: Pointer to global memory with the output data as float array */ __kernel void s8_to_float(__global char *array_s8, __global float *array_float ) { int i = get_global_id(0); //Global memory guard for padding if (i < NIMAGE) array_float[i] = (float)array_s8[i]; } /** * \brief cast values of an array of uint8 into a float output array. * * - array_u8: Pointer to global memory with the input data as unsigned8 array * - array_float: Pointer to global memory with the output data as float array */ __kernel void u8_to_float(__global unsigned char *array_u8, __global float *array_float ) { int i = get_global_id(0); //Global memory guard for padding if (i < NIMAGE) array_float[i] = (float)array_u8[i]; } /** * \brief cast values of an array of int16 into a float output array. * * - array_s16: Pointer to global memory with the input data as signed16 array * - array_float: Pointer to global memory with the output data as float array */ __kernel void s16_to_float(__global short *array_s16, __global float *array_float ) { int i = get_global_id(0); //Global memory guard for padding if (i < NIMAGE) array_float[i] = (float)array_s16[i]; } /** * \brief cast values of an array of uint16 into a float output array. * * - array_u16: Pointer to global memory with the input data as unsigned16 array * - array_float: Pointer to global memory with the output data as float array */ __kernel void u16_to_float(__global unsigned short *array_u16, __global float *array_float ) { int i = get_global_id(0); //Global memory guard for padding if (i < NIMAGE) array_float[i] = (float)array_u16[i]; } /** * \brief cast values of an array of uint32 into a float output array. * * - array_u32: Pointer to global memory with the input data as unsigned32 array * - array_float: Pointer to global memory with the output data as float array */ __kernel void u32_to_float(__global unsigned int *array_u32, __global float *array_float ) { int i = get_global_id(0); //Global memory guard for padding if (i < NIMAGE) array_float[i] = (float)array_u32[i]; } /** * \brief convert values of an array of int32 into a float output array. * * - array_int: Pointer to global memory with the data as unsigned32 array * - array_float: Pointer to global memory with the data float array */ __kernel void s32_to_float(__global int *array_int, __global float *array_float ) { int i = get_global_id(0); //Global memory guard for padding if (i < NIMAGE) array_float[i] = (float)(array_int[i]); } /** * Functions to be called from an actual kernel. * \brief Performs the normalization of input image by dark subtraction, * variance is propagated to second member of the float3 * flatfield, solid angle, polarization and absorption are stored in * third member of the float3 returned. * * Invalid/Dummy pixels will all have the third-member set to 0, i.e. no weight * * - image Float pointer to global memory storing the input image. * - do_dark Bool/int: shall dark-current correction be applied ? * - dark Float pointer to global memory storing the dark image. * - do_flat Bool/int: shall flat-field correction be applied ? * - flat Float pointer to global memory storing the flat image. * - do_solidangle Bool/int: shall flat-field correction be applied ? * - solidangle Float pointer to global memory storing the solid angle of each pixel. * - do_polarization Bool/int: shall polarization correction be applied ? * - polarization Float pointer to global memory storing the polarization of each pixel. * - do_absorption Bool/int: shall absorption correction be applied ? * - absorption Float pointer to global memory storing the effective absoption of each pixel. * - do_mask perform mask correction ? * - mask Bool/char pointer to mask array * - do_dummy Bool/int: shall the dummy pixel be checked. Dummy pixel are pixels marked as bad and ignored * - dummy Float: value for bad pixels * - delta_dummy Float: precision for bad pixel value * - normalization_factor : divide the input by this value * **/ static float3 _preproc3(const __global float *image, const __global float *variance, const char do_dark, const __global float *dark, const char do_dark_variance, const __global float *dark_variance, const char do_flat, const __global float *flat, const char do_solidangle, const __global float *solidangle, const char do_polarization, const __global float *polarization, const char do_absorption, const __global float *absorption, const char do_mask, const __global char *mask, const char do_dummy, const float dummy, const float delta_dummy, const float normalization_factor) { size_t i= get_global_id(0); float3 result = (float3)(0.0, 0.0, 0.0); if (i < NIMAGE) { if ((!do_mask) || (!mask[i])) { result.s0 = image[i]; if (variance != 0) result.s1 = variance[i]; result.s2 = normalization_factor; if ( (!do_dummy) ||((delta_dummy != 0.0f) && (fabs(result.s0-dummy) > delta_dummy)) ||((delta_dummy == 0.0f) && (result.s0 != dummy))) { if (do_dark) result.s0 -= dark[i]; if (do_dark_variance) result.s1 += dark_variance[i]; if (do_flat) { float one_flat = flat[i]; if ( (!do_dummy) ||((delta_dummy != 0.0f) && (fabs(one_flat-dummy) > delta_dummy)) ||((delta_dummy == 0.0f) && (one_flat != dummy))) result.s2 *= one_flat; else result.s2 = 0.0f; } if (do_solidangle) result.s2 *= solidangle[i]; if (do_polarization) result.s2 *= polarization[i]; if (do_absorption) result.s2 *= absorption[i]; if (isnan(result.s0) || isnan(result.s1) || isnan(result.s2) || (result.s2 == 0.0f)) result = (float3)(0.0, 0.0, 0.0); } else { result = (float3)(0.0, 0.0, 0.0); }//end if do_dummy } // end if mask };//end if NIMAGE return result; };//end function /** * \brief Performs the normalization of input image by dark subtraction, * flatfield, solid angle, polarization and absorption division. * * Intensities of images are corrected by: * - dark (read-out) noise subtraction * - Solid angle correction (division) * - polarization correction (division) * - flat fiels correction (division) * Corrections are made in place unless the pixel is dummy. * Dummy pixels are left untouched so that they remain dummy * * - image Float pointer to global memory storing the input image. * - do_dark Bool/int: shall dark-current correction be applied ? * - dark Float pointer to global memory storing the dark image. * - do_flat Bool/int: shall flat-field correction be applied ? * - flat Float pointer to global memory storing the flat image. * - do_solidangle Bool/int: shall flat-field correction be applied ? * - solidangle Float pointer to global memory storing the solid angle of each pixel. * - do_polarization Bool/int: shall polarization correction be applied ? * - polarization Float pointer to global memory storing the polarization of each pixel. * - do_absorption Bool/int: shall absorption correction be applied ? * - absorption Float pointer to global memory storing the effective absoption of each pixel. * - do_mask perform mask correction ? * - mask Bool/char pointer to mask array * - do_dummy Bool/int: shall the dummy pixel be checked. Dummy pixel are pixels marked as bad and ignored * - dummy Float: value for bad pixels * - delta_dummy Float: precision for bad pixel value * - normalization_factor : divide the input by this value * **/ __kernel void corrections(const __global float *image, const char do_dark, const __global float *dark, const char do_flat, const __global float *flat, const char do_solidangle, const __global float *solidangle, const char do_polarization, const __global float *polarization, const char do_absorption, const __global float *absorption, const char do_mask, const __global char *mask, const char do_dummy, const float dummy, const float delta_dummy, const float normalization_factor, __global float *output ) { size_t i= get_global_id(0); float3 result = (float3)(0.0, 0.0, 0.0); if (i < NIMAGE) { result = _preproc3(image, 0, do_dark, dark, 0, 0, do_flat, flat, do_solidangle, solidangle, do_polarization, polarization, do_absorption, absorption, do_mask, mask, do_dummy, dummy, delta_dummy, normalization_factor); if (result.s2 != 0.0f) output[i] = result.s0 / result.s2; else output[i] = dummy; };//end if NIMAGE };//end kernel /** * \brief Performs Normalization of input image with float2 output (num,denom) * * Intensities of images are corrected by: * - dark (read-out) noise subtraction for the data * - Solid angle correction (denominator) * - polarization correction (denominator) * - flat fiels correction (denominator) * * Corrections are made out of place. * Dummy pixels set both the numerator and denominator to 0 * * - image Float pointer to global memory storing the input image. * - do_dark Bool/int: shall dark-current correction be applied ? * - dark Float pointer to global memory storing the dark image. * - do_flat Bool/int: shall flat-field correction be applied ? * - flat Float pointer to global memory storing the flat image. * - do_solidangle Bool/int: shall flat-field correction be applied ? * - solidangle Float pointer to global memory storing the solid angle of each pixel. * - do_polarization Bool/int: shall flat-field correction be applied ? * - polarization Float pointer to global memory storing the polarization of each pixel. * - do_dummy Bool/int: shall the dummy pixel be checked. Dummy pixel are pixels marked as bad and ignored * - dummy Float: value for bad pixels * - delta_dummy Float: precision for bad pixel value * - normalization_factor : divide the input by this value * * **/ __kernel void corrections2(const __global float *image, const char do_dark, const __global float *dark, const char do_flat, const __global float *flat, const char do_solidangle, const __global float *solidangle, const char do_polarization, const __global float *polarization, const char do_absorption, const __global float *absorption, const char do_mask, const __global char *mask, const char do_dummy, const float dummy, const float delta_dummy, const float normalization_factor, __global float2 *output ) { size_t i= get_global_id(0); float3 result = (float3)(0.0, 0.0, 0.0); if (i < NIMAGE) { result = _preproc3(image, 0, do_dark, dark, 0, 0, do_flat, flat, do_solidangle, solidangle, do_polarization, polarization, do_absorption, absorption, do_mask, mask, do_dummy, dummy, delta_dummy, normalization_factor); output[i] = (float2)(result.s0, result.s2); };//end if NIMAGE };//end kernel /** * \brief Performs Normalization of input image with float3 output (signal, variance, normalization) assuming poissonian signal * * Intensities of images are corrected by: * - dark (read-out) noise subtraction for the data * - Solid angle correction (denominator) * - polarization correction (denominator) * - flat fiels correction (denominator) * * Corrections are made out of place. * Dummy pixels set both the numerator and denominator to 0 * * - image Float pointer to global memory storing the input image. * - do_dark Bool/int: shall dark-current correction be applied ? * - dark Float pointer to global memory storing the dark image. * - do_flat Bool/int: shall flat-field correction be applied ? * - flat Float pointer to global memory storing the flat image. * - do_solidangle Bool/int: shall flat-field correction be applied ? * - solidangle Float pointer to global memory storing the solid angle of each pixel. * - do_polarization Bool/int: shall flat-field correction be applied ? * - polarization Float pointer to global memory storing the polarization of each pixel. * - do_dummy Bool/int: shall the dummy pixel be checked. Dummy pixel are pixels marked as bad and ignored * - dummy Float: value for bad pixels * - delta_dummy Float: precision for bad pixel value * - normalization_factor : divide the input by this value * * **/ __kernel void corrections3Poisson( const __global float *image, const char do_dark, const __global float *dark, const char do_flat, const __global float *flat, const char do_solidangle, const __global float *solidangle, const char do_polarization, const __global float *polarization, const char do_absorption, const __global float *absorption, const char do_mask, const __global char *mask, const char do_dummy, const float dummy, const float delta_dummy, const float normalization_factor, __global float3 *output ) { size_t i= get_global_id(0); float3 result = (float3)(0.0, 0.0, 0.0); if (i < NIMAGE) { result = _preproc3(image, image, do_dark, dark, do_dark, dark, do_flat, flat, do_solidangle, solidangle, do_polarization, polarization, do_absorption, absorption, do_mask, mask, do_dummy, dummy, delta_dummy, normalization_factor); output[i] = result; };//end if NIMAGE };//end kernel /** * \brief Performs Normalization of input image with float3 output (signal, variance, normalization) * * Intensities of images are corrected by: * - dark (read-out) noise subtraction for the data * - Solid angle correction (division) * - polarization correction (division) * - flat fiels correction (division) * Corrections are made in place unless the pixel is dummy. * Dummy pixels are left untouched so that they remain dummy * * - image Float pointer to global memory storing the input image. * - do_dark Bool/int: shall dark-current correction be applied ? * - dark Float pointer to global memory storing the dark image. * - do_flat Bool/int: shall flat-field correction be applied ? * - flat Float pointer to global memory storing the flat image. * - do_solidangle Bool/int: shall flat-field correction be applied ? * - solidangle Float pointer to global memory storing the solid angle of each pixel. * - do_polarization Bool/int: shall flat-field correction be applied ? * - polarization Float pointer to global memory storing the polarization of each pixel. * - do_dummy Bool/int: shall the dummy pixel be checked. Dummy pixel are pixels marked as bad and ignored * - dummy Float: value for bad pixels * - delta_dummy Float: precision for bad pixel value * - normalization_factor : divide the input by this value * * **/ __kernel void corrections3(const __global float *image, const __global float *variance, const char do_dark, const __global float *dark, const char do_dark_variance, const __global float *dark_variance, const char do_flat, const __global float *flat, const char do_solidangle, const __global float *solidangle, const char do_polarization, const __global float *polarization, const char do_absorption, const __global float *absorption, const char do_mask, const __global char *mask, const char do_dummy, const float dummy, const float delta_dummy, const float normalization_factor, __global float3 *output ) { size_t i= get_global_id(0); float3 result = (float3)(0.0, 0.0, 0.0); if (i < NIMAGE) { result = _preproc3( image, variance, do_dark, dark, do_dark_variance, dark_variance, do_flat, flat, do_solidangle, solidangle, do_polarization, polarization, do_absorption, absorption, do_mask, mask, do_dummy, dummy, delta_dummy, normalization_factor); output[i] = result; };//end if NIMAGE };//end kernel silx-0.6.1/silx/resources/opencl/bitonic.cl0000644023630100076410000004623113202530432021361 0ustar knobelusers00000000000000/*############################################################################ # Sort elements within a vector by Matthew Scarpino, # Taken from his book "OpenCL in Action", # November 2011 ISBN 9781617290176 # Original license for the code: "public domain" # # Originally this code is public domain. The MIT license has been added # by J. Kieffer (jerome.kieffer@esrf.eu) to provide a disclaimer. # J. Kieffer does not claim authorship of this code developed by . # # Copyright (c) 2011 Matthew Scarpino # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # #############################################################################*/ #define VECTOR_SORT_BOOK(input, dir) \ comp = abs(input > shuffle(input, mask2)) ^ dir; \ input = shuffle(input, comp * 2 + add2); \ comp = abs(input > shuffle(input, mask1)) ^ dir; \ input = shuffle(input, comp + add1); \ #define VECTOR_SWAP_BOOK(in1, in2, dir) \ input1 = in1; input2 = in2; \ comp = (abs(input1 > input2) ^ dir) * 4 + add3; \ in1 = shuffle2(input1, input2, comp); \ in2 = shuffle2(input2, input1, comp); \ // The _FILE extension correspond to the formula found in the "OpenCL in Action" supplementary files #define VECTOR_SORT_FILE(input, dir) \ comp = (input < shuffle(input, mask2)) ^ dir; \ input = shuffle(input, as_uint4(comp * 2 + add2)); \ comp = (input < shuffle(input, mask1)) ^ dir; \ input = shuffle(input, as_uint4(comp + add1)); \ #define VECTOR_SWAP_FILE(input1, input2, dir) \ temp = input1; \ comp = ((input1 < input2) ^ dir) * 4 + add3; \ input1 = shuffle2(input1, input2, as_uint4(comp)); \ input2 = shuffle2(input2, temp, as_uint4(comp)); \ // Functions to be called from an actual kernel. static float8 my_sort_file(uint local_id, uint group_id, uint local_size, float8 input, __local float4 *l_data){ float4 input1, input2, temp; float8 output; int dir; uint id, size, stride; int4 comp; uint4 mask1 = (uint4)(1, 0, 3, 2); uint4 mask2 = (uint4)(2, 3, 0, 1); uint4 mask3 = (uint4)(3, 2, 1, 0); int4 add1 = (int4)(1, 1, 3, 3); int4 add2 = (int4)(2, 3, 2, 3); int4 add3 = (int4)(1, 2, 2, 3); // retrieve input data input1 = (float4)(input.s0, input.s1, input.s2, input.s3); input2 = (float4)(input.s4, input.s5, input.s6, input.s7); // Find global address id = local_id * 2; /* Sort input 1 - ascending */ comp = input1 < shuffle(input1, mask1); input1 = shuffle(input1, as_uint4(comp + add1)); comp = input1 < shuffle(input1, mask2); input1 = shuffle(input1, as_uint4(comp * 2 + add2)); comp = input1 < shuffle(input1, mask3); input1 = shuffle(input1, as_uint4(comp + add3)); /* Sort input 2 - descending */ comp = input2 > shuffle(input2, mask1); input2 = shuffle(input2, as_uint4(comp + add1)); comp = input2 > shuffle(input2, mask2); input2 = shuffle(input2, as_uint4(comp * 2 + add2)); comp = input2 > shuffle(input2, mask3); input2 = shuffle(input2, as_uint4(comp + add3)); /* Swap corresponding elements of input 1 and 2 */ add3 = (int4)(4, 5, 6, 7); dir = - (int) (local_id % 2); temp = input1; comp = ((input1 < input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, as_uint4(comp)); input2 = shuffle2(input2, temp, as_uint4(comp)); /* Sort data and store in local memory */ VECTOR_SORT_FILE(input1, dir); VECTOR_SORT_FILE(input2, dir); l_data[id] = input1; l_data[id+1] = input2; /* Create bitonic set */ for(size = 2; size < local_size; size <<= 1) { dir = - (int) (local_id/size & 1) ; for(stride = size; stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = local_id + (local_id/stride)*stride; VECTOR_SWAP_FILE(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); id = local_id * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = ((input1 < input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, as_uint4(comp)); input2 = shuffle2(input2, temp, as_uint4(comp)); VECTOR_SORT_FILE(input1, dir); VECTOR_SORT_FILE(input2, dir); l_data[id] = input1; l_data[id+1] = input2; } /* Perform bitonic merge */ dir = - (int) (group_id % 2); for(stride = local_size; stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = local_id + (local_id/stride)*stride; VECTOR_SWAP_FILE(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); /* Perform final sort */ id = local_id * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = ((input1 < input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, as_uint4(comp)); input2 = shuffle2(input2, temp, as_uint4(comp)); VECTOR_SORT_FILE(input1, dir); VECTOR_SORT_FILE(input2, dir); // setup output and return it output = (float8)(input1, input2); return output; } static float8 my_sort_book(uint local_id, uint group_id, uint local_size, float8 input, __local float4 *l_data){ float4 input1, input2, temp; float8 output; uint4 comp, swap, mask1, mask2, add1, add2, add3; uint id, dir, size, stride; mask1 = (uint4)(1, 0, 3, 2); swap = (uint4)(0, 0, 1, 1); add1 = (uint4)(0, 0, 2, 2); mask2 = (uint4)(2, 3, 0, 1); add2 = (uint4)(0, 1, 0, 1); add3 = (uint4)(0, 1, 2, 3); // retrieve input data input1 = (float4)(input.s0, input.s1, input.s2, input.s3); input2 = (float4)(input.s4, input.s5, input.s6, input.s7); // Find global address id = local_id * 2; //Sort first vector comp = abs(input1 > shuffle(input1, mask1)); input1 = shuffle(input1, comp ^ swap + add1); comp = abs(input1 > shuffle(input1, mask2)); input1 = shuffle(input1, comp * 2 + add2); comp = abs(input1 > shuffle(input1, mask1)); input1 = shuffle(input1, comp + add1); //Sort second vector comp = abs(input2 < shuffle(input2, mask1)); input2 = shuffle(input2, comp ^ swap + add1); comp = abs(input2 < shuffle(input2, mask2)); input2 = shuffle(input2, comp * 2 + add2); comp = abs(input2 < shuffle(input2, mask1)); input2 = shuffle(input2, comp + add1); // Swap elements dir = local_id % 2; temp = input1; comp = (abs(input1 > input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, comp); input2 = shuffle2(input2, temp, comp); VECTOR_SORT_BOOK(input1, dir); VECTOR_SORT_BOOK(input2, dir); l_data[id] = input1; l_data[id+1] = input2; // Perform upper stages for(size = 2; size < local_size; size <<= 1) { dir = local_id/size & 1; //Perform lower stages for(stride = size; stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = local_id + (local_id/stride)*stride; VECTOR_SWAP_BOOK(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); id = local_id * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = (abs(input1 > input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, comp); input2 = shuffle2(input2, temp, comp); VECTOR_SORT_BOOK(input1, dir); VECTOR_SORT_BOOK(input2, dir); l_data[id] = input1; l_data[id+1] = input2; } dir = group_id % 2; // Perform bitonic merge for(stride = local_size; stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = local_id + (local_id/stride)*stride; VECTOR_SWAP_BOOK(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); id = local_id * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = (abs(input1 > input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, comp); input2 = shuffle2(input2, temp, comp); VECTOR_SORT_BOOK(input1, dir); VECTOR_SORT_BOOK(input2, dir); // setup output and return it output = (float8)(input1, input2); return output; } ////////////// // Kernels ////////////// // Perform the sort on the whole array // dim0: wg=number_of_element/8 __kernel void bsort_all(__global float4 *g_data, __local float4 *l_data) { float4 input1, input2; float8 input, output; uint id, global_start; // Find global address id = get_local_id(0) * 2; global_start = get_group_id(0) * get_local_size(0) * 2 + id; input1 = g_data[global_start]; input2 = g_data[global_start+1]; input = (float8)(input1, input2); output = my_sort_file(get_local_id(0), get_group_id(0), get_local_size(0), input, l_data); input1 = (float4) (output.s0, output.s1, output.s2, output.s3); input2 = (float4) (output.s4, output.s5, output.s6, output.s7); g_data[global_start] = input1; g_data[global_start+1] = input2; } // Perform the sort along the horizontal axis of a 2D image // dim0 = y: wg=1 // dim1 = x: wg=number_of_element/8 __kernel void bsort_horizontal(__global float *g_data, __local float4 *l_data) { float8 input, output; uint id, global_start, offset; // Find global address offset = get_global_size(1)*get_global_id(0)*8; id = get_local_id(1) * 8; global_start = offset + get_group_id(1) * get_local_size(1) * 8 + id; input = (float8)(g_data[global_start ], g_data[global_start + 1], g_data[global_start + 2], g_data[global_start + 3], g_data[global_start + 4], g_data[global_start + 5], g_data[global_start + 6], g_data[global_start + 7]); output = my_sort_file(get_local_id(1), get_group_id(1), get_local_size(1), input, l_data); g_data[global_start ] = output.s0; g_data[global_start + 1] = output.s1; g_data[global_start + 2] = output.s2; g_data[global_start + 3] = output.s3; g_data[global_start + 4] = output.s4; g_data[global_start + 5] = output.s5; g_data[global_start + 6] = output.s6; g_data[global_start + 7] = output.s7; } // Perform the sort along the vertical axis // dim0 = y: wg=number_of_element/8 // dim1 = x: wg=1 // check if transposing +bsort_horizontal is not more efficient ? __kernel void bsort_vertical(__global float *g_data, __local float4 *l_data) { // we need to read 8 float position along the vertical axis float8 input, output; uint id, global_start, padding; // Find global address padding = get_global_size(1); id = get_local_id(0) * 8 * padding + get_global_id(1); global_start = get_group_id(0) * get_local_size(0) * 8 * padding + id; input = (float8)(g_data[global_start ], g_data[global_start + padding ], g_data[global_start + 2*padding], g_data[global_start + 3*padding], g_data[global_start + 4*padding], g_data[global_start + 5*padding], g_data[global_start + 6*padding], g_data[global_start + 7*padding]); output = my_sort_file(get_local_id(0), get_group_id(0), get_local_size(0), input, l_data); g_data[global_start ] = output.s0; g_data[global_start + padding ] = output.s1; g_data[global_start + 2*padding ] = output.s2; g_data[global_start + 3*padding ] = output.s3; g_data[global_start + 4*padding ] = output.s4; g_data[global_start + 5*padding ] = output.s5; g_data[global_start + 6*padding ] = output.s6; g_data[global_start + 7*padding ] = output.s7; } //Tested working reference kernel frm the book. This only works under Linux __kernel void bsort_book(__global float4 *g_data, __local float4 *l_data) { float4 input1, input2, temp; uint4 comp, swap, mask1, mask2, add1, add2, add3; uint id, dir, global_start, size, stride; mask1 = (uint4)(1, 0, 3, 2); swap = (uint4)(0, 0, 1, 1); add1 = (uint4)(0, 0, 2, 2); mask2 = (uint4)(2, 3, 0, 1); add2 = (uint4)(0, 1, 0, 1); add3 = (uint4)(0, 1, 2, 3); // Find global address id = get_local_id(0) * 2; global_start = get_group_id(0) * get_local_size(0) * 2 + id; //Sort first vector input1 = g_data[global_start]; input2 = g_data[global_start+1]; comp = abs(input1 > shuffle(input1, mask1)); input1 = shuffle(input1, comp ^ swap + add1); comp = abs(input1 > shuffle(input1, mask2)); input1 = shuffle(input1, comp * 2 + add2); comp = abs(input1 > shuffle(input1, mask1)); input1 = shuffle(input1, comp + add1); //Sort second vector comp = abs(input2 < shuffle(input2, mask1)); input2 = shuffle(input2, comp ^ swap + add1); comp = abs(input2 < shuffle(input2, mask2)); input2 = shuffle(input2, comp * 2 + add2); comp = abs(input2 < shuffle(input2, mask1)); input2 = shuffle(input2, comp + add1); // Swap elements dir = get_local_id(0) % 2; temp = input1; comp = (abs(input1 > input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, comp); input2 = shuffle2(input2, temp, comp); VECTOR_SORT_BOOK(input1, dir); VECTOR_SORT_BOOK(input2, dir); l_data[id] = input1; l_data[id+1] = input2; // Perform upper stages for(size = 2; size < get_local_size(0); size <<= 1) { dir = get_local_id(0)/size & 1; //Perform lower stages for(stride = size; stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) + (get_local_id(0)/stride)*stride; VECTOR_SWAP_BOOK(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = (abs(input1 > input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, comp); input2 = shuffle2(input2, temp, comp); VECTOR_SORT_BOOK(input1, dir); VECTOR_SORT_BOOK(input2, dir); l_data[id] = input1; l_data[id+1] = input2; } dir = get_group_id(0) % 2; // Perform bitonic merge for(stride = get_local_size(0); stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) + (get_local_id(0)/stride)*stride; VECTOR_SWAP_BOOK(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = (abs(input1 > input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, comp); input2 = shuffle2(input2, temp, comp); VECTOR_SORT_BOOK(input1, dir); VECTOR_SORT_BOOK(input2, dir); g_data[global_start] = input1; g_data[global_start+1] = input2; } //Tested working reference kernel from the addition files. This only works under any operating system /* Perform initial sort */ __kernel void bsort_file(__global float4 *g_data, __local float4 *l_data) { int dir; uint id, global_start, size, stride; float4 input1, input2, temp; int4 comp; uint4 mask1 = (uint4)(1, 0, 3, 2); uint4 mask2 = (uint4)(2, 3, 0, 1); uint4 mask3 = (uint4)(3, 2, 1, 0); int4 add1 = (int4)(1, 1, 3, 3); int4 add2 = (int4)(2, 3, 2, 3); int4 add3 = (int4)(1, 2, 2, 3); id = get_local_id(0) * 2; global_start = get_group_id(0) * get_local_size(0) * 2 + id; input1 = g_data[global_start]; input2 = g_data[global_start+1]; /* Sort input 1 - ascending */ comp = input1 < shuffle(input1, mask1); input1 = shuffle(input1, as_uint4(comp + add1)); comp = input1 < shuffle(input1, mask2); input1 = shuffle(input1, as_uint4(comp * 2 + add2)); comp = input1 < shuffle(input1, mask3); input1 = shuffle(input1, as_uint4(comp + add3)); /* Sort input 2 - descending */ comp = input2 > shuffle(input2, mask1); input2 = shuffle(input2, as_uint4(comp + add1)); comp = input2 > shuffle(input2, mask2); input2 = shuffle(input2, as_uint4(comp * 2 + add2)); comp = input2 > shuffle(input2, mask3); input2 = shuffle(input2, as_uint4(comp + add3)); /* Swap corresponding elements of input 1 and 2 */ add3 = (int4)(4, 5, 6, 7); dir = - (int)(get_local_id(0) % 2); temp = input1; comp = ((input1 < input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, as_uint4(comp)); input2 = shuffle2(input2, temp, as_uint4(comp)); /* Sort data and store in local memory */ VECTOR_SORT_FILE(input1, dir); VECTOR_SORT_FILE(input2, dir); l_data[id] = input1; l_data[id+1] = input2; /* Create bitonic set */ for(size = 2; size < get_local_size(0); size <<= 1) { dir = - (int)(get_local_id(0)/size & 1); for(stride = size; stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) + (get_local_id(0)/stride)*stride; VECTOR_SWAP_FILE(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = ((input1 < input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, as_uint4(comp)); input2 = shuffle2(input2, temp, as_uint4(comp)); VECTOR_SORT_FILE(input1, dir); VECTOR_SORT_FILE(input2, dir); l_data[id] = input1; l_data[id+1] = input2; } /* Perform bitonic merge */ dir = - (int)(get_group_id(0) % 2); for(stride = get_local_size(0); stride > 1; stride >>= 1) { barrier(CLK_LOCAL_MEM_FENCE); id = get_local_id(0) + (get_local_id(0)/stride)*stride; VECTOR_SWAP_FILE(l_data[id], l_data[id + stride], dir) } barrier(CLK_LOCAL_MEM_FENCE); /* Perform final sort */ id = get_local_id(0) * 2; input1 = l_data[id]; input2 = l_data[id+1]; temp = input1; comp = ((input1 < input2) ^ dir) * 4 + add3; input1 = shuffle2(input1, input2, as_uint4(comp)); input2 = shuffle2(input2, temp, as_uint4(comp)); VECTOR_SORT_FILE(input1, dir); VECTOR_SORT_FILE(input2, dir); g_data[global_start] = input1; g_data[global_start+1] = input2; } silx-0.6.1/silx/resources/opencl/medfilt.cl0000644023630100076410000001275513202530432021362 0ustar knobelusers00000000000000/* * Project: Azimuthal regroupping OpenCL kernel for PyFAI. * Median filter for 1D, 2D and 3D datasets, only 2D for now * * * Copyright (C) 2017-2017 European Synchrotron Radiation Facility * Grenoble, France * * Principal authors: J. Kieffer (kieffer@esrf.fr) * Last revision: 07/02/2017 * * Permission is hereby granted, free of charge, to any person obtaining a copy * of this software and associated documentation files (the "Software"), to deal * in the Software without restriction, including without limitation the rights * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the Software is * furnished to do so, subject to the following conditions: * * The above copyright notice and this permission notice shall be included in * all copies or substantial portions of the Software. * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN * THE SOFTWARE. * */ /* * Needs to be concatenated with bitonic.cl prior to compilation */ /* * Perform the 2D median filtering of an image 2D image * * dim0 => wg=number_of_element in the tile /8 * dim1 = x: wg=1 * * Actually the workgoup size is a bit more complicated: * if window size = 1,3,5,7: WG1=8 * if window size = 9,11,13,15: WG1=32 * if window size = 17, ...,21: WG1=64 * * More Generally the workgroup size must be: at least: kfs2*(kfs1+7)/8 * Each thread treats 8 values aligned vertically, this allows (almost) * coalesced reading between threads in one line of the tile. * * Later on it will be more efficient to re-use the same tile * and slide it vertically by one line. * The additionnal need for shared memory will be kfs2 floats and a float8 as register. * * Theoritically, it should be possible to handle up to windows-size 83x83 */ __kernel void medfilt2d(__global float *image, // input image __global float *result, // output array __local float4 *l_data,// local storage 4x the number of threads int khs1, // Kernel half-size along dim1 (nb lines) int khs2, // Kernel half-size along dim2 (nb columns) int height, // Image size along dim1 (nb lines) int width) // Image size along dim2 (nb columns) { int threadid = get_local_id(0); int wg = get_local_size(0); int x = get_global_id(1); if (x < width) { union { float ary[8]; float8 vec; } output, input; input.vec = (float8)(MAXFLOAT, MAXFLOAT, MAXFLOAT, MAXFLOAT, MAXFLOAT, MAXFLOAT, MAXFLOAT, MAXFLOAT); int kfs1 = 2 * khs1 + 1; //definition of kernel full size int kfs2 = 2 * khs2 + 1; int nbands = (kfs1 + 7) / 8; // 8 elements per thread, aligned vertically in 1 column for (int y=0; y=read) { barrier(CLK_LOCAL_MEM_FENCE); int ip = tidy*16+tidx; if( read+ip < num_proj) { sh_cos [ip] = d_cos_s[read+ip] ; sh_sin [ip] = d_sin_s[read+ip] ; sh_axis[ip] = d_axis_s[read+ip] ; } read=read+256; // 256=16*16 block size barrier(CLK_LOCAL_MEM_FENCE); } pcos = sh_cos[256-read + proj] ; psin = sh_sin[256-read + proj] ; acorr05 = sh_axis[256 - read + proj] ; h0 = (acorr05 + bx00*pcos - by00*psin); h1 = (acorr05 + (bx00+0)*pcos - (by00+1)*psin); h2 = (acorr05 + (bx00+1)*pcos - (by00+0)*psin); h3 = (acorr05 + (bx00+1)*pcos - (by00+1)*psin); if(h0>=0 && h0=0 && h1=0 && h2=0 && h3=read) { barrier(CLK_LOCAL_MEM_FENCE); int ip = tidy*16+tidx; if( read+ip < num_proj) { sh_cos [ip] = d_cos_s[read+ip] ; sh_sin [ip] = d_sin_s[read+ip] ; sh_axis[ip] = d_axis_s[read+ip] ; } read=read+256; // 256=16*16 block size barrier(CLK_LOCAL_MEM_FENCE); } pcos = sh_cos[256-read + proj] ; psin = sh_sin[256-read + proj] ; acorr05 = sh_axis[256 - read + proj] ; h0 = (acorr05 + bx00*pcos - by00*psin); h1 = (acorr05 + (bx00+0)*pcos - (by00+1)*psin); h2 = (acorr05 + (bx00+1)*pcos - (by00+0)*psin); h3 = (acorr05 + (bx00+1)*pcos - (by00+1)*psin); float x; int ym, xm, xp; ym = proj; float2 vals; if(h0>=0 && h0=0 && h1=0 && h2=0 && h3= Nx) adj_coords.s1 = Nx - 1; if (adj_coords.s2 < 0) adj_coords.s2 = 0; if (adj_coords.s3 >= Ny) adj_coords.s3 = Ny -1; if (adj_coords.s0 >= Nx) adj_coords.s0 = Nx - 1; if (adj_coords.s2 >= Ny) adj_coords.s2 = Ny -1; // Interp val = adj_vals.s1*(adj_coords.s1-x)*(y-adj_coords.s2) + adj_vals.s2 *(x-adj_coords.s0)*(y-adj_coords.s2) + adj_vals.s0 *(adj_coords.s1-x)*(adj_coords.s3-y) + adj_vals.s3 *(x-adj_coords.s0)*(adj_coords.s3-y); } return val; } */ /* __kernel void backproj_cpu_kernel_good( int num_proj, int num_bins, float axis_position, __global float *d_SLICE, __global float* d_sino, float gpu_offset_x, float gpu_offset_y, __global float * d_cos_s, // precalculated cos(theta[i]) __global float * d_sin_s, // precalculated sin(theta[i]) __global float * d_axis_s, // array of axis positions (n_projs) __local float* shared2) // 768B of local mem { const int tidx = get_local_id(0); //threadIdx.x; const int bidx = get_group_id(0); //blockIdx.x; const int tidy = get_local_id(1); //threadIdx.y; const int bidy = get_group_id(1); //blockIdx.y; //~ __local float shared[768]; //~ float * sh_sin = shared; //~ float * sh_cos = shared+256; //~ float * sh_axis = sh_cos+256; __local float sh_cos[256]; __local float sh_sin[256]; __local float sh_axis[256]; float pcos, psin; float h0, h1, h2, h3; const float apos_off_x= gpu_offset_x - axis_position ; const float apos_off_y= gpu_offset_y - axis_position ; float acorr05; float res0 = 0, res1 = 0, res2 = 0, res3 = 0; const float bx00 = (32 * bidx + 2 * tidx + 0 + apos_off_x ) ; const float by00 = (32 * bidy + 2 * tidy + 0 + apos_off_y ) ; int read=0; for(int proj=0; proj=read) { barrier(CLK_LOCAL_MEM_FENCE); int ip = tidy*16+tidx; if( read+ip < num_proj) { sh_cos [ip] = d_cos_s[read+ip] ; sh_sin [ip] = d_sin_s[read+ip] ; sh_axis[ip] = d_axis_s[read+ip] ; } read=read+256; // 256=16*16 block size barrier(CLK_LOCAL_MEM_FENCE); } pcos = sh_cos[256-read + proj] ; psin = sh_sin[256-read + proj] ; acorr05 = sh_axis[256 - read + proj] ; h0 = (acorr05 + bx00*pcos - by00*psin); h1 = (acorr05 + (bx00+0)*pcos - (by00+1)*psin); h2 = (acorr05 + (bx00+1)*pcos - (by00+0)*psin); h3 = (acorr05 + (bx00+1)*pcos - (by00+1)*psin); float x, val; float tol = 0.001f; // CHECKME float y = proj + 0.5f; int ym = (int) floor(y); int yp = (int) ceil(y); int xm, xp; // int i0, i1, j0, j1; float d0, d1, x0, x1, y0, y1; d0 = fmin(fmax(proj+0*0.5f, 0.0f), (num_proj - 1.0f)); x0 = floor(d0); x1 = ceil(d0); i0 = (int) x0; i1 = (int) x1; if(h0>=0 && h0=0 && h1=0 && h2=0 && h3_DATA". The environment variable is optional: in case it is not set, a directory in the temporary folder is used. :param timeout: time in seconds before it breaks """ self.project = project self._initialized = False self._tempdir = None self.sem = threading.Semaphore() self.env_key = env_key or (self.project.upper() + "_DATA") self.url_base = url_base self.all_data = set() self.timeout = timeout self.data_home = None def _initialize_tmpdir(self): """Initialize the temporary directory""" if not self._tempdir: with self.sem: if not self._tempdir: self._tempdir = tempfile.mkdtemp("_" + getpass.getuser(), self.project + "_") def _initialize_data(self): """Initialize for downloading test data""" if not self._initialized: with self.sem: if not self._initialized: self.data_home = os.environ.get(self.env_key) if self.data_home is None: self.data_home = os.path.join(tempfile.gettempdir(), "%s_testdata_%s" % (self.project, getpass.getuser())) if not os.path.exists(self.data_home): os.makedirs(self.data_home) self.testdata = os.path.join(self.data_home, "all_testdata.json") if os.path.exists(self.testdata): with open(self.testdata) as f: self.all_data = set(json.load(f)) self._initialized = True @property def tempdir(self): if not self._tempdir: self._initialize_tmpdir() return self._tempdir def clean_up(self): """Removes the temporary directory (and all its content !)""" with self.sem: if not self._tempdir: return if not os.path.isdir(self._tempdir): return for root, dirs, files in os.walk(self._tempdir, topdown=False): for name in files: os.remove(os.path.join(root, name)) for name in dirs: os.rmdir(os.path.join(root, name)) os.rmdir(self._tempdir) self._tempdir = None def getfile(self, filename): """Downloads the requested file from web-server available at https://www.silx.org/pub/silx/ :param: relative name of the image. :return: full path of the locally saved file. """ logger.debug("ExternalResources.getfile('%s')", filename) if not self._initialized: self._initialize_data() if not os.path.exists(self.data_home): os.makedirs(self.data_home) fullfilename = os.path.abspath(os.path.join(self.data_home, filename)) if not os.path.isfile(fullfilename): logger.debug("Trying to download image %s, timeout set to %ss", filename, self.timeout) dictProxies = {} if "http_proxy" in os.environ: dictProxies['http'] = os.environ["http_proxy"] dictProxies['https'] = os.environ["http_proxy"] if "https_proxy" in os.environ: dictProxies['https'] = os.environ["https_proxy"] if dictProxies: proxy_handler = six.moves.urllib.request.ProxyHandler(dictProxies) opener = six.moves.urllib.request.build_opener(proxy_handler).open else: opener = six.moves.urllib.request.urlopen logger.debug("wget %s/%s", self.url_base, filename) try: data = opener("%s/%s" % (self.url_base, filename), data=None, timeout=self.timeout).read() logger.info("Image %s successfully downloaded.", filename) except six.moves.urllib.error.URLError: raise unittest.SkipTest("network unreachable.") try: with open(fullfilename, "wb") as outfile: outfile.write(data) except IOError: raise IOError("unable to write downloaded \ data to disk at %s" % self.data_home) if not os.path.isfile(fullfilename): raise RuntimeError( "Could not automatically \ download test images %s!\n \ If you are behind a firewall, \ please set both environment variable http_proxy and https_proxy.\ This even works under windows ! \n \ Otherwise please try to download the images manually from \n%s/%s" % (filename, self.url_base, filename)) if filename not in self.all_data: self.all_data.add(filename) image_list = list(self.all_data) image_list.sort() try: with open(self.testdata, "w") as fp: json.dump(image_list, fp, indent=4) except IOError: logger.debug("Unable to save JSON list") return fullfilename def getdir(self, dirname): """Downloads the requested tarball from the server https://www.silx.org/pub/silx/ and unzips it into the data directory :param: relative name of the image. :return: list of files with their full path. 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IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module describe silx applications which are available through the silx launcher. Your environment should provide a command `silx`. You can reach help with `silx --help`, and check the version with `silx --version`. """ __authors__ = ["V. Valls", "P. Knobel"] __license__ = "MIT" __date__ = "29/06/2017" import logging logging.basicConfig() import sys from silx.utils.launcher import Launcher import silx._version def main(): """Main function of the launcher This function is referenced in the setup.py file, to create a launcher script generated by setuptools. :rtype: int :returns: The execution status """ launcher = Launcher(prog="silx", version=silx._version.version) launcher.add_command("view", module_name="silx.app.view", description="Browse a data file with a GUI") launcher.add_command("convert", module_name="silx.app.convert", description="Convert and concatenate files into a HDF5 file") launcher.add_command("test", module_name="silx.app.test_", description="Launch silx unittest") status = launcher.execute(sys.argv) return status if __name__ == "__main__": # executed when using python -m PROJECT_NAME status = main() sys.exit(status) silx-0.6.1/silx/image/0000755023630100076410000000000013202537043015201 5ustar knobelusers00000000000000silx-0.6.1/silx/image/test/0000755023630100076410000000000013202537043016160 5ustar knobelusers00000000000000silx-0.6.1/silx/image/test/test_bilinear.py0000644023630100076410000001410113202530432021346 0ustar knobelusers00000000000000# -*- coding: utf-8 -*- # # Project: silx (originally pyFAI) # https://github.com/silx-kit/silx # # Copyright (C) 2012-2017 European Synchrotron Radiation Facility, Grenoble, France # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. __authors__ = ["J. Kieffer"] __license__ = "MIT" __date__ = "02/08/2016" import unittest import numpy import logging logger = logging.getLogger(__name__) from ..bilinear import BilinearImage class TestBilinear(unittest.TestCase): """basic maximum search test""" N = 1000 def test_max_search_round(self): """test maximum search using random points: maximum is at the pixel center""" a = numpy.arange(100) - 40. b = numpy.arange(100) - 60. ga = numpy.exp(-a * a / 4000) gb = numpy.exp(-b * b / 6000) gg = numpy.outer(ga, gb) b = BilinearImage(gg) ok = 0 for s in range(self.N): i, j = numpy.random.randint(100), numpy.random.randint(100) k, l = b.local_maxi((i, j)) if abs(k - 40) > 1e-4 or abs(l - 60) > 1e-4: logger.warning("Wrong guess maximum (%i,%i) -> (%.1f,%.1f)", i, j, k, l) else: logger.debug("Good guess maximum (%i,%i) -> (%.1f,%.1f)", i, j, k, l) ok += 1 logger.debug("Success rate: %.1f", 100. * ok / self.N) self.assertEqual(ok, self.N, "Maximum is always found") def test_max_search_half(self): """test maximum search using random points: maximum is at a pixel edge""" a = numpy.arange(100) - 40.5 b = numpy.arange(100) - 60.5 ga = numpy.exp(-a * a / 4000) gb = numpy.exp(-b * b / 6000) gg = numpy.outer(ga, gb) b = BilinearImage(gg) ok = 0 for s in range(self.N): i, j = numpy.random.randint(100), numpy.random.randint(100) k, l = b.local_maxi((i, j)) if abs(k - 40.5) > 0.5 or abs(l - 60.5) > 0.5: logger.warning("Wrong guess maximum (%i,%i) -> (%.1f,%.1f)", i, j, k, l) else: logger.debug("Good guess maximum (%i,%i) -> (%.1f,%.1f)", i, j, k, l) ok += 1 logger.debug("Success rate: %.1f", 100. * ok / self.N) self.assertEqual(ok, self.N, "Maximum is always found") def test_map(self): N = 100 y, x = numpy.ogrid[:N, :N + 10] img = x + y b = BilinearImage(img) x2d = numpy.zeros_like(y) + x y2d = numpy.zeros_like(x) + y res1 = b.map_coordinates((y2d, x2d)) self.assertEquals(abs(res1 - img).max(), 0, "images are the same (corners)") x2d = numpy.zeros_like(y) + (x[:, :-1] + 0.5) y2d = numpy.zeros_like(x[:, :-1]) + y res1 = b.map_coordinates((y2d, x2d)) self.assertEquals(abs(res1 - img[:, :-1] - 0.5).max(), 0, "images are the same (middle)") x2d = numpy.zeros_like(y[:-1, :]) + (x[:, :-1] + 0.5) y2d = numpy.zeros_like(x[:, :-1]) + (y[:-1, :] + 0.5) res1 = b.map_coordinates((y2d, x2d)) self.assertEquals(abs(res1 - img[:-1, 1:]).max(), 0, "images are the same (center)") def test_profile_grad(self): N = 100 img = numpy.arange(N * N).reshape(N, N) b = BilinearImage(img) res1 = b.profile_line((0, 0), (N - 1, N - 1)) l = numpy.ceil(numpy.sqrt(2) * N) self.assertEquals(len(res1), l, "Profile has correct length") self.assertLess((res1[:-2] - res1[1:-1]).std(), 1e-3, "profile is linear (excluding last point)") def test_profile_gaus(self): N = 100 x = numpy.arange(N) - N // 2.0 g = numpy.exp(-x * x / (N * N)) img = numpy.outer(g, g) b = BilinearImage(img) res_hor = b.profile_line((N // 2, 0), (N // 2, N - 1)) res_ver = b.profile_line((0, N // 2), (N - 1, N // 2)) self.assertEquals(len(res_hor), N, "Profile has correct length") self.assertEquals(len(res_ver), N, "Profile has correct length") self.assertLess(abs(res_hor - g).max(), 1e-5, "correct horizontal profile") self.assertLess(abs(res_ver - g).max(), 1e-5, "correct vertical profile") # Profile with linewidth=3 expected_profile = img[:, N // 2 - 1:N // 2 + 2].mean(axis=1) res_hor = b.profile_line((N // 2, 0), (N // 2, N - 1), linewidth=3) res_ver = b.profile_line((0, N // 2), (N - 1, N // 2), linewidth=3) self.assertEquals(len(res_hor), N, "Profile has correct length") self.assertEquals(len(res_ver), N, "Profile has correct length") self.assertLess(abs(res_hor - expected_profile).max(), 1e-5, "correct horizontal profile") self.assertLess(abs(res_ver - expected_profile).max(), 1e-5, "correct vertical profile") def suite(): testsuite = unittest.TestSuite() testsuite.addTest(TestBilinear("test_max_search_round")) testsuite.addTest(TestBilinear("test_max_search_half")) testsuite.addTest(TestBilinear("test_map")) testsuite.addTest(TestBilinear("test_profile_grad")) testsuite.addTest(TestBilinear("test_profile_gaus")) return testsuite silx-0.6.1/silx/image/test/test_medianfilter.py0000644023630100076410000000535513202530432022237 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests that the different implementation of opencl (cpp, opencl) are accessible """ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "11/05/2017" import unittest from silx.image import medianfilter import numpy from silx.opencl.common import ocl class TestMedianFilterEngines(unittest.TestCase): """Make sure we have access to all the different implementation of median filter from image medfilt""" IMG = numpy.arange(10000.).reshape(100, 100) KERNEL = (1, 1) def testCppMedFilt2d(self): """test cpp engine for medfilt2d""" res = medianfilter.medfilt2d( image=TestMedianFilterEngines.IMG, kernel_size=TestMedianFilterEngines.KERNEL, engine='cpp') self.assertTrue(numpy.array_equal(res, TestMedianFilterEngines.IMG)) @unittest.skipUnless(ocl, "PyOpenCl is missing") def testOpenCLMedFilt2d(self): """test cpp engine for medfilt2d""" res = medianfilter.medfilt2d( image=TestMedianFilterEngines.IMG, kernel_size=TestMedianFilterEngines.KERNEL, engine='opencl') self.assertTrue(numpy.array_equal(res, TestMedianFilterEngines.IMG)) def suite(): test_suite = unittest.TestSuite() for testClass in (TestMedianFilterEngines, ): test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(testClass)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/image/test/__init__.py0000644023630100076410000000333513202530432020270 0ustar knobelusers00000000000000# -*- coding: utf-8 -*- # # Project: silx # https://github.com/silx-kit/silx # # Copyright (C) 2012-2016 European Synchrotron Radiation Facility, Grenoble, France # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. __authors__ = ["J. Kieffer"] __license__ = "MIT" __date__ = "25/08/2016" import unittest from . import test_bilinear from . import test_shapes from . import test_medianfilter from . import test_tomography def suite(): """Test suite for module silx.image.test""" test_suite = unittest.TestSuite() test_suite.addTest(test_bilinear.suite()) test_suite.addTest(test_medianfilter.suite()) test_suite.addTest(test_shapes.suite()) test_suite.addTest(test_tomography.suite()) return test_suite silx-0.6.1/silx/image/test/test_shapes.py0000644023630100076410000003350113202530432021051 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """Tests for polygon functions """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "15/05/2017" import logging import unittest import numpy from silx.test.utils import ParametricTestCase from silx.image import shapes _logger = logging.getLogger(__name__) class TestPolygonFill(ParametricTestCase): """basic poylgon test""" def test_squares(self): """Test polygon fill for a square polygons""" mask_shape = 4, 4 tests = { # test name: [(row min, row max), (col min, col max)] 'square in': [(1, 3), (1, 3)], 'square out': [(1, 3), (1, 10)], 'square around': [(-1, 5), (-1, 5)], } for test_name, (rows, cols) in tests.items(): with self.subTest(msg=test_name, rows=rows, cols=cols, mask_shape=mask_shape): ref_mask = numpy.zeros(mask_shape, dtype=numpy.uint8) ref_mask[max(0, rows[0]):rows[1], max(0, cols[0]):cols[1]] = True vertices = [(rows[0], cols[0]), (rows[1], cols[0]), (rows[1], cols[1]), (rows[0], cols[1])] mask = shapes.polygon_fill_mask(vertices, ref_mask.shape) is_equal = numpy.all(numpy.equal(ref_mask, mask)) if not is_equal: _logger.debug('%s failed with mask != ref_mask:', test_name) _logger.debug('result:\n%s', str(mask)) _logger.debug('ref:\n%s', str(ref_mask)) self.assertTrue(is_equal) def test_eight(self): """Tests with eight shape with different rotation and direction""" ref_mask = numpy.array(( (1, 1, 1, 1, 1, 0), (0, 1, 1, 1, 0, 0), (0, 0, 1, 0, 0, 0), (0, 0, 1, 0, 0, 0), (0, 1, 1, 1, 0, 0), (0, 0, 0, 0, 0, 0)), dtype=numpy.uint8) ref_mask_rot = numpy.asarray(numpy.logical_not(ref_mask), dtype=numpy.uint8) ref_mask_rot[:, -1] = 0 ref_mask_rot[-1, :] = 0 tests = { 'dir 1': ([(0, 0), (5, 5), (5, 0), (0, 5)], ref_mask), 'dir 1, rot 90': ([(5, 0), (0, 5), (5, 5), (0, 0)], ref_mask_rot), 'dir 1, rot 180': ([(5, 5), (0, 0), (0, 5), (5, 0)], ref_mask), 'dir 1, rot -90': ([(0, 5), (5, 0), (0, 0), (5, 5)], ref_mask_rot), 'dir 2': ([(0, 0), (0, 5), (5, 0), (5, 5)], ref_mask), 'dir 2, rot 90': ([(5, 0), (0, 0), (5, 5), (0, 5)], ref_mask_rot), 'dir 2, rot 180': ([(5, 5), (5, 0), (0, 5), (0, 0)], ref_mask), 'dir 2, rot -90': ([(0, 5), (5, 5), (0, 0), (5, 0)], ref_mask_rot), } for test_name, (vertices, ref_mask) in tests.items(): with self.subTest(msg=test_name): mask = shapes.polygon_fill_mask(vertices, ref_mask.shape) is_equal = numpy.all(numpy.equal(ref_mask, mask)) if not is_equal: _logger.debug('%s failed with mask != ref_mask:', test_name) _logger.debug('result:\n%s', str(mask)) _logger.debug('ref:\n%s', str(ref_mask)) self.assertTrue(is_equal) def test_shapes(self): """Tests with shapes and reference mask""" tests = { # name: ( # polygon corners as a list of (row, col), # ref_mask) 'concave polygon': ( [(1, 1), (4, 3), (1, 5), (2, 3)], numpy.array(( (0, 0, 0, 0, 0, 0, 0, 0), (0, 0, 0, 0, 0, 0, 0, 0), (0, 0, 1, 1, 1, 0, 0, 0), (0, 0, 0, 1, 0, 0, 0, 0), (0, 0, 0, 0, 0, 0, 0, 0), (0, 0, 0, 0, 0, 0, 0, 0)), dtype=numpy.uint8)), 'concave polygon partly outside mask': ( [(-1, -1), (4, 3), (1, 5), (2, 3)], numpy.array(( (1, 0, 0, 0, 0, 0), (0, 1, 0, 0, 0, 0), (0, 0, 1, 1, 1, 0), (0, 0, 0, 1, 0, 0), (0, 0, 0, 0, 0, 0), (0, 0, 0, 0, 0, 0), (0, 0, 0, 0, 0, 0), (0, 0, 0, 0, 0, 0)), dtype=numpy.uint8)), 'polygon surrounding mask': ( [(-1, -1), (-1, 7), (7, 7), (7, -1), (0, -1), (8, -2), (8, 8), (-2, 8)], numpy.zeros((6, 6), dtype=numpy.uint8)) } for test_name, (vertices, ref_mask) in tests.items(): with self.subTest(msg=test_name): mask = shapes.polygon_fill_mask(vertices, ref_mask.shape) is_equal = numpy.all(numpy.equal(ref_mask, mask)) if not is_equal: _logger.debug('%s failed with mask != ref_mask:', test_name) _logger.debug('result:\n%s', str(mask)) _logger.debug('ref:\n%s', str(ref_mask)) self.assertTrue(is_equal) class TestDrawLine(ParametricTestCase): """basic draw line test""" def test_aligned_lines(self): """Test drawing horizontal, vertical and diagonal lines""" lines = { # test_name: (drow, dcol) 'Horizontal line, col0 < col1': (0, 10), 'Horizontal line, col0 > col1': (0, -10), 'Vertical line, row0 < row1': (10, 0), 'Vertical line, row0 > row1': (-10, 0), 'Diagonal col0 < col1 and row0 < row1': (10, 10), 'Diagonal col0 < col1 and row0 > row1': (-10, 10), 'Diagonal col0 > col1 and row0 < row1': (10, -10), 'Diagonal col0 > col1 and row0 > row1': (-10, -10), } row0, col0 = 1, 2 # Start point for test_name, (drow, dcol) in lines.items(): row1 = row0 + drow col1 = col0 + dcol with self.subTest(msg=test_name, drow=drow, dcol=dcol): # Build reference coordinates from drow and dcol if drow == 0: rows = row0 * numpy.ones(abs(dcol) + 1) else: step = 1 if drow > 0 else -1 rows = row0 + numpy.arange(0, drow + step, step) if dcol == 0: cols = col0 * numpy.ones(abs(drow) + 1) else: step = 1 if dcol > 0 else -1 cols = col0 + numpy.arange(0, dcol + step, step) ref_coords = rows, cols result = shapes.draw_line(row0, col0, row1, col1) self.assertTrue(self.isEqual(test_name, result, ref_coords)) def test_noline(self): """Test pt0 == pt1""" for width in range(4): with self.subTest(width=width): result = shapes.draw_line(1, 2, 1, 2, width) self.assertTrue(numpy.all(numpy.equal(result, [(1,), (2,)]))) def test_lines(self): """Test lines not aligned with axes for 8 slopes and directions""" row0, col0 = 1, 1 dy, dx = 3, 5 ref_coords = numpy.array( [(0, 0), (1, 1), (1, 2), (2, 3), (2, 4), (3, 5)]) # Build lines for the 8 octants from this coordinantes lines = { # name: (drow, dcol, ref_coords) '1st octant': (dy, dx, ref_coords), '2nd octant': (dx, dy, ref_coords[:, (1, 0)]), # invert x and y '3rd octant': (dx, -dy, ref_coords[:, (1, 0)] * (1, -1)), '4th octant': (dy, -dx, ref_coords * (1, -1)), '5th octant': (-dy, -dx, ref_coords * (-1, -1)), '6th octant': (-dx, -dy, ref_coords[:, (1, 0)] * (-1, -1)), '7th octant': (-dx, dy, ref_coords[:, (1, 0)] * (-1, 1)), '8th octant': (-dy, dx, ref_coords * (-1, 1)) } # Test with different starting points with positive and negative coords for row0, col0 in ((0, 0), (2, 3), (-4, 1), (-5, -6), (8, -7)): for name, (drow, dcol, ref_coords) in lines.items(): row1 = row0 + drow col1 = col0 + dcol # Transpose from ((row0, col0), ...) to (rows, cols) ref_coords = numpy.transpose(ref_coords + (row0, col0)) with self.subTest(msg=name, pt0=(row0, col0), pt1=(row1, col1)): result = shapes.draw_line(row0, col0, row1, col1) self.assertTrue(self.isEqual(name, result, ref_coords)) def test_width(self): """Test of line width""" lines = { # test_name: row0, col0, row1, col1, width, ref 'horizontal w=2': (0, 0, 0, 1, 2, ((0, 1, 0, 1), (0, 0, 1, 1))), 'horizontal w=3': (0, 0, 0, 1, 3, ((-1, 0, 1, -1, 0, 1), (0, 0, 0, 1, 1, 1))), 'vertical w=2': (0, 0, 1, 0, 2, ((0, 0, 1, 1), (0, 1, 0, 1))), 'vertical w=3': (0, 0, 1, 0, 3, ((0, 0, 0, 1, 1, 1), (-1, 0, 1, -1, 0, 1))), 'diagonal w=3': (0, 0, 1, 1, 3, ((-1, 0, 1, 0, 1, 2), (0, 0, 0, 1, 1, 1))), '1st octant w=3': (0, 0, 1, 2, 3, numpy.array(((-1, 0), (0, 0), (1, 0), (0, 1), (1, 1), (2, 1), (0, 2), (1, 2), (2, 2))).T), '2nd octant w=3': (0, 0, 2, 1, 3, numpy.array(((0, -1), (0, 0), (0, 1), (1, 0), (1, 1), (1, 2), (2, 0), (2, 1), (2, 2))).T), } for test_name, (row0, col0, row1, col1, width, ref) in lines.items(): with self.subTest(msg=test_name, pt0=(row0, col0), pt1=(row1, col1), width=width): result = shapes.draw_line(row0, col0, row1, col1, width) self.assertTrue(self.isEqual(test_name, result, ref)) def isEqual(self, test_name, result, ref): """Test equality of two numpy arrays and log them if different""" is_equal = numpy.all(numpy.equal(result, ref)) if not is_equal: _logger.debug('%s failed with result != ref:', test_name) _logger.debug('result:\n%s', str(result)) _logger.debug('ref:\n%s', str(ref)) return is_equal class TestCircleFill(ParametricTestCase): """Tests for circle filling""" def testCircle(self): """Test circle_fill with different input parameters""" square3x3 = numpy.array(((-1, -1, -1, 0, 0, 0, 1, 1, 1), (-1, 0, 1, -1, 0, 1, -1, 0, 1))) tests = [ #crow, ccol, radius, ref_coords = (ref_rows, ref_cols) (0, 0, 1, ((0,), (0,))), (10, 15, 1, ((10,), (15,))), (0, 0, 1.5, square3x3), (5, 10, 2, (5 + square3x3[0], 10 + square3x3[1])), (10, 20, 3.5, ( 10 + numpy.array((-3, -3, -3, -2, -2, -2, -2, -2, -1, -1, -1, -1, -1, -1, -1, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 2, 2, 2, 2, 2, 3, 3, 3)), 20 + numpy.array((-1, 0, 1, -2, -1, 0, 1, 2, -3, -2, -1, 0, 1, 2, 3, -3, -2, -1, 0, 1, 2, 3, -3, -2, -1, 0, 1, 2, 3, -2, -1, 0, 1, 2, -1, 0, 1)))), ] for crow, ccol, radius, ref_coords in tests: with self.subTest(crow=crow, ccol=ccol, radius=radius): coords = shapes.circle_fill(crow, ccol, radius) is_equal = numpy.all(numpy.equal(coords, ref_coords)) if not is_equal: _logger.debug('result:\n%s', str(coords)) _logger.debug('ref:\n%s', str(ref_coords)) self.assertTrue(is_equal) def suite(): test_suite = unittest.TestSuite() for testClass in (TestPolygonFill, TestDrawLine, TestCircleFill): test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(testClass)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/image/test/test_tomography.py0000644023630100076410000000463713202530432021767 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ Tests that the functions of tomography are valid """ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "12/09/2017" import unittest import numpy from silx.test.utils import utilstest from silx.image import tomography class TestTomography(unittest.TestCase): """ """ def setUp(self): self.sinoTrueData = numpy.load(utilstest.getfile("sino500.npz"))["data"] def testCalcCenterCentroid(self): centerTD = tomography.calc_center_centroid(self.sinoTrueData) self.assertTrue(numpy.isclose(centerTD, 256, rtol=0.01)) def testCalcCenterCorr(self): centerTrueData = tomography.calc_center_corr(self.sinoTrueData, fullrot=False, props=1) self.assertTrue(numpy.isclose(centerTrueData, 256, rtol=0.01)) def suite(): test_suite = unittest.TestSuite() for testClass in (TestTomography, ): test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(testClass)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/image/tomography.py0000644023630100076410000001254213202530432017743 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module contains utilitary functions for tomography """ __author__ = ["P. Paleo"] __license__ = "MIT" __date__ = "12/09/2017" import numpy as np from math import pi from silx.math.fit import leastsq def rescale_intensity(img, from_subimg=None, percentiles=None): """ clamp intensity into the [2, 98] percentiles :param img: :param from_subimg: :param percentiles: :return: the rescale intensity """ if percentiles is None: percentiles = [2, 98] else: assert type(percentiles) in (tuple, list) assert(len(percentiles) == 2) data = from_subimg if from_subimg is not None else img imin, imax = np.percentile(data, percentiles) res = np.clip(img, imin, imax) return res def calc_center_corr(sino, fullrot=False, props=1): """ Compute a guess of the Center of Rotation (CoR) of a given sinogram. The computation is based on the correlation between the line projections at angle (theta = 0) and at angle (theta = 180). Note that for most scans, the (theta=180) angle is not included, so the CoR might be underestimated. In a [0, 360[ scan, the projection angle at (theta=180) is exactly in the middle for odd number of projections. :param numpy.ndarray sino: Sinogram :param bool fullrot: optional. If False (default), the scan is assumed to be [0, 180). If True, the scan is assumed to be [0, 380). :param int props: optional. Number of propositions for the CoR """ n_a, n_d = sino.shape first = 0 last = -1 if not(fullrot) else n_a // 2 proj1 = sino[first, :] proj2 = sino[last, :][::-1] # Compute the correlation in the Fourier domain proj1_f = np.fft.fft(proj1, 2 * n_d) proj2_f = np.fft.fft(proj2, 2 * n_d) corr = np.abs(np.fft.ifft(proj1_f * proj2_f.conj())) if props == 1: pos = np.argmax(corr) if pos > n_d // 2: pos -= n_d return (n_d + pos) / 2. else: corr_argsorted = np.argsort(corr)[:props] corr_argsorted[corr_argsorted > n_d // 2] -= n_d return (n_d + corr_argsorted) / 2. def _sine_function(t, offset, amplitude, phase): """ Helper function for calc_center_centroid """ n_angles = t.shape[0] res = amplitude * np.sin(2 * pi * (1. / (2 * n_angles)) * t + phase) return offset + res def _sine_function_derivative(t, params, eval_idx): """ Helper function for calc_center_centroid """ offset, amplitude, phase = params n_angles = t.shape[0] w = 2.0 * pi * (1. / (2.0 * n_angles)) * t + phase grad = (1.0, np.sin(w), amplitude*np.cos(w)) return grad[eval_idx] def calc_center_centroid(sino): """ Compute a guess of the Center of Rotation (CoR) of a given sinogram. The computation is based on the computation of the centroid of each projection line, which should be a sine function according to the Helgason-Ludwig condition. This method is unlikely to work in local tomography. :param numpy.ndarray sino: Sinogram """ n_a, n_d = sino.shape # Compute the vector of centroids of the sinogram i = np.arange(n_d) centroids = np.sum(sino*i, axis=1)/np.sum(sino, axis=1) # Fit with a sine function : phase, amplitude, offset # Using non-linear Levenberg–Marquardt algorithm angles = np.linspace(0, n_a, n_a, True) # Initial parameter vector cmax, cmin = centroids.max(), centroids.min() offs = (cmax + cmin) / 2. amp = (cmax - cmin) / 2. phi = 1.1 p0 = (offs, amp, phi) constraints = np.zeros((3, 3)) popt, _ = leastsq(model=_sine_function, xdata=angles, ydata=centroids, p0=p0, sigma=None, constraints=constraints, model_deriv=None, epsfcn=None, deltachi=None, full_output=0, check_finite=True, left_derivative=False, max_iter=100) return popt[0] silx-0.6.1/silx/image/bilinear.pyx0000644023630100076410000003113313202530432017524 0ustar knobelusers00000000000000# -*- coding: utf-8 -*- # # Project: silx (originally pyFAI) # https://github.com/silx-kit/silx # # Copyright (C) 2012-2017 European Synchrotron Radiation Facility, Grenoble, France # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. __authors__ = ["J. Kieffer"] __license__ = "MIT" __date__ = "15/09/2016" __doc__ = "Bilinear interpolator, peak finder, line-profile for images" import cython from cython.view cimport array as cvarray import numpy from libc.math cimport floor, ceil, sin, cos, sqrt, atan2 import logging logger = logging.getLogger(__name__) cdef class BilinearImage: """Bilinear interpolator for images ... or any data on a regular grid """ cdef: readonly float[:, ::1] data readonly float maxi, mini readonly size_t width, height cpdef size_t coarse_local_maxi(self, size_t) cdef size_t c_local_maxi(self, size_t) nogil cdef float c_funct(self, float, float) nogil def __cinit__(self, data not None): """Constructor :param data: image as a 2D array """ assert data.ndim == 2 self.height = data.shape[0] self.width = data.shape[1] self.maxi = data.max() self.mini = data.min() self.data = numpy.ascontiguousarray(data, dtype=numpy.float32) def __dealloc__(self): self.data = None def __call__(self, coord): """Function f((y, x)) where f is a continuous function made from the image and (y,x)=(row, column) is the pixel coordinates in natural C-order :param x: 2-tuple of float (row, column) :return: Interpolated signal from the image """ return self.c_funct(coord[1], coord[0]) @cython.boundscheck(False) @cython.wraparound(False) cdef float c_funct(self, float x, float y) nogil: """Function f(x, y) where f is a continuous function made from the image. :param x (float): column coordinate :param y (float): row coordinate :return: Interpolated signal from the image (nearest for outside) Cython only function due to NOGIL """ cdef: float d0 = min(max(y, 0.0), (self.height - 1.0)) float d1 = min(max(x, 0.0), (self.width - 1.0)) int i0, i1, j0, j1 float x0, x1, y0, y1, res x0 = floor(d0) x1 = ceil(d0) y0 = floor(d1) y1 = ceil(d1) i0 = < int > x0 i1 = < int > x1 j0 = < int > y0 j1 = < int > y1 if (i0 == i1) and (j0 == j1): res = self.data[i0, j0] elif i0 == i1: res = (self.data[i0, j0] * (y1 - d1)) + (self.data[i0, j1] * (d1 - y0)) elif j0 == j1: res = (self.data[i0, j0] * (x1 - d0)) + (self.data[i1, j0] * (d0 - x0)) else: res = (self.data[i0, j0] * (x1 - d0) * (y1 - d1)) \ + (self.data[i1, j0] * (d0 - x0) * (y1 - d1)) \ + (self.data[i0, j1] * (x1 - d0) * (d1 - y0)) \ + (self.data[i1, j1] * (d0 - x0) * (d1 - y0)) return res @cython.boundscheck(False) @cython.wraparound(False) def opp_f(self, coord): """Function -f((y,x)) for peak finding via minimizer. Gives large number outside the boundaries to return into the image :param x: 2-tuple of float in natural C order, i.e (row, column) :return: Negative interpolated signal from the image """ cdef: float d0, d1, res d0, d1 = coord if d0 < 0: res = self.mini + d0 elif d1 < 0: res = self.mini + d1 elif d0 > (self.height - 1): res = self.mini - d0 + self.height - 1 elif d1 > self.width - 1: res = self.mini - d1 + self.width - 1 else: res = self.c_funct(d1, d0) return - res @cython.boundscheck(False) @cython.wraparound(False) @cython.cdivision(True) def local_maxi(self, coord): """Return the nearest local maximum ... with sub-pixel refinement Nearest maximum search: steepest ascent Sub-pixel refinement: Second order Taylor expansion of the function; At the maximum, the first derivative is null delta = x-i = -Inverse[Hessian].gradient if Hessian is singular or \|delta\|>1: use a center of mass. :param coord: 2-tuple of scalar (row, column) :return: 2-tuple of float with the nearest local maximum """ cdef: int res, current0, current1 int i0, i1 float tmp, sum0 = 0, sum1 = 0, sum = 0 float a00, a01, a02, a10, a11, a12, a20, a21, a22 float d00, d11, d01, denom, delta0, delta1 res = self.c_local_maxi(round(coord[0]) * self.width + round(coord[1])) current0 = res // self.width current1 = res % self.width if (current0 > 0) and (current0 < self.height - 1) and (current1 > 0) and (current1 < self.width - 1): # Use second order polynomial Taylor expansion a00 = self.data[current0 - 1, current1 - 1] a01 = self.data[current0 - 1, current1 ] a02 = self.data[current0 - 1, current1 + 1] a10 = self.data[current0 , current1 - 1] a11 = self.data[current0 , current1 ] a12 = self.data[current0 , current1 + 1] a20 = self.data[current0 + 1, current1 - 1] a21 = self.data[current0 + 1, current1 ] a22 = self.data[current0 + 1, current1 - 1] d00 = a12 - 2.0 * a11 + a10 d11 = a21 - 2.0 * a11 + a01 d01 = (a00 - a02 - a20 + a22) / 4.0 denom = 2.0 * (d00 * d11 - d01 * d01) if abs(denom) < 1e-10: logger.debug("Singular determinant, Hessian undefined") else: delta0 = ((a12 - a10) * d01 + (a01 - a21) * d11) / denom delta1 = ((a10 - a12) * d00 + (a21 - a01) * d01) / denom if abs(delta0) <= 1.0 and abs(delta1) <= 1.0: # Result is OK if lower than 0.5. return (delta0 + float(current0), delta1 + float(current1)) else: logger.debug("Failed to find root using second order expansion") # refinement of the position by a simple center of mass of the last valid region used for i0 in range(current0 - 1, current0 + 2): for i1 in range(current1 - 1, current1 + 2): tmp = self.data[i0, i1] sum0 += tmp * i0 sum1 += tmp * i1 sum += tmp if sum > 0: return (sum0 / sum, sum1 / sum) return (float(current0), float(current1)) cpdef size_t coarse_local_maxi(self, size_t x): """Return the nearest local maximum ... without sub-pixel refinement :param idx: start index (=row*width+column) :return: local maximum index """ return self.c_local_maxi(x) @cython.boundscheck(False) @cython.wraparound(False) @cython.cdivision(True) cdef size_t c_local_maxi(self, size_t idx) nogil: """Return the nearest local maximum without sub-pixel refinement :param idx: start index (=row*width+column) :return: local maximum index This method is Cython only due to the NOGIL """ cdef: int current0 = idx // self.width int current1 = idx % self.width int i0, i1, start0, stop0, start1, stop1, new0, new1 float tmp, value, old_value value = self.data[current0, current1] old_value = value - 1.0 new0, new1 = current0, current1 while value > old_value: old_value = value start0 = max(0, current0 - 1) stop0 = min(self.height, current0 + 2) start1 = max(0, current1 - 1) stop1 = min(self.width, current1 + 2) for i0 in range(start0, stop0): for i1 in range(start1, stop1): tmp = self.data[i0, i1] if tmp > value: new0, new1 = i0, i1 value = tmp current0, current1 = new0, new1 return self.width * current0 + current1 @cython.boundscheck(False) def map_coordinates(self, coordinates): """Map coordinates of the array on the image :param coordinates: 2-tuple of array of the same size (row_array, column_array) :return: array of values at given coordinates """ cdef: float[:] d0, d1, res size_t size, i shape = coordinates[0].shape size = coordinates[0].size d0 = numpy.ascontiguousarray(coordinates[0].ravel(), dtype=numpy.float32) d1 = numpy.ascontiguousarray(coordinates[1].ravel(), dtype=numpy.float32) assert size == d1.size res = numpy.empty(size, dtype=numpy.float32) with nogil: for i in range(size): res[i] = self.c_funct(d1[i], d0[i]) return numpy.asarray(res).reshape(shape) @cython.boundscheck(False) def profile_line(self, src, dst, int linewidth=1): """Return the intensity profile of an image measured along a scan line. :param src: The start point of the scan line. :type src: 2-tuple of numeric scalar :param dst: The end point of the scan line. The destination point is included in the profile, in contrast to standard numpy indexing. :type dst: 2-tuple of numeric scalar :param int linewidth: Width of the scanline (unit image pixel). :return: The intensity profile along the scan line. The length of the profile is the ceil of the computed length of the scan line. :rtype: 1d array Inspired from skimage """ cdef: float src_row, src_col, dst_row, dst_col, d_row, d_col float length, col_width, row_width, sum, row, col, new_row, new_col int lengt, i, j, cnt float[::1] result src_row, src_col = src dst_row, dst_col = dst if (src_row == dst_row) and (src_col == dst_col): logger.warning("Source and destination points are the same") return numpy.array([self.c_funct(src_col, src_row)]) d_row = dst_row - src_row d_col = dst_col - src_col # Offsets to deal with linewidth length = sqrt(d_row * d_row + d_col * d_col) row_width = d_col / length col_width = - d_row / length lengt = ceil(length + 1) d_row /= (lengt -1) d_col /= (lengt -1) result = numpy.zeros(lengt, dtype=numpy.float32) # Offset position to the center of the bottom pixels of the profile src_row -= row_width * (linewidth - 1) / 2. src_col -= col_width * (linewidth - 1) / 2. with nogil: for i in range(lengt): sum = 0 cnt = 0 row = src_row + i * d_row col = src_col + i * d_col for j in range(linewidth): new_row = row + j * row_width new_col = col + j * col_width if ((new_col >= 0) and (new_col < self.width) and (new_row >= 0) and (new_row < self.height)): cnt = cnt + 1 sum = sum + self.c_funct(new_col, new_row) if cnt: result[i] += sum / cnt # Ensures the result is exported as numpy array and not memory view. return numpy.asarray(result) silx-0.6.1/silx/image/shapes.c0000644023630100076410000307455313202530432016644 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [], "language": "c" }, "module_name": "silx.image.shapes" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif 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PyUnicode_GET_LENGTH(u) : PyUnicode_GET_SIZE(u))) #else #define CYTHON_PEP393_ENABLED 0 #define PyUnicode_1BYTE_KIND 1 #define PyUnicode_2BYTE_KIND 2 #define PyUnicode_4BYTE_KIND 4 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) ((sizeof(Py_UNICODE) == 2) ? 65535 : 1114111) #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) (((void)(k)), ((Py_UNICODE*)d)[i] = ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != PyUnicode_GET_SIZE(u)) #endif #if CYTHON_COMPILING_IN_PYPY #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) #else #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ?\ PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyUnicode_Contains) #define PyUnicode_Contains(u, s) PySequence_Contains(u, s) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyByteArray_Check) #define PyByteArray_Check(obj) PyObject_TypeCheck(obj, &PyByteArray_Type) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Format) #define PyObject_Format(obj, fmt) PyObject_CallMethod(obj, "__format__", "O", fmt) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Malloc) #define PyObject_Malloc(s) PyMem_Malloc(s) #define PyObject_Free(p) PyMem_Free(p) #define PyObject_Realloc(p) PyMem_Realloc(p) #endif #if CYTHON_COMPILING_IN_PYSTON #define __Pyx_PyCode_HasFreeVars(co) PyCode_HasFreeVars(co) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) PyFrame_SetLineNumber(frame, lineno) #else #define __Pyx_PyCode_HasFreeVars(co) (PyCode_GetNumFree(co) > 0) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) (frame)->f_lineno = (lineno) #endif #define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) #define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) #else #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION < 3 && !defined(PyObject_ASCII) #define PyObject_ASCII(o) PyObject_Repr(o) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type #define PyStringObject PyUnicodeObject #define PyString_Type PyUnicode_Type #define PyString_Check PyUnicode_Check #define PyString_CheckExact PyUnicode_CheckExact #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) #else #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj)) #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) #endif #ifndef PySet_CheckExact #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) #endif #define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) #define __Pyx_PyException_Check(obj) __Pyx_TypeCheck(obj, PyExc_Exception) #if PY_MAJOR_VERSION >= 3 #define PyIntObject PyLongObject #define PyInt_Type PyLong_Type #define PyInt_Check(op) PyLong_Check(op) #define PyInt_CheckExact(op) PyLong_CheckExact(op) #define PyInt_FromString PyLong_FromString #define PyInt_FromUnicode PyLong_FromUnicode #define PyInt_FromLong PyLong_FromLong #define PyInt_FromSize_t PyLong_FromSize_t #define PyInt_FromSsize_t PyLong_FromSsize_t #define PyInt_AsLong PyLong_AsLong #define PyInt_AS_LONG PyLong_AS_LONG #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif #if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY #ifndef PyUnicode_InternFromString #define PyUnicode_InternFromString(s) PyUnicode_FromString(s) #endif #endif #if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong #else #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) #else #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) #endif #if CYTHON_USE_ASYNC_SLOTS #if PY_VERSION_HEX >= 0x030500B1 #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async) #else typedef struct { unaryfunc am_await; unaryfunc am_aiter; unaryfunc am_anext; } __Pyx_PyAsyncMethodsStruct; #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved)) #endif #else #define __Pyx_PyType_AsAsync(obj) NULL #endif #ifndef CYTHON_RESTRICT #if defined(__GNUC__) #define CYTHON_RESTRICT __restrict__ #elif defined(_MSC_VER) && _MSC_VER >= 1400 #define CYTHON_RESTRICT __restrict #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_RESTRICT restrict #else #define CYTHON_RESTRICT #endif #endif #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif # elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif #endif #ifndef CYTHON_MAYBE_UNUSED_VAR # if defined(__cplusplus) template void CYTHON_MAYBE_UNUSED_VAR( const T& ) { } # else # define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x) # endif #endif #ifndef CYTHON_NCP_UNUSED # if CYTHON_COMPILING_IN_CPYTHON # define CYTHON_NCP_UNUSED # else # define CYTHON_NCP_UNUSED CYTHON_UNUSED # endif #endif #define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None) #ifndef CYTHON_INLINE #if defined(__clang__) #define CYTHON_INLINE __inline__ __attribute__ ((__unused__)) #elif defined(__GNUC__) #define CYTHON_INLINE __inline__ #elif defined(_MSC_VER) #define CYTHON_INLINE __inline #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_INLINE inline #else #define CYTHON_INLINE #endif #endif #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__image__shapes #define __PYX_HAVE_API__silx__image__shapes #include #include "pythread.h" #include #include #include #include "pystate.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; static PyObject *__pyx_empty_unicode; static int __pyx_lineno; static int __pyx_clineno = 0; static const char * __pyx_cfilenm= __FILE__; static const char *__pyx_filename; static const char *__pyx_f[] = { "silx/image/shapes.pyx", "stringsource", }; /* MemviewSliceStruct.proto */ struct __pyx_memoryview_obj; typedef struct { struct __pyx_memoryview_obj *memview; char *data; Py_ssize_t shape[8]; Py_ssize_t strides[8]; Py_ssize_t suboffsets[8]; } __Pyx_memviewslice; /* BufferFormatStructs.proto */ #define IS_UNSIGNED(type) (((type) -1) > 0) struct __Pyx_StructField_; #define __PYX_BUF_FLAGS_PACKED_STRUCT (1 << 0) typedef struct { const char* name; struct __Pyx_StructField_* fields; size_t size; size_t arraysize[8]; int ndim; char typegroup; char is_unsigned; int flags; } __Pyx_TypeInfo; typedef struct __Pyx_StructField_ { __Pyx_TypeInfo* type; const char* name; size_t offset; } __Pyx_StructField; typedef struct { __Pyx_StructField* field; size_t parent_offset; } __Pyx_BufFmt_StackElem; typedef struct { __Pyx_StructField root; __Pyx_BufFmt_StackElem* head; size_t fmt_offset; size_t new_count, enc_count; size_t struct_alignment; int is_complex; char enc_type; char new_packmode; char enc_packmode; char is_valid_array; } __Pyx_BufFmt_Context; /* Atomics.proto */ #include #ifndef CYTHON_ATOMICS #define CYTHON_ATOMICS 1 #endif #define __pyx_atomic_int_type int #if CYTHON_ATOMICS && __GNUC__ >= 4 && (__GNUC_MINOR__ > 1 ||\ (__GNUC_MINOR__ == 1 && __GNUC_PATCHLEVEL >= 2)) &&\ !defined(__i386__) #define __pyx_atomic_incr_aligned(value, lock) __sync_fetch_and_add(value, 1) #define __pyx_atomic_decr_aligned(value, lock) __sync_fetch_and_sub(value, 1) #ifdef __PYX_DEBUG_ATOMICS #warning "Using GNU atomics" #endif #elif CYTHON_ATOMICS && defined(_MSC_VER) && 0 #include #undef __pyx_atomic_int_type #define __pyx_atomic_int_type LONG #define __pyx_atomic_incr_aligned(value, lock) InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #pragma message ("Using MSVC atomics") #endif #elif CYTHON_ATOMICS && (defined(__ICC) || defined(__INTEL_COMPILER)) && 0 #define __pyx_atomic_incr_aligned(value, lock) _InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) _InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #warning "Using Intel atomics" #endif #else #undef CYTHON_ATOMICS #define CYTHON_ATOMICS 0 #ifdef __PYX_DEBUG_ATOMICS #warning "Not using atomics" #endif #endif typedef volatile __pyx_atomic_int_type __pyx_atomic_int; #if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /*--- Type declarations ---*/ struct __pyx_obj_4silx_5image_6shapes_Polygon; struct __pyx_array_obj; struct __pyx_MemviewEnum_obj; struct __pyx_memoryview_obj; struct __pyx_memoryviewslice_obj; /* "silx/image/shapes.pyx":49 * * * cdef class Polygon(object): # <<<<<<<<<<<<<< * """Define a polygon that provides inside check and mask generation. * */ struct __pyx_obj_4silx_5image_6shapes_Polygon { PyObject_HEAD struct __pyx_vtabstruct_4silx_5image_6shapes_Polygon *__pyx_vtab; __Pyx_memviewslice vertices; int nvert; }; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_array_obj { PyObject_HEAD struct __pyx_vtabstruct_array *__pyx_vtab; char *data; Py_ssize_t len; char *format; int ndim; Py_ssize_t *_shape; Py_ssize_t *_strides; Py_ssize_t itemsize; PyObject *mode; PyObject *_format; void (*callback_free_data)(void *); int free_data; int dtype_is_object; }; /* "View.MemoryView":275 * * @cname('__pyx_MemviewEnum') * cdef class Enum(object): # <<<<<<<<<<<<<< * cdef object name * def __init__(self, name): */ struct __pyx_MemviewEnum_obj { PyObject_HEAD PyObject *name; }; /* "View.MemoryView":326 * * @cname('__pyx_memoryview') * cdef class memoryview(object): # <<<<<<<<<<<<<< * * cdef object obj */ struct __pyx_memoryview_obj { PyObject_HEAD struct __pyx_vtabstruct_memoryview *__pyx_vtab; PyObject *obj; PyObject *_size; PyObject *_array_interface; PyThread_type_lock lock; __pyx_atomic_int acquisition_count[2]; __pyx_atomic_int *acquisition_count_aligned_p; Py_buffer view; int flags; int dtype_is_object; __Pyx_TypeInfo *typeinfo; }; /* "View.MemoryView":951 * * @cname('__pyx_memoryviewslice') * cdef class _memoryviewslice(memoryview): # <<<<<<<<<<<<<< * "Internal class for passing memoryview slices to Python" * */ struct __pyx_memoryviewslice_obj { struct __pyx_memoryview_obj __pyx_base; __Pyx_memviewslice from_slice; PyObject *from_object; PyObject *(*to_object_func)(char *); int (*to_dtype_func)(char *, PyObject *); }; /* "silx/image/shapes.pyx":49 * * * cdef class Polygon(object): # <<<<<<<<<<<<<< * """Define a polygon that provides inside check and mask generation. * */ struct __pyx_vtabstruct_4silx_5image_6shapes_Polygon { int (*c_is_inside)(struct __pyx_obj_4silx_5image_6shapes_Polygon *, float, float); }; static struct __pyx_vtabstruct_4silx_5image_6shapes_Polygon *__pyx_vtabptr_4silx_5image_6shapes_Polygon; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_vtabstruct_array { PyObject *(*get_memview)(struct __pyx_array_obj *); }; static struct __pyx_vtabstruct_array *__pyx_vtabptr_array; /* "View.MemoryView":326 * * @cname('__pyx_memoryview') * cdef class memoryview(object): # <<<<<<<<<<<<<< * * cdef object obj */ struct __pyx_vtabstruct_memoryview { char *(*get_item_pointer)(struct __pyx_memoryview_obj *, PyObject *); PyObject *(*is_slice)(struct __pyx_memoryview_obj *, PyObject *); PyObject *(*setitem_slice_assignment)(struct __pyx_memoryview_obj *, PyObject *, PyObject *); PyObject *(*setitem_slice_assign_scalar)(struct __pyx_memoryview_obj *, struct __pyx_memoryview_obj *, PyObject *); PyObject *(*setitem_indexed)(struct __pyx_memoryview_obj *, PyObject *, PyObject *); PyObject *(*convert_item_to_object)(struct __pyx_memoryview_obj *, char *); PyObject *(*assign_item_from_object)(struct __pyx_memoryview_obj *, char *, PyObject *); }; static struct __pyx_vtabstruct_memoryview *__pyx_vtabptr_memoryview; /* "View.MemoryView":951 * * @cname('__pyx_memoryviewslice') * cdef class _memoryviewslice(memoryview): # <<<<<<<<<<<<<< * "Internal class for passing memoryview slices to Python" * */ struct __pyx_vtabstruct__memoryviewslice { struct __pyx_vtabstruct_memoryview __pyx_base; 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/* GetModuleGlobalName.proto */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /* PyObjectCall.proto */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); #else #define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif /* BufferFormatCheck.proto */ static CYTHON_INLINE int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts); static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type); // PROTO /* MemviewSliceInit.proto */ #define __Pyx_BUF_MAX_NDIMS %(BUF_MAX_NDIMS)d #define __Pyx_MEMVIEW_DIRECT 1 #define __Pyx_MEMVIEW_PTR 2 #define __Pyx_MEMVIEW_FULL 4 #define __Pyx_MEMVIEW_CONTIG 8 #define __Pyx_MEMVIEW_STRIDED 16 #define __Pyx_MEMVIEW_FOLLOW 32 #define __Pyx_IS_C_CONTIG 1 #define __Pyx_IS_F_CONTIG 2 static int __Pyx_init_memviewslice( struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference); static CYTHON_INLINE int __pyx_add_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); static CYTHON_INLINE int __pyx_sub_acquisition_count_locked( __pyx_atomic_int *acquisition_count, PyThread_type_lock lock); #define __pyx_get_slice_count_pointer(memview) (memview->acquisition_count_aligned_p) #define __pyx_get_slice_count(memview) (*__pyx_get_slice_count_pointer(memview)) #define __PYX_INC_MEMVIEW(slice, have_gil) __Pyx_INC_MEMVIEW(slice, have_gil, __LINE__) #define __PYX_XDEC_MEMVIEW(slice, have_gil) __Pyx_XDEC_MEMVIEW(slice, have_gil, __LINE__) static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *, int, int); static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *, int, int); /* PyThreadStateGet.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyThreadState_declare PyThreadState *__pyx_tstate; #define __Pyx_PyThreadState_assign __pyx_tstate = PyThreadState_GET(); #else #define __Pyx_PyThreadState_declare #define __Pyx_PyThreadState_assign #endif /* PyErrFetchRestore.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ErrRestoreWithState(type, value, tb) __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb) #define __Pyx_ErrRestore(type, value, tb) __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb) #define __Pyx_ErrFetch(type, value, tb) __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else #define __Pyx_ErrRestoreWithState(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetchWithState(type, value, tb) PyErr_Fetch(type, value, tb) #define __Pyx_ErrRestore(type, value, tb) PyErr_Restore(type, value, tb) #define __Pyx_ErrFetch(type, value, tb) PyErr_Fetch(type, value, tb) #endif /* WriteUnraisableException.proto */ static void __Pyx_WriteUnraisable(const char *name, int clineno, int lineno, const char *filename, int full_traceback, int nogil); /* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_AddObjC(op1, op2, intval, inplace)\ (inplace ? 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/* RaiseNoneIterError.proto */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); /* ExtTypeTest.proto */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /* SaveResetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_ExceptionSave(type, value, tb) __Pyx__ExceptionSave(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #define __Pyx_ExceptionReset(type, value, tb) __Pyx__ExceptionReset(__pyx_tstate, type, value, tb) static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb); #else #define __Pyx_ExceptionSave(type, value, tb) PyErr_GetExcInfo(type, value, tb) #define __Pyx_ExceptionReset(type, value, tb) PyErr_SetExcInfo(type, value, tb) #endif /* PyErrExceptionMatches.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err) static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err); 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/*proto*/ /* ListCompAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* ForceInitThreads.proto */ #ifndef __PYX_FORCE_INIT_THREADS #define __PYX_FORCE_INIT_THREADS 0 #endif /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_float(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_float(const char *itemp, PyObject *obj); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_char(unsigned char value); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_unsigned_char(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_unsigned_char(const char *itemp, PyObject *obj); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_int(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_int(const char *itemp, PyObject *obj); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE unsigned char __Pyx_PyInt_As_unsigned_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dsds_float(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dsds_unsigned_char(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dsds_int(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static int __pyx_f_4silx_5image_6shapes_7Polygon_c_is_inside(struct __pyx_obj_4silx_5image_6shapes_Polygon *__pyx_v_self, float __pyx_v_row, float __pyx_v_col); /* proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'libc.math' */ /* Module declarations from 'silx.image.shapes' */ static PyTypeObject *__pyx_ptype_4silx_5image_6shapes_Polygon = 0; static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_unsigned_char = { "unsigned char", NULL, sizeof(unsigned char), { 0 }, 0, IS_UNSIGNED(unsigned char) ? 'U' : 'I', IS_UNSIGNED(unsigned char), 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_int = { "int", NULL, sizeof(int), { 0 }, 0, IS_UNSIGNED(int) ? 'U' : 'I', IS_UNSIGNED(int), 0 }; #define __Pyx_MODULE_NAME "silx.image.shapes" int __pyx_module_is_main_silx__image__shapes = 0; /* Implementation of 'silx.image.shapes' */ static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_min; static PyObject *__pyx_builtin_max; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_O[] = "O"; static const char __pyx_k_a[] = "a"; static const char __pyx_k_b[] = "b"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_da[] = "da"; static const char __pyx_k_db[] = "db"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_col[] = "col"; static const char __pyx_k_dev[] = "dev"; static const char __pyx_k_max[] = "max"; static const char __pyx_k_min[] = "min"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_row[] = "row"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_ccol[] = "ccol"; static const char __pyx_k_col0[] = "col0"; static const char __pyx_k_col1[] = "col1"; static const char __pyx_k_cols[] = "cols"; static const char __pyx_k_crow[] = "crow"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_dcol[] = "dcol"; static const char __pyx_k_drow[] = "drow"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_row0[] = "row0"; static const char __pyx_k_row1[] = "row1"; static const char __pyx_k_rows[] = "rows"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_delta[] = "delta"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_empty[] = "empty"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_index[] = "index"; static const char __pyx_k_int32[] = "int32"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_uint8[] = "uint8"; static const char __pyx_k_where[] = "where"; static const char __pyx_k_width[] = "width"; static const char __pyx_k_zeros[] = "zeros"; static const char __pyx_k_arange[] = "arange"; static const char __pyx_k_coords[] = "coords"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_height[] = "height"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_offset[] = "offset"; static const char __pyx_k_radius[] = "radius"; static const char __pyx_k_status[] = "__status__"; static const char __pyx_k_step_a[] = "step_a"; static const char __pyx_k_step_b[] = "step_b"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_asarray[] = "asarray"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_float32[] = "float32"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_a_coords[] = "a_coords"; static const char __pyx_k_b_coords[] = "b_coords"; static const char __pyx_k_i_radius[] = "i_radius"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_vertices[] = "vertices"; static const char __pyx_k_T_Vincent[] = "T. Vincent"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_draw_line[] = "draw_line"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_make_mask[] = "make_mask"; static const char __pyx_k_03_06_2016[] = "03/06/2016"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_len_coords[] = "len_coords"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_circle_fill[] = "circle_fill"; static const char __pyx_k_Jrme_Kieffer[] = "J\303\251r\303\264me Kieffer"; static const char __pyx_k_invert_coords[] = "invert_coords"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_ascontiguousarray[] = "ascontiguousarray"; static const char __pyx_k_polygon_fill_mask[] = "polygon_fill_mask"; static const char __pyx_k_silx_image_shapes[] = "silx.image.shapes"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_users_kieffer_workspace_400_rel[] = "/users/kieffer/workspace-400/release/silx/silx/image/shapes.pyx"; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_This_module_provides_functions_m[] = "This module provides functions making masks on an image.\n\n- :func:`circle_fill` function generates coordinates of a circle in an image.\n- :func:`draw_line` function generates coordinates of a line in an image.\n- :func:`polygon_fill_mask` function generates a mask from a set of points\n defining a polygon.\n\nThe :class:`Polygon` class provides checking if a point is inside a polygon.\n\nThe whole module uses the (row, col) (i.e., (y, x))) convention\nfor 2D coordinates.\n"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static PyObject *__pyx_kp_s_03_06_2016; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_kp_s_Jrme_Kieffer; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_T_Vincent; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_n_s_a; static PyObject *__pyx_n_s_a_coords; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_arange; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_asarray; static PyObject *__pyx_n_s_ascontiguousarray; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_b; static PyObject *__pyx_n_s_b_coords; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_ccol; static PyObject *__pyx_n_s_circle_fill; static PyObject *__pyx_n_s_class; static PyObject *__pyx_n_s_col; static PyObject *__pyx_n_s_col0; static PyObject *__pyx_n_s_col1; static PyObject *__pyx_n_s_cols; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_coords; static PyObject *__pyx_n_s_crow; static PyObject *__pyx_n_s_da; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_db; static PyObject *__pyx_n_s_dcol; static PyObject *__pyx_n_s_delta; static PyObject *__pyx_n_s_dev; static PyObject *__pyx_n_s_draw_line; static PyObject *__pyx_n_s_drow; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_empty; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float32; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_height; static PyObject *__pyx_n_s_i_radius; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_index; static PyObject *__pyx_n_s_int32; static PyObject *__pyx_n_s_invert_coords; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_len_coords; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_make_mask; static PyObject *__pyx_n_s_max; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_min; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_offset; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_polygon_fill_mask; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_radius; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_reshape; 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and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ __pyx_t_1 = (__pyx_v_have_step != 0); if (__pyx_t_1) { } else { __pyx_t_2 = __pyx_t_1; goto __pyx_L9_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step == 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L9_bool_binop_done:; if (__pyx_t_2) { /* "View.MemoryView":824 * * if have_step and step == 0: * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) # <<<<<<<<<<<<<< * * */ __pyx_t_3 = __pyx_memoryview_err_dim(__pyx_builtin_ValueError, ((char *)"Step may not be zero (axis %d)"), __pyx_v_dim); if (unlikely(__pyx_t_3 == -1)) __PYX_ERR(1, 824, __pyx_L1_error) /* "View.MemoryView":823 * negative_step = have_step != 0 and step < 0 * * if have_step and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ } /* "View.MemoryView":827 * * * if have_start: # <<<<<<<<<<<<<< * if start < 0: * start += shape */ __pyx_t_2 = (__pyx_v_have_start != 0); if (__pyx_t_2) { /* "View.MemoryView":828 * * if have_start: * if start < 0: # <<<<<<<<<<<<<< * start += shape * if start < 0: */ __pyx_t_2 = ((__pyx_v_start < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":829 * if have_start: * if start < 0: * start += shape # <<<<<<<<<<<<<< * if start < 0: * start = 0 */ __pyx_v_start = (__pyx_v_start + __pyx_v_shape); /* "View.MemoryView":830 * if start < 0: * start += shape * if start < 0: # <<<<<<<<<<<<<< * start = 0 * elif start >= shape: */ __pyx_t_2 = ((__pyx_v_start < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":831 * start += shape * if start < 0: * start = 0 # <<<<<<<<<<<<<< * elif start >= shape: * if negative_step: */ __pyx_v_start = 0; /* "View.MemoryView":830 * if start < 0: * start += shape * if start < 0: # <<<<<<<<<<<<<< * start = 0 * elif start >= shape: */ } /* "View.MemoryView":828 * * if have_start: * if start < 0: # <<<<<<<<<<<<<< * start += shape * if start < 0: */ goto __pyx_L12; } /* "View.MemoryView":832 * if start < 0: * start = 0 * elif start >= shape: # <<<<<<<<<<<<<< * if negative_step: * start = shape - 1 */ __pyx_t_2 = ((__pyx_v_start >= __pyx_v_shape) != 0); if (__pyx_t_2) { /* "View.MemoryView":833 * start = 0 * elif start >= shape: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":834 * elif start >= shape: * if negative_step: * start = shape - 1 # <<<<<<<<<<<<<< * else: * start = shape */ __pyx_v_start = (__pyx_v_shape - 1); /* "View.MemoryView":833 * start = 0 * elif start >= shape: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ goto __pyx_L14; } /* "View.MemoryView":836 * start = shape - 1 * else: * start = shape # <<<<<<<<<<<<<< * else: * if negative_step: */ /*else*/ { __pyx_v_start = __pyx_v_shape; } __pyx_L14:; /* "View.MemoryView":832 * if start < 0: * start = 0 * elif start >= shape: # <<<<<<<<<<<<<< * if negative_step: * start = shape - 1 */ } __pyx_L12:; /* "View.MemoryView":827 * * * if have_start: # <<<<<<<<<<<<<< * if start < 0: * start += shape */ goto __pyx_L11; } /* "View.MemoryView":838 * start = shape * else: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ /*else*/ { __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":839 * else: * if negative_step: * start = shape - 1 # <<<<<<<<<<<<<< * else: * start = 0 */ __pyx_v_start = (__pyx_v_shape - 1); /* "View.MemoryView":838 * start = shape * else: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ goto __pyx_L15; } /* "View.MemoryView":841 * start = shape - 1 * else: * start = 0 # <<<<<<<<<<<<<< * * if have_stop: */ /*else*/ { __pyx_v_start = 0; } __pyx_L15:; } __pyx_L11:; /* "View.MemoryView":843 * start = 0 * * if have_stop: # <<<<<<<<<<<<<< * if stop < 0: * stop += shape */ __pyx_t_2 = (__pyx_v_have_stop != 0); if (__pyx_t_2) { /* "View.MemoryView":844 * * if have_stop: * if stop < 0: # <<<<<<<<<<<<<< * stop += shape * if stop < 0: */ __pyx_t_2 = ((__pyx_v_stop < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":845 * if have_stop: * if stop < 0: * stop += shape # <<<<<<<<<<<<<< * if stop < 0: * stop = 0 */ __pyx_v_stop = (__pyx_v_stop + __pyx_v_shape); /* "View.MemoryView":846 * if stop < 0: * stop += shape * if stop < 0: # <<<<<<<<<<<<<< * stop = 0 * elif stop > shape: */ __pyx_t_2 = ((__pyx_v_stop < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":847 * stop += shape * if stop < 0: * stop = 0 # <<<<<<<<<<<<<< * elif stop > shape: * stop = shape */ __pyx_v_stop = 0; /* "View.MemoryView":846 * if stop < 0: * stop += shape * if stop < 0: # <<<<<<<<<<<<<< * stop = 0 * elif stop > shape: */ } /* "View.MemoryView":844 * * if have_stop: * if stop < 0: # <<<<<<<<<<<<<< * stop += shape * if stop < 0: */ goto __pyx_L17; } /* "View.MemoryView":848 * if stop < 0: * stop = 0 * elif stop > shape: # <<<<<<<<<<<<<< * stop = shape * else: */ __pyx_t_2 = ((__pyx_v_stop > __pyx_v_shape) != 0); if (__pyx_t_2) { /* "View.MemoryView":849 * stop = 0 * elif stop > shape: * stop = shape # <<<<<<<<<<<<<< * else: * if negative_step: */ __pyx_v_stop = __pyx_v_shape; /* "View.MemoryView":848 * if stop < 0: * stop = 0 * elif stop > shape: # <<<<<<<<<<<<<< * stop = shape * else: */ } __pyx_L17:; /* "View.MemoryView":843 * start = 0 * * if have_stop: # <<<<<<<<<<<<<< * if stop < 0: * stop += shape */ goto __pyx_L16; } /* "View.MemoryView":851 * stop = shape * else: * if negative_step: # <<<<<<<<<<<<<< * stop = -1 * else: */ /*else*/ { __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":852 * else: * if negative_step: * stop = -1 # <<<<<<<<<<<<<< * else: * stop = shape */ __pyx_v_stop = -1L; /* "View.MemoryView":851 * stop = shape * else: * if negative_step: # <<<<<<<<<<<<<< * stop = -1 * else: */ goto __pyx_L19; } /* "View.MemoryView":854 * stop = -1 * else: * stop = shape # <<<<<<<<<<<<<< * * if not have_step: */ /*else*/ { __pyx_v_stop = __pyx_v_shape; } __pyx_L19:; } __pyx_L16:; /* "View.MemoryView":856 * stop = shape * * if not have_step: # <<<<<<<<<<<<<< * step = 1 * */ __pyx_t_2 = ((!(__pyx_v_have_step != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":857 * * if not have_step: * step = 1 # <<<<<<<<<<<<<< * * */ __pyx_v_step = 1; /* "View.MemoryView":856 * stop = shape * * if not have_step: # <<<<<<<<<<<<<< * step = 1 * */ } /* "View.MemoryView":861 * * with cython.cdivision(True): * new_shape = (stop - start) // step # <<<<<<<<<<<<<< * * if (stop - start) - step * new_shape: */ __pyx_v_new_shape = ((__pyx_v_stop - __pyx_v_start) / __pyx_v_step); /* "View.MemoryView":863 * new_shape = (stop - start) // step * * if (stop - start) - step * new_shape: # <<<<<<<<<<<<<< * new_shape += 1 * */ __pyx_t_2 = (((__pyx_v_stop - __pyx_v_start) - (__pyx_v_step * __pyx_v_new_shape)) != 0); if (__pyx_t_2) { /* "View.MemoryView":864 * * if (stop - start) - step * new_shape: * new_shape += 1 # <<<<<<<<<<<<<< * * if new_shape < 0: */ __pyx_v_new_shape = (__pyx_v_new_shape + 1); 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(__pyx_v_dst->suboffsets[__pyx_t_3]) = ((__pyx_v_dst->suboffsets[__pyx_t_3]) + (__pyx_v_start * __pyx_v_stride)); } __pyx_L23:; /* "View.MemoryView":880 * dst.suboffsets[suboffset_dim[0]] += start * stride * * if suboffset >= 0: # <<<<<<<<<<<<<< * if not is_slice: * if new_ndim == 0: */ __pyx_t_2 = ((__pyx_v_suboffset >= 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":881 * * if suboffset >= 0: * if not is_slice: # <<<<<<<<<<<<<< * if new_ndim == 0: * dst.data = ( dst.data)[0] + suboffset */ __pyx_t_2 = ((!(__pyx_v_is_slice != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":882 * if suboffset >= 0: * if not is_slice: * if new_ndim == 0: # <<<<<<<<<<<<<< * dst.data = ( dst.data)[0] + suboffset * else: */ __pyx_t_2 = ((__pyx_v_new_ndim == 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":883 * if not is_slice: * if new_ndim == 0: * dst.data = ( dst.data)[0] + suboffset # <<<<<<<<<<<<<< * else: * _err_dim(IndexError, "All dimensions preceding dimension %d " */ __pyx_v_dst->data = ((((char 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__pyx_memoryviewslice_type); __pyx_t_2 = (__pyx_t_1 != 0); if (__pyx_t_2) { /* "View.MemoryView":1078 * * if isinstance(memview, _memoryviewslice): * to_object_func = (<_memoryviewslice> memview).to_object_func # <<<<<<<<<<<<<< * to_dtype_func = (<_memoryviewslice> memview).to_dtype_func * else: */ __pyx_t_3 = ((struct __pyx_memoryviewslice_obj *)__pyx_v_memview)->to_object_func; __pyx_v_to_object_func = __pyx_t_3; /* "View.MemoryView":1079 * if isinstance(memview, _memoryviewslice): * to_object_func = (<_memoryviewslice> memview).to_object_func * to_dtype_func = (<_memoryviewslice> memview).to_dtype_func # <<<<<<<<<<<<<< * else: * to_object_func = NULL */ __pyx_t_4 = ((struct __pyx_memoryviewslice_obj *)__pyx_v_memview)->to_dtype_func; __pyx_v_to_dtype_func = __pyx_t_4; /* "View.MemoryView":1077 * cdef int (*to_dtype_func)(char *, object) except 0 * * if isinstance(memview, _memoryviewslice): # <<<<<<<<<<<<<< * to_object_func = (<_memoryviewslice> memview).to_object_func * 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"View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ __pyx_t_1 = ((__pyx_v_arg < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":1094 * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: * return -arg # <<<<<<<<<<<<<< * else: * return arg */ __pyx_r = (-__pyx_v_arg); goto __pyx_L0; /* "View.MemoryView":1093 * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: * if arg < 0: # <<<<<<<<<<<<<< * return -arg * else: */ } /* "View.MemoryView":1096 * return -arg * else: * return arg # <<<<<<<<<<<<<< * * @cname('__pyx_get_best_slice_order') */ /*else*/ { __pyx_r = __pyx_v_arg; goto __pyx_L0; } /* "View.MemoryView":1092 * * * cdef Py_ssize_t abs_py_ssize_t(Py_ssize_t arg) nogil: # <<<<<<<<<<<<<< * if arg < 0: * return -arg */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ static char __pyx_get_best_slice_order(__Pyx_memviewslice *__pyx_v_mslice, int __pyx_v_ndim) { int __pyx_v_i; Py_ssize_t __pyx_v_c_stride; Py_ssize_t __pyx_v_f_stride; char __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":1104 * """ * cdef int i * cdef Py_ssize_t c_stride = 0 # <<<<<<<<<<<<<< * cdef Py_ssize_t f_stride = 0 * */ __pyx_v_c_stride = 0; /* "View.MemoryView":1105 * cdef int i * cdef Py_ssize_t c_stride = 0 * cdef Py_ssize_t f_stride = 0 # <<<<<<<<<<<<<< * * for i in range(ndim - 1, -1, -1): */ __pyx_v_f_stride = 0; /* "View.MemoryView":1107 * cdef Py_ssize_t f_stride = 0 * * for i in range(ndim - 1, -1, -1): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] */ for (__pyx_t_1 = (__pyx_v_ndim - 1); __pyx_t_1 > -1L; __pyx_t_1-=1) { __pyx_v_i = __pyx_t_1; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1109 * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_c_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1110 * if mslice.shape[i] > 1: * c_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * for i in range(ndim): */ goto __pyx_L4_break; /* "View.MemoryView":1108 * * for i in range(ndim - 1, -1, -1): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * c_stride = mslice.strides[i] * break */ } } __pyx_L4_break:; /* "View.MemoryView":1112 * break * * for i in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ if (__pyx_t_1) { /* "View.MemoryView":1138 * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) # <<<<<<<<<<<<<< * else: * for i in range(dst_extent): */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, (__pyx_v_itemsize * __pyx_v_dst_extent)); /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ goto __pyx_L4; } /* "View.MemoryView":1140 * memcpy(dst_data, src_data, itemsize * dst_extent) * else: * for i in range(dst_extent): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize) * src_data += src_stride */ /*else*/ { __pyx_t_4 = __pyx_v_dst_extent; for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { __pyx_v_i = __pyx_t_5; /* "View.MemoryView":1141 * else: * for i in range(dst_extent): * memcpy(dst_data, src_data, itemsize) # <<<<<<<<<<<<<< * src_data += src_stride * dst_data += dst_stride */ memcpy(__pyx_v_dst_data, __pyx_v_src_data, __pyx_v_itemsize); /* 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__pyx_t_5; /* "View.MemoryView":1146 * else: * for i in range(dst_extent): * _copy_strided_to_strided(src_data, src_strides + 1, # <<<<<<<<<<<<<< * dst_data, dst_strides + 1, * src_shape + 1, dst_shape + 1, */ _copy_strided_to_strided(__pyx_v_src_data, (__pyx_v_src_strides + 1), __pyx_v_dst_data, (__pyx_v_dst_strides + 1), (__pyx_v_src_shape + 1), (__pyx_v_dst_shape + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize); /* "View.MemoryView":1150 * src_shape + 1, dst_shape + 1, * ndim - 1, itemsize) * src_data += src_stride # <<<<<<<<<<<<<< * dst_data += dst_stride * */ __pyx_v_src_data = (__pyx_v_src_data + __pyx_v_src_stride); /* "View.MemoryView":1151 * ndim - 1, itemsize) * src_data += src_stride * dst_data += dst_stride # <<<<<<<<<<<<<< * * cdef void copy_strided_to_strided(__Pyx_memviewslice *src, */ __pyx_v_dst_data = (__pyx_v_dst_data + __pyx_v_dst_stride); } } __pyx_L3:; /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t 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__pyx_v_ndim)); /* "View.MemoryView":1306 * refcount_copying(&dst, dtype_is_object, ndim, False) * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * free(tmpdata) * return 0 */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1307 * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) # <<<<<<<<<<<<<< * return 0 * */ free(__pyx_v_tmpdata); /* "View.MemoryView":1308 * refcount_copying(&dst, dtype_is_object, ndim, True) * free(tmpdata) * return 0 # <<<<<<<<<<<<<< * * if order == 'F' == get_best_order(&dst, ndim): */ __pyx_r = 0; goto __pyx_L0; /* "View.MemoryView":1302 * direct_copy = slice_is_contig(dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ } /* "View.MemoryView":1294 * src = tmp * * if not broadcasting: # 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__pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* 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"View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1399 * * if ndim == 1: * for i in range(extent): # <<<<<<<<<<<<<< * memcpy(data, item, itemsize) * data += stride */ __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1400 * if ndim == 1: * for i in range(extent): * memcpy(data, item, itemsize) # <<<<<<<<<<<<<< * data += stride * else: */ memcpy(__pyx_v_data, __pyx_v_item, __pyx_v_itemsize); /* "View.MemoryView":1401 * for i in range(extent): * memcpy(data, item, itemsize) * data += stride # <<<<<<<<<<<<<< * else: * for i in range(extent): */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ goto __pyx_L3; } /* "View.MemoryView":1403 * data += stride * else: * for i in range(extent): # <<<<<<<<<<<<<< * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) */ /*else*/ { __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1404 * else: * for i in range(extent): * _slice_assign_scalar(data, shape + 1, strides + 1, # <<<<<<<<<<<<<< * ndim - 1, itemsize, item) * data += stride */ __pyx_memoryview__slice_assign_scalar(__pyx_v_data, (__pyx_v_shape + 1), (__pyx_v_strides + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1406 * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) * data += stride # <<<<<<<<<<<<<< * * */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } } __pyx_L3:; /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /* function exit code */ } static struct __pyx_vtabstruct_4silx_5image_6shapes_Polygon __pyx_vtable_4silx_5image_6shapes_Polygon; static PyObject *__pyx_tp_new_4silx_5image_6shapes_Polygon(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_obj_4silx_5image_6shapes_Polygon *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_obj_4silx_5image_6shapes_Polygon *)o); p->__pyx_vtab = __pyx_vtabptr_4silx_5image_6shapes_Polygon; p->vertices.data = NULL; p->vertices.memview = NULL; return o; } static void __pyx_tp_dealloc_4silx_5image_6shapes_Polygon(PyObject *o) { struct __pyx_obj_4silx_5image_6shapes_Polygon *p = (struct __pyx_obj_4silx_5image_6shapes_Polygon *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif __PYX_XDEC_MEMVIEW(&p->vertices, 1); (*Py_TYPE(o)->tp_free)(o); } static PyMethodDef __pyx_methods_4silx_5image_6shapes_Polygon[] = { {"is_inside", (PyCFunction)__pyx_pw_4silx_5image_6shapes_7Polygon_3is_inside, METH_VARARGS|METH_KEYWORDS, __pyx_doc_4silx_5image_6shapes_7Polygon_2is_inside}, {"make_mask", (PyCFunction)__pyx_pw_4silx_5image_6shapes_7Polygon_5make_mask, METH_VARARGS|METH_KEYWORDS, __pyx_doc_4silx_5image_6shapes_7Polygon_4make_mask}, {0, 0, 0, 0} }; static PyTypeObject __pyx_type_4silx_5image_6shapes_Polygon = { PyVarObject_HEAD_INIT(0, 0) "silx.image.shapes.Polygon", /*tp_name*/ sizeof(struct __pyx_obj_4silx_5image_6shapes_Polygon), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_4silx_5image_6shapes_Polygon, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ "Polygon(vertices)\nDefine a polygon that provides inside check and mask generation.\n\n :param vertices: corners of the polygon\n :type vertices: Nx2 array of floats of (row, col)\n ", /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_4silx_5image_6shapes_Polygon, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_pw_4silx_5image_6shapes_7Polygon_1__init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_4silx_5image_6shapes_Polygon, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_array __pyx_vtable_array; static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_array_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_array_obj *)o); p->__pyx_vtab = __pyx_vtabptr_array; p->mode = ((PyObject*)Py_None); Py_INCREF(Py_None); p->_format = ((PyObject*)Py_None); Py_INCREF(Py_None); if (unlikely(__pyx_array___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_array(PyObject *o) { struct __pyx_array_obj *p = (struct __pyx_array_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_array___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->mode); Py_CLEAR(p->_format); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_array(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_array(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_array___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_tp_getattro_array(PyObject *o, PyObject *n) { PyObject *v = PyObject_GenericGetAttr(o, n); if (!v && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Clear(); v = __pyx_array___getattr__(o, n); } return v; } static PyObject *__pyx_getprop___pyx_array_memview(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_5array_7memview_1__get__(o); } static PyMethodDef __pyx_methods_array[] = { {"__getattr__", (PyCFunction)__pyx_array___getattr__, METH_O|METH_COEXIST, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_array[] = { {(char *)"memview", __pyx_getprop___pyx_array_memview, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_array = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_array, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_array = { 0, /*mp_length*/ __pyx_array___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.image.shapes.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.image.shapes.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4base_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_shape(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_5shape_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_strides(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_7strides_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_suboffsets(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_10suboffsets_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_ndim(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4ndim_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_itemsize(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_8itemsize_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_nbytes(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_6nbytes_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_size(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_4size_1__get__(o); } static PyMethodDef __pyx_methods_memoryview[] = { {"is_c_contig", (PyCFunction)__pyx_memoryview_is_c_contig, METH_NOARGS, 0}, {"is_f_contig", (PyCFunction)__pyx_memoryview_is_f_contig, METH_NOARGS, 0}, {"copy", (PyCFunction)__pyx_memoryview_copy, METH_NOARGS, 0}, {"copy_fortran", (PyCFunction)__pyx_memoryview_copy_fortran, METH_NOARGS, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_memoryview[] = { {(char *)"T", __pyx_getprop___pyx_memoryview_T, 0, (char *)0, 0}, {(char *)"base", __pyx_getprop___pyx_memoryview_base, 0, (char *)0, 0}, {(char *)"shape", __pyx_getprop___pyx_memoryview_shape, 0, (char *)0, 0}, {(char *)"strides", __pyx_getprop___pyx_memoryview_strides, 0, (char *)0, 0}, {(char *)"suboffsets", __pyx_getprop___pyx_memoryview_suboffsets, 0, (char *)0, 0}, {(char *)"ndim", __pyx_getprop___pyx_memoryview_ndim, 0, (char *)0, 0}, {(char *)"itemsize", __pyx_getprop___pyx_memoryview_itemsize, 0, (char *)0, 0}, {(char *)"nbytes", __pyx_getprop___pyx_memoryview_nbytes, 0, (char *)0, 0}, {(char *)"size", __pyx_getprop___pyx_memoryview_size, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_memoryview = { __pyx_memoryview___len__, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_memoryview, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_memoryview = { __pyx_memoryview___len__, /*mp_length*/ __pyx_memoryview___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_memoryview, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_memoryview = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_memoryview_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_memoryview = { PyVarObject_HEAD_INIT(0, 0) "silx.image.shapes.memoryview", /*tp_name*/ sizeof(struct __pyx_memoryview_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_memoryview, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, 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Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* RaiseArgTupleInvalid */ static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found) { Py_ssize_t num_expected; const char *more_or_less; if (num_found < num_min) { num_expected = num_min; more_or_less = "at least"; } else { num_expected = num_max; more_or_less = "at most"; } if (exact) { more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* IterFinish */ static CYTHON_INLINE int __Pyx_IterFinish(void) { #if CYTHON_FAST_THREAD_STATE PyThreadState *tstate = PyThreadState_GET(); PyObject* exc_type = tstate->curexc_type; if (unlikely(exc_type)) { if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { PyObject *exc_value, *exc_tb; exc_value = tstate->curexc_value; exc_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; Py_DECREF(exc_type); Py_XDECREF(exc_value); Py_XDECREF(exc_tb); return 0; } else { return -1; } } return 0; #else if (unlikely(PyErr_Occurred())) { if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { PyErr_Clear(); return 0; } else { return -1; } } return 0; #endif } /* UnpackItemEndCheck */ static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { if (unlikely(retval)) { Py_DECREF(retval); __Pyx_RaiseTooManyValuesError(expected); return -1; } else { return __Pyx_IterFinish(); } return 0; } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_float(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(float *) itemp); } static CYTHON_INLINE int __pyx_memview_set_float(const char *itemp, PyObject *obj) { float value = __pyx_PyFloat_AsFloat(obj); if ((value == (float)-1) && PyErr_Occurred()) return 0; *(float *) itemp = value; return 1; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_char(unsigned char value) { const unsigned char neg_one = (unsigned char) -1, const_zero = (unsigned char) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(unsigned char) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(unsigned char) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned char) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(unsigned char) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned char) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(unsigned char), little, !is_unsigned); } } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_unsigned_char(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_unsigned_char(*(unsigned char *) itemp); } static CYTHON_INLINE int __pyx_memview_set_unsigned_char(const char *itemp, PyObject *obj) { unsigned char value = __Pyx_PyInt_As_unsigned_char(obj); if ((value == (unsigned char)-1) && PyErr_Occurred()) return 0; *(unsigned char *) itemp = value; return 1; } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_int(const char *itemp) { return (PyObject *) __Pyx_PyInt_From_int(*(int *) itemp); } static CYTHON_INLINE int __pyx_memview_set_int(const char *itemp, PyObject *obj) { int value = __Pyx_PyInt_As_int(obj); if ((value == (int)-1) && PyErr_Occurred()) return 0; *(int *) itemp = value; return 1; } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE unsigned char __Pyx_PyInt_As_unsigned_char(PyObject *x) { const unsigned char neg_one = (unsigned char) -1, const_zero = (unsigned char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(unsigned char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(unsigned char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (unsigned char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (unsigned char) 0; case 1: __PYX_VERIFY_RETURN_INT(unsigned char, digit, digits[0]) case 2: if (8 * sizeof(unsigned char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) >= 2 * PyLong_SHIFT) { return (unsigned char) (((((unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0])); } } break; case 3: if (8 * sizeof(unsigned char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) >= 3 * PyLong_SHIFT) { return (unsigned char) (((((((unsigned char)digits[2]) << PyLong_SHIFT) | (unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0])); } } break; case 4: if (8 * sizeof(unsigned char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) >= 4 * PyLong_SHIFT) { return (unsigned char) (((((((((unsigned char)digits[3]) << PyLong_SHIFT) | (unsigned char)digits[2]) << PyLong_SHIFT) | (unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (unsigned char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(unsigned char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (unsigned char) 0; case -1: __PYX_VERIFY_RETURN_INT(unsigned char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(unsigned char, digit, +digits[0]) case -2: if (8 * sizeof(unsigned char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) - 1 > 2 * PyLong_SHIFT) { return (unsigned char) (((unsigned char)-1)*(((((unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0]))); } } break; case 2: if (8 * sizeof(unsigned char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) - 1 > 2 * PyLong_SHIFT) { return (unsigned char) ((((((unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0]))); } } break; case -3: if (8 * sizeof(unsigned char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) - 1 > 3 * PyLong_SHIFT) { return (unsigned char) (((unsigned char)-1)*(((((((unsigned char)digits[2]) << PyLong_SHIFT) | (unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0]))); } } break; case 3: if (8 * sizeof(unsigned char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) - 1 > 3 * PyLong_SHIFT) { return (unsigned char) ((((((((unsigned char)digits[2]) << PyLong_SHIFT) | (unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0]))); } } break; case -4: if (8 * sizeof(unsigned char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) - 1 > 4 * PyLong_SHIFT) { return (unsigned char) (((unsigned char)-1)*(((((((((unsigned char)digits[3]) << PyLong_SHIFT) | (unsigned char)digits[2]) << PyLong_SHIFT) | (unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0]))); } } break; case 4: if (8 * sizeof(unsigned char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(unsigned char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(unsigned char) - 1 > 4 * PyLong_SHIFT) { return (unsigned char) ((((((((((unsigned char)digits[3]) << PyLong_SHIFT) | (unsigned char)digits[2]) << PyLong_SHIFT) | (unsigned char)digits[1]) << PyLong_SHIFT) | (unsigned char)digits[0]))); } } break; } #endif if (sizeof(unsigned char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(unsigned char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(unsigned char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else unsigned char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (unsigned char) -1; } } else { unsigned char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (unsigned char) -1; val = __Pyx_PyInt_As_unsigned_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to unsigned char"); return (unsigned char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to unsigned char"); return (unsigned char) -1; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dsds_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 2, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dsds_unsigned_char(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 2, &__Pyx_TypeInfo_unsigned_char, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dsds_int(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 2, &__Pyx_TypeInfo_int, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/image/bilinear.c0000644023630100076410000314700313202530432017135 0ustar knobelusers00000000000000/* Generated by Cython 0.25.2 */ /* BEGIN: Cython Metadata { "distutils": { "depends": [], "language": "c" }, "module_name": "silx.image.bilinear" } END: Cython Metadata */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) #error Cython requires Python 2.6+ or Python 3.2+. #else #define CYTHON_ABI "0_25_2" #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000) #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #elif !defined(CYTHON_USE_PYLONG_INTERNALS) #define CYTHON_USE_PYLONG_INTERNALS 1 #endif #ifndef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 1 #endif #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #if PY_VERSION_HEX < 0x030300F0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #elif !defined(CYTHON_USE_UNICODE_WRITER) #define CYTHON_USE_UNICODE_WRITER 1 #endif #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #ifndef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 1 #endif #ifndef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 1 #endif #endif #if !defined(CYTHON_FAST_PYCCALL) #define CYTHON_FAST_PYCCALL (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1) #endif #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #undef SHIFT #undef BASE #undef MASK #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 && !defined(Py_OptimizeFlag) #define Py_OptimizeFlag 0 #endif #define __PYX_BUILD_PY_SSIZE_T "n" #define CYTHON_FORMAT_SSIZE_T "z" #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyType_Type #endif #ifndef Py_TPFLAGS_CHECKTYPES #define Py_TPFLAGS_CHECKTYPES 0 #endif #ifndef Py_TPFLAGS_HAVE_INDEX #define Py_TPFLAGS_HAVE_INDEX 0 #endif #ifndef Py_TPFLAGS_HAVE_NEWBUFFER #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif #ifndef Py_TPFLAGS_HAVE_FINALIZE #define Py_TPFLAGS_HAVE_FINALIZE 0 #endif #ifndef METH_FASTCALL #define METH_FASTCALL 0x80 typedef PyObject *(*__Pyx_PyCFunctionFast) (PyObject *self, PyObject **args, Py_ssize_t nargs, PyObject *kwnames); #else #define __Pyx_PyCFunctionFast _PyCFunctionFast #endif #if CYTHON_FAST_PYCCALL #define __Pyx_PyFastCFunction_Check(func)\ ((PyCFunction_Check(func) && (METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))))) #else #define __Pyx_PyFastCFunction_Check(func) 0 #endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ?\ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) PyUnicode_MAX_CHAR_VALUE(u) #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) PyUnicode_WRITE(k, d, i, ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != (likely(PyUnicode_IS_READY(u)) ? PyUnicode_GET_LENGTH(u) : PyUnicode_GET_SIZE(u))) #else #define CYTHON_PEP393_ENABLED 0 #define PyUnicode_1BYTE_KIND 1 #define PyUnicode_2BYTE_KIND 2 #define PyUnicode_4BYTE_KIND 4 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) ((sizeof(Py_UNICODE) == 2) ? 65535 : 1114111) #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) (((void)(k)), ((Py_UNICODE*)d)[i] = ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != PyUnicode_GET_SIZE(u)) #endif #if CYTHON_COMPILING_IN_PYPY #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) #else #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ?\ PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyUnicode_Contains) #define PyUnicode_Contains(u, s) PySequence_Contains(u, s) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyByteArray_Check) #define PyByteArray_Check(obj) PyObject_TypeCheck(obj, &PyByteArray_Type) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Format) #define PyObject_Format(obj, fmt) PyObject_CallMethod(obj, "__format__", "O", fmt) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Malloc) #define PyObject_Malloc(s) PyMem_Malloc(s) #define PyObject_Free(p) PyMem_Free(p) #define PyObject_Realloc(p) PyMem_Realloc(p) #endif #if CYTHON_COMPILING_IN_PYSTON #define __Pyx_PyCode_HasFreeVars(co) PyCode_HasFreeVars(co) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) PyFrame_SetLineNumber(frame, lineno) #else #define __Pyx_PyCode_HasFreeVars(co) (PyCode_GetNumFree(co) > 0) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) (frame)->f_lineno = (lineno) #endif #define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) #define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) #else #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION < 3 && !defined(PyObject_ASCII) #define PyObject_ASCII(o) PyObject_Repr(o) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type #define PyStringObject PyUnicodeObject #define PyString_Type PyUnicode_Type #define PyString_Check PyUnicode_Check #define PyString_CheckExact PyUnicode_CheckExact #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) #else #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj)) #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) #endif #ifndef PySet_CheckExact #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) #endif #define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) #define __Pyx_PyException_Check(obj) __Pyx_TypeCheck(obj, PyExc_Exception) #if PY_MAJOR_VERSION >= 3 #define PyIntObject PyLongObject #define PyInt_Type PyLong_Type #define PyInt_Check(op) PyLong_Check(op) #define PyInt_CheckExact(op) PyLong_CheckExact(op) #define PyInt_FromString PyLong_FromString #define PyInt_FromUnicode PyLong_FromUnicode #define PyInt_FromLong PyLong_FromLong #define PyInt_FromSize_t PyLong_FromSize_t #define PyInt_FromSsize_t PyLong_FromSsize_t #define PyInt_AsLong PyLong_AsLong #define PyInt_AS_LONG PyLong_AS_LONG #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif #if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY #ifndef PyUnicode_InternFromString #define PyUnicode_InternFromString(s) PyUnicode_FromString(s) #endif #endif #if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong #else #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) #else #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) #endif #if CYTHON_USE_ASYNC_SLOTS #if PY_VERSION_HEX >= 0x030500B1 #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async) #else typedef struct { unaryfunc am_await; unaryfunc am_aiter; unaryfunc am_anext; } __Pyx_PyAsyncMethodsStruct; #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved)) #endif #else #define __Pyx_PyType_AsAsync(obj) NULL #endif #ifndef CYTHON_RESTRICT #if defined(__GNUC__) #define CYTHON_RESTRICT __restrict__ #elif defined(_MSC_VER) && _MSC_VER >= 1400 #define CYTHON_RESTRICT __restrict #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_RESTRICT restrict #else #define CYTHON_RESTRICT #endif #endif #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif # elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif #endif #ifndef CYTHON_MAYBE_UNUSED_VAR # if defined(__cplusplus) template void CYTHON_MAYBE_UNUSED_VAR( const T& ) { } # else # define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x) # endif #endif #ifndef CYTHON_NCP_UNUSED # if CYTHON_COMPILING_IN_CPYTHON # define CYTHON_NCP_UNUSED # else # define CYTHON_NCP_UNUSED CYTHON_UNUSED # endif #endif #define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None) #ifndef CYTHON_INLINE #if defined(__clang__) #define CYTHON_INLINE __inline__ __attribute__ ((__unused__)) #elif defined(__GNUC__) #define CYTHON_INLINE __inline__ #elif defined(_MSC_VER) #define CYTHON_INLINE __inline #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_INLINE inline #else #define CYTHON_INLINE #endif #endif #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__silx__image__bilinear #define __PYX_HAVE_API__silx__image__bilinear #include #include "pythread.h" #include #include #include #include "pystate.h" #ifdef _OPENMP #include #endif /* _OPENMP */ #ifdef PYREX_WITHOUT_ASSERTIONS #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) && defined (_M_X64) #define __Pyx_sst_abs(value) _abs64(value) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) #if PY_MAJOR_VERSION < 3 static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #else #define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen #endif #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; if (strcmp(default_encoding_c, "ascii") == 0) { __Pyx_sys_getdefaultencoding_not_ascii = 0; } else { char ascii_chars[128]; int c; for (c = 0; c < 128; c++) { ascii_chars[c] = c; } __Pyx_sys_getdefaultencoding_not_ascii = 1; ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); if (!ascii_chars_u) goto bad; ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { PyErr_Format( PyExc_ValueError, "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", default_encoding_c); goto bad; } Py_DECREF(ascii_chars_u); Py_DECREF(ascii_chars_b); } Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); Py_XDECREF(ascii_chars_u); Py_XDECREF(ascii_chars_b); return -1; } #endif #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) #else #define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) #if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT static char* __PYX_DEFAULT_STRING_ENCODING; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; default_encoding_c = PyBytes_AsString(default_encoding); if (!default_encoding_c) goto bad; __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); Py_DECREF(default_encoding); return 0; bad: Py_XDECREF(default_encoding); return -1; } #endif #endif /* Test for GCC > 2.95 */ #if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) #define likely(x) __builtin_expect(!!(x), 1) #define unlikely(x) __builtin_expect(!!(x), 0) #else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ static PyObject *__pyx_m; static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; static PyObject *__pyx_empty_unicode; static int __pyx_lineno; static int __pyx_clineno = 0; static const char * __pyx_cfilenm= __FILE__; static const char *__pyx_filename; static const char *__pyx_f[] = { "silx/image/bilinear.pyx", "stringsource", }; /* MemviewSliceStruct.proto */ struct __pyx_memoryview_obj; typedef struct { struct __pyx_memoryview_obj *memview; char *data; Py_ssize_t shape[8]; Py_ssize_t strides[8]; Py_ssize_t suboffsets[8]; } __Pyx_memviewslice; /* BufferFormatStructs.proto */ #define IS_UNSIGNED(type) (((type) -1) > 0) struct __Pyx_StructField_; #define __PYX_BUF_FLAGS_PACKED_STRUCT (1 << 0) typedef struct { const char* name; struct __Pyx_StructField_* fields; size_t size; size_t arraysize[8]; int ndim; char typegroup; char is_unsigned; int flags; } __Pyx_TypeInfo; typedef struct __Pyx_StructField_ { __Pyx_TypeInfo* type; const char* name; size_t offset; } __Pyx_StructField; typedef struct { __Pyx_StructField* field; size_t parent_offset; } __Pyx_BufFmt_StackElem; typedef struct { __Pyx_StructField root; __Pyx_BufFmt_StackElem* head; size_t fmt_offset; size_t new_count, enc_count; size_t struct_alignment; int is_complex; char enc_type; char new_packmode; char enc_packmode; char is_valid_array; } __Pyx_BufFmt_Context; /* Atomics.proto */ #include #ifndef CYTHON_ATOMICS #define CYTHON_ATOMICS 1 #endif #define __pyx_atomic_int_type int #if CYTHON_ATOMICS && __GNUC__ >= 4 && (__GNUC_MINOR__ > 1 ||\ (__GNUC_MINOR__ == 1 && __GNUC_PATCHLEVEL >= 2)) &&\ !defined(__i386__) #define __pyx_atomic_incr_aligned(value, lock) __sync_fetch_and_add(value, 1) #define __pyx_atomic_decr_aligned(value, lock) __sync_fetch_and_sub(value, 1) #ifdef __PYX_DEBUG_ATOMICS #warning "Using GNU atomics" #endif #elif CYTHON_ATOMICS && defined(_MSC_VER) && 0 #include #undef __pyx_atomic_int_type #define __pyx_atomic_int_type LONG #define __pyx_atomic_incr_aligned(value, lock) InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #pragma message ("Using MSVC atomics") #endif #elif CYTHON_ATOMICS && (defined(__ICC) || defined(__INTEL_COMPILER)) && 0 #define __pyx_atomic_incr_aligned(value, lock) _InterlockedIncrement(value) #define __pyx_atomic_decr_aligned(value, lock) _InterlockedDecrement(value) #ifdef __PYX_DEBUG_ATOMICS #warning "Using Intel atomics" #endif #else #undef CYTHON_ATOMICS #define CYTHON_ATOMICS 0 #ifdef __PYX_DEBUG_ATOMICS #warning "Not using atomics" #endif #endif typedef volatile __pyx_atomic_int_type __pyx_atomic_int; #if CYTHON_ATOMICS #define __pyx_add_acquisition_count(memview)\ __pyx_atomic_incr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_atomic_decr_aligned(__pyx_get_slice_count_pointer(memview), memview->lock) #else #define __pyx_add_acquisition_count(memview)\ __pyx_add_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #define __pyx_sub_acquisition_count(memview)\ __pyx_sub_acquisition_count_locked(__pyx_get_slice_count_pointer(memview), memview->lock) #endif /*--- Type declarations ---*/ struct __pyx_obj_4silx_5image_8bilinear_BilinearImage; struct __pyx_array_obj; struct __pyx_MemviewEnum_obj; struct __pyx_memoryview_obj; struct __pyx_memoryviewslice_obj; /* "silx/image/bilinear.pyx":39 * * * cdef class BilinearImage: # <<<<<<<<<<<<<< * """Bilinear interpolator for images ... or any data on a regular grid * """ */ struct __pyx_obj_4silx_5image_8bilinear_BilinearImage { PyObject_HEAD struct __pyx_vtabstruct_4silx_5image_8bilinear_BilinearImage *__pyx_vtab; __Pyx_memviewslice data; float maxi; float mini; size_t width; size_t height; }; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_array_obj { PyObject_HEAD struct __pyx_vtabstruct_array *__pyx_vtab; char *data; Py_ssize_t len; char *format; int ndim; Py_ssize_t *_shape; Py_ssize_t *_strides; Py_ssize_t itemsize; PyObject *mode; PyObject *_format; void (*callback_free_data)(void *); int free_data; int dtype_is_object; }; /* "View.MemoryView":275 * * @cname('__pyx_MemviewEnum') * cdef class Enum(object): # <<<<<<<<<<<<<< * cdef object name * def __init__(self, name): */ struct __pyx_MemviewEnum_obj { PyObject_HEAD PyObject *name; }; /* "View.MemoryView":326 * * @cname('__pyx_memoryview') * cdef class memoryview(object): # <<<<<<<<<<<<<< * * cdef object obj */ struct __pyx_memoryview_obj { PyObject_HEAD struct __pyx_vtabstruct_memoryview *__pyx_vtab; PyObject *obj; PyObject *_size; PyObject *_array_interface; PyThread_type_lock lock; __pyx_atomic_int acquisition_count[2]; __pyx_atomic_int *acquisition_count_aligned_p; Py_buffer view; int flags; int dtype_is_object; __Pyx_TypeInfo *typeinfo; }; /* "View.MemoryView":951 * * @cname('__pyx_memoryviewslice') * cdef class _memoryviewslice(memoryview): # <<<<<<<<<<<<<< * "Internal class for passing memoryview slices to Python" * */ struct __pyx_memoryviewslice_obj { struct __pyx_memoryview_obj __pyx_base; __Pyx_memviewslice from_slice; PyObject *from_object; PyObject *(*to_object_func)(char *); int (*to_dtype_func)(char *, PyObject *); }; /* "View.MemoryView":103 * * @cname("__pyx_array") * cdef class array: # <<<<<<<<<<<<<< * * cdef: */ struct __pyx_vtabstruct_array { PyObject *(*get_memview)(struct __pyx_array_obj *); }; static struct __pyx_vtabstruct_array *__pyx_vtabptr_array; /* "silx/image/bilinear.pyx":39 * * * cdef class BilinearImage: # <<<<<<<<<<<<<< * """Bilinear interpolator for images ... or any data on a regular grid * """ */ struct __pyx_vtabstruct_4silx_5image_8bilinear_BilinearImage { size_t (*coarse_local_maxi)(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *, size_t, int __pyx_skip_dispatch); 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/* PyIntBinop.proto */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace); #else #define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\ PyObject_RichCompare(op1, op2, Py_EQ) #endif /* GetItemInt.proto */ #define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\ (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\ __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ (is_list ? 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PyNumber_InPlaceAdd(op1, op2) : PyNumber_Add(op1, op2)) #endif /* ListExtend.proto */ static CYTHON_INLINE int __Pyx_PyList_Extend(PyObject* L, PyObject* v) { #if CYTHON_COMPILING_IN_CPYTHON PyObject* none = _PyList_Extend((PyListObject*)L, v); if (unlikely(!none)) return -1; Py_DECREF(none); return 0; #else return PyList_SetSlice(L, PY_SSIZE_T_MAX, PY_SSIZE_T_MAX, v); #endif } /* ListAppend.proto */ #if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { Py_INCREF(x); PyList_SET_ITEM(list, len, x); Py_SIZE(list) = len+1; return 0; } return PyList_Append(list, x); } #else #define __Pyx_PyList_Append(L,x) PyList_Append(L,x) #endif /* None.proto */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname); /* None.proto */ static CYTHON_INLINE long __Pyx_div_long(long, long); /* SetVTable.proto */ static int __Pyx_SetVtable(PyObject *dict, void *vtable); /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; /* None.proto */ static Py_ssize_t __Pyx_zeros[] = {0, 0, 0, 0, 0, 0, 0, 0}; static Py_ssize_t __Pyx_minusones[] = {-1, -1, -1, -1, -1, -1, -1, -1}; /* MemviewSliceIsContig.proto */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim); /* OverlappingSlices.proto */ static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize); /* Capsule.proto */ static CYTHON_INLINE PyObject *__pyx_capsule_create(void *p, const char *sig); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* MemviewDtypeToObject.proto */ static CYTHON_INLINE PyObject *__pyx_memview_get_float(const char *itemp); static CYTHON_INLINE int __pyx_memview_set_float(const char *itemp, PyObject *obj); /* MemviewSliceCopyTemplate.proto */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object); /* CIntFromPy.proto */ static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* TypeInfoCompare.proto */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b); /* MemviewSliceValidateAndInit.proto */ static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_float(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_float(PyObject *); /* ObjectToMemviewSlice.proto */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_float(PyObject *); /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); /* InitStrings.proto */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); static float __pyx_f_4silx_5image_8bilinear_13BilinearImage_c_funct(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, float __pyx_v_x, float __pyx_v_y); /* proto*/ static size_t __pyx_f_4silx_5image_8bilinear_13BilinearImage_coarse_local_maxi(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, size_t __pyx_v_x, int __pyx_skip_dispatch); /* proto*/ static size_t __pyx_f_4silx_5image_8bilinear_13BilinearImage_c_local_maxi(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, size_t __pyx_v_idx); /* proto*/ static PyObject *__pyx_array_get_memview(struct __pyx_array_obj *__pyx_v_self); /* proto*/ static char *__pyx_memoryview_get_item_pointer(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index); /* proto*/ static PyObject *__pyx_memoryview_is_slice(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_obj); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assignment(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_dst, PyObject *__pyx_v_src); /* proto*/ static PyObject *__pyx_memoryview_setitem_slice_assign_scalar(struct __pyx_memoryview_obj *__pyx_v_self, struct __pyx_memoryview_obj *__pyx_v_dst, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_setitem_indexed(struct __pyx_memoryview_obj *__pyx_v_self, PyObject *__pyx_v_index, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryview_convert_item_to_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryview_assign_item_from_object(struct __pyx_memoryview_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ static PyObject *__pyx_memoryviewslice_convert_item_to_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp); /* proto*/ static PyObject *__pyx_memoryviewslice_assign_item_from_object(struct __pyx_memoryviewslice_obj *__pyx_v_self, char *__pyx_v_itemp, PyObject *__pyx_v_value); /* proto*/ /* Module declarations from 'cython.view' */ /* Module declarations from 'cython' */ /* Module declarations from 'libc.math' */ /* Module declarations from 'silx.image.bilinear' */ static PyTypeObject *__pyx_ptype_4silx_5image_8bilinear_BilinearImage = 0; static PyTypeObject *__pyx_array_type = 0; static PyTypeObject *__pyx_MemviewEnum_type = 0; static PyTypeObject *__pyx_memoryview_type = 0; static PyTypeObject *__pyx_memoryviewslice_type = 0; static PyObject *generic = 0; static PyObject *strided = 0; static PyObject *indirect = 0; static PyObject *contiguous = 0; static PyObject *indirect_contiguous = 0; static int __pyx_memoryview_thread_locks_used; static PyThread_type_lock __pyx_memoryview_thread_locks[8]; static struct __pyx_array_obj *__pyx_array_new(PyObject *, Py_ssize_t, char *, char *, char *); /*proto*/ static void *__pyx_align_pointer(void *, size_t); /*proto*/ static PyObject *__pyx_memoryview_new(PyObject *, int, int, __Pyx_TypeInfo *); /*proto*/ static CYTHON_INLINE int __pyx_memoryview_check(PyObject *); /*proto*/ static PyObject *_unellipsify(PyObject *, int); /*proto*/ static PyObject *assert_direct_dimensions(Py_ssize_t *, int); /*proto*/ static struct __pyx_memoryview_obj *__pyx_memview_slice(struct __pyx_memoryview_obj *, PyObject *); /*proto*/ static int __pyx_memoryview_slice_memviewslice(__Pyx_memviewslice *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int *, Py_ssize_t, Py_ssize_t, Py_ssize_t, int, int, int, int); /*proto*/ static char *__pyx_pybuffer_index(Py_buffer *, char *, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memslice_transpose(__Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_fromslice(__Pyx_memviewslice, int, PyObject *(*)(char *), int (*)(char *, PyObject *), int); /*proto*/ static __Pyx_memviewslice *__pyx_memoryview_get_slice_from_memoryview(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static void __pyx_memoryview_slice_copy(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static PyObject *__pyx_memoryview_copy_object(struct __pyx_memoryview_obj *); /*proto*/ static PyObject *__pyx_memoryview_copy_object_from_slice(struct __pyx_memoryview_obj *, __Pyx_memviewslice *); /*proto*/ static Py_ssize_t abs_py_ssize_t(Py_ssize_t); /*proto*/ static char __pyx_get_best_slice_order(__Pyx_memviewslice *, int); /*proto*/ static void _copy_strided_to_strided(char *, Py_ssize_t *, char *, Py_ssize_t *, Py_ssize_t *, Py_ssize_t *, int, size_t); /*proto*/ static void copy_strided_to_strided(__Pyx_memviewslice *, __Pyx_memviewslice *, int, size_t); /*proto*/ static Py_ssize_t __pyx_memoryview_slice_get_size(__Pyx_memviewslice *, int); /*proto*/ static Py_ssize_t __pyx_fill_contig_strides_array(Py_ssize_t *, Py_ssize_t *, Py_ssize_t, int, char); /*proto*/ static void *__pyx_memoryview_copy_data_to_temp(__Pyx_memviewslice *, __Pyx_memviewslice *, char, int); /*proto*/ static int __pyx_memoryview_err_extents(int, Py_ssize_t, Py_ssize_t); /*proto*/ static int __pyx_memoryview_err_dim(PyObject *, char *, int); /*proto*/ static int __pyx_memoryview_err(PyObject *, char *); /*proto*/ static int __pyx_memoryview_copy_contents(__Pyx_memviewslice, __Pyx_memviewslice, int, int, int); /*proto*/ static void __pyx_memoryview_broadcast_leading(__Pyx_memviewslice *, int, int); /*proto*/ static void __pyx_memoryview_refcount_copying(__Pyx_memviewslice *, int, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice_with_gil(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_refcount_objects_in_slice(char *, Py_ssize_t *, Py_ssize_t *, int, int); /*proto*/ static void __pyx_memoryview_slice_assign_scalar(__Pyx_memviewslice *, int, size_t, void *, int); /*proto*/ static void __pyx_memoryview__slice_assign_scalar(char *, Py_ssize_t *, Py_ssize_t *, int, size_t, void *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; #define __Pyx_MODULE_NAME "silx.image.bilinear" int __pyx_module_is_main_silx__image__bilinear = 0; /* Implementation of 'silx.image.bilinear' */ static PyObject *__pyx_builtin_round; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_MemoryError; static PyObject *__pyx_builtin_enumerate; static PyObject *__pyx_builtin_Ellipsis; static PyObject *__pyx_builtin_TypeError; static PyObject *__pyx_builtin_id; static PyObject *__pyx_builtin_IndexError; static const char __pyx_k_O[] = "O"; static const char __pyx_k_c[] = "c"; static const char __pyx_k_id[] = "id"; static const char __pyx_k_MIT[] = "MIT"; static const char __pyx_k_doc[] = "__doc__"; static const char __pyx_k_dst[] = "dst"; static const char __pyx_k_max[] = "max"; static const char __pyx_k_min[] = "min"; static const char __pyx_k_obj[] = "obj"; static const char __pyx_k_src[] = "src"; static const char __pyx_k_base[] = "base"; static const char __pyx_k_data[] = "data"; static const char __pyx_k_date[] = "__date__"; static const char __pyx_k_main[] = "__main__"; static const char __pyx_k_mode[] = "mode"; static const char __pyx_k_name[] = "name"; static const char __pyx_k_ndim[] = "ndim"; static const char __pyx_k_pack[] = "pack"; static const char __pyx_k_size[] = "size"; static const char __pyx_k_step[] = "step"; static const char __pyx_k_stop[] = "stop"; static const char __pyx_k_test[] = "__test__"; static const char __pyx_k_ASCII[] = "ASCII"; static const char __pyx_k_array[] = "array"; static const char __pyx_k_class[] = "__class__"; static const char __pyx_k_coord[] = "coord"; static const char __pyx_k_debug[] = "debug"; static const char __pyx_k_dtype[] = "dtype"; static const char __pyx_k_empty[] = "empty"; static const char __pyx_k_error[] = "error"; static const char __pyx_k_flags[] = "flags"; static const char __pyx_k_numpy[] = "numpy"; static const char __pyx_k_range[] = "range"; static const char __pyx_k_ravel[] = "ravel"; static const char __pyx_k_round[] = "round"; static const char __pyx_k_shape[] = "shape"; static const char __pyx_k_start[] = "start"; static const char __pyx_k_zeros[] = "zeros"; static const char __pyx_k_encode[] = "encode"; static const char __pyx_k_format[] = "format"; static const char __pyx_k_import[] = "__import__"; static const char __pyx_k_logger[] = "logger"; static const char __pyx_k_name_2[] = "__name__"; static const char __pyx_k_struct[] = "struct"; static const char __pyx_k_unpack[] = "unpack"; static const char __pyx_k_asarray[] = "asarray"; static const char __pyx_k_authors[] = "__authors__"; static const char __pyx_k_float32[] = "float32"; static const char __pyx_k_fortran[] = "fortran"; static const char __pyx_k_license[] = "__license__"; static const char __pyx_k_logging[] = "logging"; static const char __pyx_k_memview[] = "memview"; static const char __pyx_k_reshape[] = "reshape"; static const char __pyx_k_warning[] = "warning"; static const char __pyx_k_Ellipsis[] = "Ellipsis"; static const char __pyx_k_itemsize[] = "itemsize"; static const char __pyx_k_J_Kieffer[] = "J. Kieffer"; static const char __pyx_k_TypeError[] = "TypeError"; static const char __pyx_k_enumerate[] = "enumerate"; static const char __pyx_k_getLogger[] = "getLogger"; static const char __pyx_k_linewidth[] = "linewidth"; static const char __pyx_k_15_09_2016[] = "15/09/2016"; static const char __pyx_k_IndexError[] = "IndexError"; static const char __pyx_k_ValueError[] = "ValueError"; static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__"; static const char __pyx_k_MemoryError[] = "MemoryError"; static const char __pyx_k_pyx_getbuffer[] = "__pyx_getbuffer"; static const char __pyx_k_allocate_buffer[] = "allocate_buffer"; static const char __pyx_k_dtype_is_object[] = "dtype_is_object"; static const char __pyx_k_ascontiguousarray[] = "ascontiguousarray"; static const char __pyx_k_coarse_local_maxi[] = "coarse_local_maxi"; static const char __pyx_k_strided_and_direct[] = ""; static const char __pyx_k_strided_and_indirect[] = ""; static const char __pyx_k_contiguous_and_direct[] = ""; static const char __pyx_k_MemoryView_of_r_object[] = ""; static const char __pyx_k_MemoryView_of_r_at_0x_x[] = ""; static const char __pyx_k_contiguous_and_indirect[] = ""; static const char __pyx_k_Cannot_index_with_type_s[] = "Cannot index with type '%s'"; static const char __pyx_k_Invalid_shape_in_axis_d_d[] = "Invalid shape in axis %d: %d."; static const char __pyx_k_itemsize_0_for_cython_array[] = "itemsize <= 0 for cython.array"; static const char __pyx_k_unable_to_allocate_array_data[] = "unable to allocate array data."; static const char __pyx_k_strided_and_direct_or_indirect[] = ""; static const char __pyx_k_Bilinear_interpolator_peak_finde[] = "Bilinear interpolator, peak finder, line-profile for images"; static const char __pyx_k_Buffer_view_does_not_expose_stri[] = "Buffer view does not expose strides"; static const char __pyx_k_Can_only_create_a_buffer_that_is[] = "Can only create a buffer that is contiguous in memory."; static const char __pyx_k_Empty_shape_tuple_for_cython_arr[] = "Empty shape tuple for cython.array"; static const char __pyx_k_Failed_to_find_root_using_second[] = "Failed to find root using second order expansion"; static const char __pyx_k_Indirect_dimensions_not_supporte[] = "Indirect dimensions not supported"; static const char __pyx_k_Invalid_mode_expected_c_or_fortr[] = "Invalid mode, expected 'c' or 'fortran', got %s"; static const char __pyx_k_Out_of_bounds_on_buffer_access_a[] = "Out of bounds on buffer access (axis %d)"; static const char __pyx_k_Singular_determinant_Hessian_und[] = "Singular determinant, Hessian undefined"; static const char __pyx_k_Source_and_destination_points_ar[] = "Source and destination points are the same"; static const char __pyx_k_Unable_to_convert_item_to_object[] = "Unable to convert item to object"; static const char __pyx_k_got_differing_extents_in_dimensi[] = "got differing extents in dimension %d (got %d and %d)"; static const char __pyx_k_unable_to_allocate_shape_and_str[] = "unable to allocate shape and strides."; static PyObject *__pyx_kp_s_15_09_2016; static PyObject *__pyx_n_s_ASCII; static PyObject *__pyx_kp_s_Bilinear_interpolator_peak_finde; static PyObject *__pyx_kp_s_Buffer_view_does_not_expose_stri; static PyObject *__pyx_kp_s_Can_only_create_a_buffer_that_is; static PyObject *__pyx_kp_s_Cannot_index_with_type_s; static PyObject *__pyx_n_s_Ellipsis; static PyObject *__pyx_kp_s_Empty_shape_tuple_for_cython_arr; static PyObject *__pyx_kp_s_Failed_to_find_root_using_second; static PyObject *__pyx_n_s_IndexError; static PyObject *__pyx_kp_s_Indirect_dimensions_not_supporte; static PyObject *__pyx_kp_s_Invalid_mode_expected_c_or_fortr; static PyObject *__pyx_kp_s_Invalid_shape_in_axis_d_d; static PyObject *__pyx_kp_s_J_Kieffer; static PyObject *__pyx_n_s_MIT; static PyObject *__pyx_n_s_MemoryError; static PyObject *__pyx_kp_s_MemoryView_of_r_at_0x_x; static PyObject *__pyx_kp_s_MemoryView_of_r_object; static PyObject *__pyx_n_b_O; static PyObject *__pyx_kp_s_Out_of_bounds_on_buffer_access_a; static PyObject *__pyx_kp_s_Singular_determinant_Hessian_und; static PyObject *__pyx_kp_s_Source_and_destination_points_ar; static PyObject *__pyx_n_s_TypeError; static PyObject *__pyx_kp_s_Unable_to_convert_item_to_object; static PyObject *__pyx_n_s_ValueError; static PyObject *__pyx_n_s_allocate_buffer; static PyObject *__pyx_n_s_array; static PyObject *__pyx_n_s_asarray; static PyObject *__pyx_n_s_ascontiguousarray; static PyObject *__pyx_n_s_authors; static PyObject *__pyx_n_s_base; static PyObject *__pyx_n_s_c; static PyObject *__pyx_n_u_c; static PyObject *__pyx_n_s_class; static PyObject *__pyx_n_s_coarse_local_maxi; static PyObject *__pyx_kp_s_contiguous_and_direct; static PyObject *__pyx_kp_s_contiguous_and_indirect; static PyObject *__pyx_n_s_coord; static PyObject *__pyx_n_s_data; static PyObject *__pyx_n_s_date; static PyObject *__pyx_n_s_debug; static PyObject *__pyx_n_s_doc; static PyObject *__pyx_n_s_dst; static PyObject *__pyx_n_s_dtype; static PyObject *__pyx_n_s_dtype_is_object; static PyObject *__pyx_n_s_empty; static PyObject *__pyx_n_s_encode; static PyObject *__pyx_n_s_enumerate; static PyObject *__pyx_n_s_error; static PyObject *__pyx_n_s_flags; static PyObject *__pyx_n_s_float32; static PyObject *__pyx_n_s_format; static PyObject *__pyx_n_s_fortran; static PyObject *__pyx_n_u_fortran; static PyObject *__pyx_n_s_getLogger; static PyObject *__pyx_kp_s_got_differing_extents_in_dimensi; static PyObject *__pyx_n_s_id; static PyObject *__pyx_n_s_import; static PyObject *__pyx_n_s_itemsize; static PyObject *__pyx_kp_s_itemsize_0_for_cython_array; static PyObject *__pyx_n_s_license; static PyObject *__pyx_n_s_linewidth; static PyObject *__pyx_n_s_logger; static PyObject *__pyx_n_s_logging; static PyObject *__pyx_n_s_main; static PyObject *__pyx_n_s_max; static PyObject *__pyx_n_s_memview; static PyObject *__pyx_n_s_min; static PyObject *__pyx_n_s_mode; static PyObject *__pyx_n_s_name; static PyObject *__pyx_n_s_name_2; static PyObject *__pyx_n_s_ndim; static PyObject *__pyx_n_s_numpy; static PyObject *__pyx_n_s_obj; static PyObject *__pyx_n_s_pack; static PyObject *__pyx_n_s_pyx_getbuffer; static PyObject *__pyx_n_s_pyx_vtable; static PyObject *__pyx_n_s_range; static PyObject *__pyx_n_s_ravel; static PyObject *__pyx_n_s_reshape; static PyObject *__pyx_n_s_round; static PyObject *__pyx_n_s_shape; static PyObject *__pyx_n_s_size; static PyObject *__pyx_n_s_src; static PyObject *__pyx_n_s_start; static PyObject *__pyx_n_s_step; static PyObject *__pyx_n_s_stop; static PyObject *__pyx_kp_s_strided_and_direct; static PyObject *__pyx_kp_s_strided_and_direct_or_indirect; static PyObject *__pyx_kp_s_strided_and_indirect; static PyObject *__pyx_n_s_struct; static PyObject *__pyx_n_s_test; static PyObject *__pyx_kp_s_unable_to_allocate_array_data; static PyObject *__pyx_kp_s_unable_to_allocate_shape_and_str; static PyObject *__pyx_n_s_unpack; static PyObject *__pyx_n_s_warning; static PyObject *__pyx_n_s_zeros; static int __pyx_pf_4silx_5image_8bilinear_13BilinearImage___cinit__(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, PyObject *__pyx_v_data); /* proto */ static void __pyx_pf_4silx_5image_8bilinear_13BilinearImage_2__dealloc__(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self); /* proto */ static PyObject *__pyx_pf_4silx_5image_8bilinear_13BilinearImage_4__call__(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, PyObject *__pyx_v_coord); /* proto */ static PyObject *__pyx_pf_4silx_5image_8bilinear_13BilinearImage_6opp_f(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, PyObject *__pyx_v_coord); /* proto */ static PyObject *__pyx_pf_4silx_5image_8bilinear_13BilinearImage_8local_maxi(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *__pyx_v_self, PyObject *__pyx_v_coord); /* proto */ static PyObject 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Py_ssize_t __pyx_v_new_shape; int __pyx_v_negative_step; int __pyx_r; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; /* "View.MemoryView":813 * cdef bint negative_step * * if not is_slice: # <<<<<<<<<<<<<< * * if start < 0: */ __pyx_t_1 = ((!(__pyx_v_is_slice != 0)) != 0); if (__pyx_t_1) { /* "View.MemoryView":815 * if not is_slice: * * if start < 0: # <<<<<<<<<<<<<< * start += shape * if not 0 <= start < shape: */ __pyx_t_1 = ((__pyx_v_start < 0) != 0); if (__pyx_t_1) { /* "View.MemoryView":816 * * if start < 0: * start += shape # <<<<<<<<<<<<<< * if not 0 <= start < shape: * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) */ __pyx_v_start = (__pyx_v_start + __pyx_v_shape); /* "View.MemoryView":815 * if not is_slice: * * if start < 0: # <<<<<<<<<<<<<< * start += shape * if not 0 <= start < shape: */ } /* "View.MemoryView":817 * if start < 0: * start += shape * if not 0 <= start < shape: # <<<<<<<<<<<<<< * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) * else: */ __pyx_t_1 = (0 <= __pyx_v_start); if (__pyx_t_1) { __pyx_t_1 = (__pyx_v_start < __pyx_v_shape); } __pyx_t_2 = ((!(__pyx_t_1 != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":818 * start += shape * if not 0 <= start < shape: * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) # <<<<<<<<<<<<<< * else: * */ __pyx_t_3 = __pyx_memoryview_err_dim(__pyx_builtin_IndexError, ((char *)"Index out of bounds (axis %d)"), __pyx_v_dim); if (unlikely(__pyx_t_3 == -1)) __PYX_ERR(1, 818, __pyx_L1_error) /* "View.MemoryView":817 * if start < 0: * start += shape * if not 0 <= start < shape: # <<<<<<<<<<<<<< * _err_dim(IndexError, "Index out of bounds (axis %d)", dim) * else: */ } /* "View.MemoryView":813 * cdef bint negative_step * * if not is_slice: # <<<<<<<<<<<<<< * * if start < 0: */ goto __pyx_L3; } /* "View.MemoryView":821 * else: * * negative_step = have_step != 0 and step < 0 # <<<<<<<<<<<<<< * * if have_step and step == 0: */ /*else*/ { __pyx_t_1 = ((__pyx_v_have_step != 0) != 0); if (__pyx_t_1) { } else { __pyx_t_2 = __pyx_t_1; goto __pyx_L6_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step < 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L6_bool_binop_done:; __pyx_v_negative_step = __pyx_t_2; /* "View.MemoryView":823 * negative_step = have_step != 0 and step < 0 * * if have_step and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ __pyx_t_1 = (__pyx_v_have_step != 0); if (__pyx_t_1) { } else { __pyx_t_2 = __pyx_t_1; goto __pyx_L9_bool_binop_done; } __pyx_t_1 = ((__pyx_v_step == 0) != 0); __pyx_t_2 = __pyx_t_1; __pyx_L9_bool_binop_done:; if (__pyx_t_2) { /* "View.MemoryView":824 * * if have_step and step == 0: * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) # <<<<<<<<<<<<<< * * */ __pyx_t_3 = __pyx_memoryview_err_dim(__pyx_builtin_ValueError, ((char *)"Step may not be zero (axis %d)"), __pyx_v_dim); if (unlikely(__pyx_t_3 == -1)) __PYX_ERR(1, 824, __pyx_L1_error) /* "View.MemoryView":823 * negative_step = have_step != 0 and step < 0 * * if have_step and step == 0: # <<<<<<<<<<<<<< * _err_dim(ValueError, "Step may not be zero (axis %d)", dim) * */ } /* "View.MemoryView":827 * * * if have_start: # <<<<<<<<<<<<<< * if start < 0: * start += shape */ __pyx_t_2 = (__pyx_v_have_start != 0); if (__pyx_t_2) { /* "View.MemoryView":828 * * if have_start: * if start < 0: # <<<<<<<<<<<<<< * start += shape * if start < 0: */ __pyx_t_2 = ((__pyx_v_start < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":829 * if have_start: * if start < 0: * start += shape # <<<<<<<<<<<<<< * if start < 0: * start = 0 */ __pyx_v_start = (__pyx_v_start + __pyx_v_shape); /* "View.MemoryView":830 * if start < 0: * start += shape * if start < 0: # <<<<<<<<<<<<<< * start = 0 * elif start >= shape: */ __pyx_t_2 = ((__pyx_v_start < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":831 * start += shape * if start < 0: * start = 0 # <<<<<<<<<<<<<< * elif start >= shape: * if negative_step: */ __pyx_v_start = 0; /* "View.MemoryView":830 * if start < 0: * start += shape * if start < 0: # <<<<<<<<<<<<<< * start = 0 * elif start >= shape: */ } /* "View.MemoryView":828 * * if have_start: * if start < 0: # <<<<<<<<<<<<<< * start += shape * if start < 0: */ goto __pyx_L12; } /* "View.MemoryView":832 * if start < 0: * start = 0 * elif start >= shape: # <<<<<<<<<<<<<< * if negative_step: * start = shape - 1 */ __pyx_t_2 = ((__pyx_v_start >= __pyx_v_shape) != 0); if (__pyx_t_2) { /* "View.MemoryView":833 * start = 0 * elif start >= shape: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":834 * elif start >= shape: * if negative_step: * start = shape - 1 # <<<<<<<<<<<<<< * else: * start = shape */ __pyx_v_start = (__pyx_v_shape - 1); /* "View.MemoryView":833 * start = 0 * elif start >= shape: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ goto __pyx_L14; } /* "View.MemoryView":836 * start = shape - 1 * else: * start = shape # <<<<<<<<<<<<<< * else: * if negative_step: */ /*else*/ { __pyx_v_start = __pyx_v_shape; } __pyx_L14:; /* "View.MemoryView":832 * if start < 0: * start = 0 * elif start >= shape: # <<<<<<<<<<<<<< * if negative_step: * start = shape - 1 */ } __pyx_L12:; /* "View.MemoryView":827 * * * if have_start: # <<<<<<<<<<<<<< * if start < 0: * start += shape */ goto __pyx_L11; } /* "View.MemoryView":838 * start = shape * else: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ /*else*/ { __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":839 * else: * if negative_step: * start = shape - 1 # <<<<<<<<<<<<<< * else: * start = 0 */ __pyx_v_start = (__pyx_v_shape - 1); /* "View.MemoryView":838 * start = shape * else: * if negative_step: # <<<<<<<<<<<<<< * start = shape - 1 * else: */ goto __pyx_L15; } /* "View.MemoryView":841 * start = shape - 1 * else: * start = 0 # <<<<<<<<<<<<<< * * if have_stop: */ /*else*/ { __pyx_v_start = 0; } __pyx_L15:; } 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< 0: # <<<<<<<<<<<<<< * stop += shape * if stop < 0: */ goto __pyx_L17; } /* "View.MemoryView":848 * if stop < 0: * stop = 0 * elif stop > shape: # <<<<<<<<<<<<<< * stop = shape * else: */ __pyx_t_2 = ((__pyx_v_stop > __pyx_v_shape) != 0); if (__pyx_t_2) { /* "View.MemoryView":849 * stop = 0 * elif stop > shape: * stop = shape # <<<<<<<<<<<<<< * else: * if negative_step: */ __pyx_v_stop = __pyx_v_shape; /* "View.MemoryView":848 * if stop < 0: * stop = 0 * elif stop > shape: # <<<<<<<<<<<<<< * stop = shape * else: */ } __pyx_L17:; /* "View.MemoryView":843 * start = 0 * * if have_stop: # <<<<<<<<<<<<<< * if stop < 0: * stop += shape */ goto __pyx_L16; } /* "View.MemoryView":851 * stop = shape * else: * if negative_step: # <<<<<<<<<<<<<< * stop = -1 * else: */ /*else*/ { __pyx_t_2 = (__pyx_v_negative_step != 0); if (__pyx_t_2) { /* "View.MemoryView":852 * else: * if negative_step: * stop = -1 # <<<<<<<<<<<<<< * else: * stop = shape */ __pyx_v_stop = -1L; /* "View.MemoryView":851 * stop = shape * else: * if negative_step: # <<<<<<<<<<<<<< * stop = -1 * else: */ goto __pyx_L19; } /* "View.MemoryView":854 * stop = -1 * else: * stop = shape # <<<<<<<<<<<<<< * * if not have_step: */ /*else*/ { __pyx_v_stop = __pyx_v_shape; } __pyx_L19:; } __pyx_L16:; /* "View.MemoryView":856 * stop = shape * * if not have_step: # <<<<<<<<<<<<<< * step = 1 * */ __pyx_t_2 = ((!(__pyx_v_have_step != 0)) != 0); if (__pyx_t_2) { /* "View.MemoryView":857 * * if not have_step: * step = 1 # <<<<<<<<<<<<<< * * */ __pyx_v_step = 1; /* "View.MemoryView":856 * stop = shape * * if not have_step: # <<<<<<<<<<<<<< * step = 1 * */ } /* "View.MemoryView":861 * * with cython.cdivision(True): * new_shape = (stop - start) // step # <<<<<<<<<<<<<< * * if (stop - start) - step * new_shape: */ __pyx_v_new_shape = ((__pyx_v_stop - __pyx_v_start) / __pyx_v_step); /* "View.MemoryView":863 * new_shape = (stop - start) // step * * if (stop - start) - step * new_shape: # <<<<<<<<<<<<<< * new_shape += 1 * */ __pyx_t_2 = (((__pyx_v_stop - __pyx_v_start) - (__pyx_v_step * __pyx_v_new_shape)) != 0); if (__pyx_t_2) { /* "View.MemoryView":864 * * if (stop - start) - step * new_shape: * new_shape += 1 # <<<<<<<<<<<<<< * * if new_shape < 0: */ __pyx_v_new_shape = (__pyx_v_new_shape + 1); /* "View.MemoryView":863 * new_shape = (stop - start) // step * * if (stop - start) - step * new_shape: # <<<<<<<<<<<<<< * new_shape += 1 * */ } /* "View.MemoryView":866 * new_shape += 1 * * if new_shape < 0: # <<<<<<<<<<<<<< * new_shape = 0 * */ __pyx_t_2 = ((__pyx_v_new_shape < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":867 * * if new_shape < 0: * new_shape = 0 # <<<<<<<<<<<<<< * * */ __pyx_v_new_shape = 0; /* "View.MemoryView":866 * new_shape += 1 * * if new_shape < 0: # <<<<<<<<<<<<<< * new_shape = 0 * */ } /* "View.MemoryView":870 * * * dst.strides[new_ndim] = stride * step # <<<<<<<<<<<<<< * dst.shape[new_ndim] = new_shape * dst.suboffsets[new_ndim] = suboffset */ (__pyx_v_dst->strides[__pyx_v_new_ndim]) = (__pyx_v_stride * __pyx_v_step); /* "View.MemoryView":871 * * dst.strides[new_ndim] = stride * step * dst.shape[new_ndim] = new_shape # <<<<<<<<<<<<<< * dst.suboffsets[new_ndim] = suboffset * */ (__pyx_v_dst->shape[__pyx_v_new_ndim]) = __pyx_v_new_shape; /* "View.MemoryView":872 * dst.strides[new_ndim] = stride * step * dst.shape[new_ndim] = new_shape * dst.suboffsets[new_ndim] = suboffset # <<<<<<<<<<<<<< * * */ (__pyx_v_dst->suboffsets[__pyx_v_new_ndim]) = __pyx_v_suboffset; } __pyx_L3:; /* "View.MemoryView":875 * * * if suboffset_dim[0] < 0: # <<<<<<<<<<<<<< * dst.data += start * stride * else: */ __pyx_t_2 = (((__pyx_v_suboffset_dim[0]) < 0) != 0); if (__pyx_t_2) { /* "View.MemoryView":876 * * if suboffset_dim[0] < 0: * dst.data += start * stride # <<<<<<<<<<<<<< * else: * dst.suboffsets[suboffset_dim[0]] += start * stride */ __pyx_v_dst->data = (__pyx_v_dst->data + (__pyx_v_start * __pyx_v_stride)); /* "View.MemoryView":875 * * * if suboffset_dim[0] < 0: # <<<<<<<<<<<<<< * 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in range(ndim): # <<<<<<<<<<<<<< * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] */ __pyx_t_1 = __pyx_v_ndim; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_1; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ __pyx_t_2 = (((__pyx_v_mslice->shape[__pyx_v_i]) > 1) != 0); if (__pyx_t_2) { /* "View.MemoryView":1114 * for i in range(ndim): * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] # <<<<<<<<<<<<<< * break * */ __pyx_v_f_stride = (__pyx_v_mslice->strides[__pyx_v_i]); /* "View.MemoryView":1115 * if mslice.shape[i] > 1: * f_stride = mslice.strides[i] * break # <<<<<<<<<<<<<< * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): */ goto __pyx_L7_break; /* "View.MemoryView":1113 * * for i in range(ndim): * if mslice.shape[i] > 1: # <<<<<<<<<<<<<< * f_stride = mslice.strides[i] * break */ } } __pyx_L7_break:; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ __pyx_t_2 = ((abs_py_ssize_t(__pyx_v_c_stride) <= abs_py_ssize_t(__pyx_v_f_stride)) != 0); if (__pyx_t_2) { /* "View.MemoryView":1118 * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): * return 'C' # <<<<<<<<<<<<<< * else: * return 'F' */ __pyx_r = 'C'; goto __pyx_L0; /* "View.MemoryView":1117 * break * * if abs_py_ssize_t(c_stride) <= abs_py_ssize_t(f_stride): # <<<<<<<<<<<<<< * return 'C' * else: */ } /* "View.MemoryView":1120 * return 'C' * else: * return 'F' # <<<<<<<<<<<<<< * * @cython.cdivision(True) */ /*else*/ { __pyx_r = 'F'; goto __pyx_L0; } /* "View.MemoryView":1099 * * @cname('__pyx_get_best_slice_order') * cdef char get_best_order(__Pyx_memviewslice *mslice, int ndim) nogil: # <<<<<<<<<<<<<< * """ * Figure out the best memory access order for a given slice. */ /* function exit code */ __pyx_L0:; return __pyx_r; } /* "View.MemoryView":1123 * * @cython.cdivision(True) * cdef void _copy_strided_to_strided(char *src_data, Py_ssize_t *src_strides, # <<<<<<<<<<<<<< * char *dst_data, Py_ssize_t *dst_strides, * Py_ssize_t *src_shape, Py_ssize_t *dst_shape, */ static void _copy_strided_to_strided(char *__pyx_v_src_data, Py_ssize_t *__pyx_v_src_strides, char *__pyx_v_dst_data, Py_ssize_t *__pyx_v_dst_strides, Py_ssize_t *__pyx_v_src_shape, Py_ssize_t *__pyx_v_dst_shape, int __pyx_v_ndim, size_t __pyx_v_itemsize) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; CYTHON_UNUSED Py_ssize_t __pyx_v_src_extent; Py_ssize_t __pyx_v_dst_extent; Py_ssize_t __pyx_v_src_stride; Py_ssize_t __pyx_v_dst_stride; int __pyx_t_1; int __pyx_t_2; int __pyx_t_3; Py_ssize_t __pyx_t_4; Py_ssize_t __pyx_t_5; /* "View.MemoryView":1130 * * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] */ __pyx_v_src_extent = (__pyx_v_src_shape[0]); /* "View.MemoryView":1131 * cdef Py_ssize_t i * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] */ __pyx_v_dst_extent = (__pyx_v_dst_shape[0]); /* "View.MemoryView":1132 * cdef Py_ssize_t src_extent = src_shape[0] * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t dst_stride = dst_strides[0] * */ __pyx_v_src_stride = (__pyx_v_src_strides[0]); /* "View.MemoryView":1133 * cdef Py_ssize_t dst_extent = dst_shape[0] * cdef Py_ssize_t src_stride = src_strides[0] * cdef Py_ssize_t dst_stride = dst_strides[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_dst_stride = (__pyx_v_dst_strides[0]); /* "View.MemoryView":1135 * cdef Py_ssize_t dst_stride = dst_strides[0] * * if ndim == 1: # <<<<<<<<<<<<<< * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # <<<<<<<<<<<<<< * src_stride == itemsize == dst_stride): * memcpy(dst_data, src_data, itemsize * dst_extent) */ __pyx_t_2 = ((__pyx_v_src_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } __pyx_t_2 = ((__pyx_v_dst_stride > 0) != 0); if (__pyx_t_2) { } else { __pyx_t_1 = __pyx_t_2; goto __pyx_L5_bool_binop_done; } /* "View.MemoryView":1137 * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and * src_stride == itemsize == dst_stride): # <<<<<<<<<<<<<< * memcpy(dst_data, src_data, itemsize * dst_extent) * else: */ __pyx_t_2 = (((size_t)__pyx_v_src_stride) == __pyx_v_itemsize); if (__pyx_t_2) { __pyx_t_2 = (__pyx_v_itemsize == ((size_t)__pyx_v_dst_stride)); } __pyx_t_3 = (__pyx_t_2 != 0); __pyx_t_1 = __pyx_t_3; __pyx_L5_bool_binop_done:; /* "View.MemoryView":1136 * * if ndim == 1: * if (src_stride > 0 and dst_stride > 0 and # 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(__pyx_t_2) { /* "View.MemoryView":1298 * * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) # <<<<<<<<<<<<<< * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig(__pyx_v_dst, 'C', __pyx_v_ndim); /* "View.MemoryView":1297 * * * if slice_is_contig(src, 'C', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): */ goto __pyx_L12; } /* "View.MemoryView":1299 * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'F', ndim) * */ __pyx_t_2 = (__pyx_memviewslice_is_contig(__pyx_v_src, 'F', __pyx_v_ndim) != 0); if (__pyx_t_2) { /* "View.MemoryView":1300 * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): * direct_copy = slice_is_contig(dst, 'F', ndim) # <<<<<<<<<<<<<< * * if direct_copy: */ __pyx_v_direct_copy = __pyx_memviewslice_is_contig(__pyx_v_dst, 'F', __pyx_v_ndim); /* "View.MemoryView":1299 * if slice_is_contig(src, 'C', ndim): * direct_copy = slice_is_contig(dst, 'C', ndim) * elif slice_is_contig(src, 'F', ndim): # <<<<<<<<<<<<<< * direct_copy = slice_is_contig(dst, 'F', ndim) * */ } __pyx_L12:; /* "View.MemoryView":1302 * direct_copy = slice_is_contig(dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ __pyx_t_2 = (__pyx_v_direct_copy != 0); if (__pyx_t_2) { /* "View.MemoryView":1304 * if direct_copy: * * refcount_copying(&dst, dtype_is_object, ndim, False) # <<<<<<<<<<<<<< * memcpy(dst.data, src.data, slice_get_size(&src, ndim)) * refcount_copying(&dst, dtype_is_object, ndim, True) */ __pyx_memoryview_refcount_copying((&__pyx_v_dst), __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1305 * * refcount_copying(&dst, dtype_is_object, ndim, False) * 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/* "View.MemoryView":1302 * direct_copy = slice_is_contig(dst, 'F', ndim) * * if direct_copy: # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ } /* "View.MemoryView":1294 * src = tmp * * if not broadcasting: # <<<<<<<<<<<<<< * * */ } /* "View.MemoryView":1310 * return 0 * * if order == 'F' == get_best_order(&dst, ndim): # <<<<<<<<<<<<<< * * */ __pyx_t_2 = (__pyx_v_order == 'F'); if (__pyx_t_2) { __pyx_t_2 = ('F' == __pyx_get_best_slice_order((&__pyx_v_dst), __pyx_v_ndim)); } __pyx_t_7 = (__pyx_t_2 != 0); if (__pyx_t_7) { /* "View.MemoryView":1313 * * * transpose_memslice(&src) # <<<<<<<<<<<<<< * transpose_memslice(&dst) * */ __pyx_t_5 = __pyx_memslice_transpose((&__pyx_v_src)); if (unlikely(__pyx_t_5 == 0)) __PYX_ERR(1, 1313, __pyx_L1_error) /* "View.MemoryView":1314 * * transpose_memslice(&src) * transpose_memslice(&dst) # <<<<<<<<<<<<<< * * refcount_copying(&dst, dtype_is_object, ndim, False) */ __pyx_t_5 = __pyx_memslice_transpose((&__pyx_v_dst)); if 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_slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 0); /* "View.MemoryView":1385 * bint dtype_is_object) nogil: * refcount_copying(dst, dtype_is_object, ndim, False) * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, # <<<<<<<<<<<<<< * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) */ __pyx_memoryview__slice_assign_scalar(__pyx_v_dst->data, __pyx_v_dst->shape, __pyx_v_dst->strides, __pyx_v_ndim, __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1387 * _slice_assign_scalar(dst.data, dst.shape, dst.strides, ndim, * itemsize, item) * refcount_copying(dst, dtype_is_object, ndim, True) # <<<<<<<<<<<<<< * * */ __pyx_memoryview_refcount_copying(__pyx_v_dst, __pyx_v_dtype_is_object, __pyx_v_ndim, 1); /* "View.MemoryView":1381 * * @cname('__pyx_memoryview_slice_assign_scalar') * cdef void slice_assign_scalar(__Pyx_memviewslice *dst, int ndim, # <<<<<<<<<<<<<< * size_t itemsize, void *item, * bint dtype_is_object) nogil: */ /* function exit code */ } /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ static void __pyx_memoryview__slice_assign_scalar(char *__pyx_v_data, Py_ssize_t *__pyx_v_shape, Py_ssize_t *__pyx_v_strides, int __pyx_v_ndim, size_t __pyx_v_itemsize, void *__pyx_v_item) { CYTHON_UNUSED Py_ssize_t __pyx_v_i; Py_ssize_t __pyx_v_stride; Py_ssize_t __pyx_v_extent; int __pyx_t_1; Py_ssize_t __pyx_t_2; Py_ssize_t __pyx_t_3; /* "View.MemoryView":1395 * size_t itemsize, void *item) nogil: * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] # <<<<<<<<<<<<<< * cdef Py_ssize_t extent = shape[0] * */ __pyx_v_stride = (__pyx_v_strides[0]); /* "View.MemoryView":1396 * cdef Py_ssize_t i * cdef Py_ssize_t stride = strides[0] * cdef Py_ssize_t extent = shape[0] # <<<<<<<<<<<<<< * * if ndim == 1: */ __pyx_v_extent = (__pyx_v_shape[0]); /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ __pyx_t_1 = ((__pyx_v_ndim == 1) != 0); if (__pyx_t_1) { /* "View.MemoryView":1399 * * if ndim == 1: * for i in range(extent): # <<<<<<<<<<<<<< * memcpy(data, item, itemsize) * data += stride */ __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1400 * if ndim == 1: * for i in range(extent): * memcpy(data, item, itemsize) # <<<<<<<<<<<<<< * data += stride * else: */ memcpy(__pyx_v_data, __pyx_v_item, __pyx_v_itemsize); /* "View.MemoryView":1401 * for i in range(extent): * memcpy(data, item, itemsize) * data += stride # <<<<<<<<<<<<<< * else: * for i in range(extent): */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } /* "View.MemoryView":1398 * cdef Py_ssize_t extent = shape[0] * * if ndim == 1: # <<<<<<<<<<<<<< * for i in range(extent): * memcpy(data, item, itemsize) */ goto __pyx_L3; } /* "View.MemoryView":1403 * data += stride * else: * for i in range(extent): # <<<<<<<<<<<<<< * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) */ /*else*/ { __pyx_t_2 = __pyx_v_extent; for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { __pyx_v_i = __pyx_t_3; /* "View.MemoryView":1404 * else: * for i in range(extent): * _slice_assign_scalar(data, shape + 1, strides + 1, # <<<<<<<<<<<<<< * ndim - 1, itemsize, item) * data += stride */ __pyx_memoryview__slice_assign_scalar(__pyx_v_data, (__pyx_v_shape + 1), (__pyx_v_strides + 1), (__pyx_v_ndim - 1), __pyx_v_itemsize, __pyx_v_item); /* "View.MemoryView":1406 * _slice_assign_scalar(data, shape + 1, strides + 1, * ndim - 1, itemsize, item) * data += stride # <<<<<<<<<<<<<< * * */ __pyx_v_data = (__pyx_v_data + __pyx_v_stride); } } __pyx_L3:; /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /* function exit code */ } static struct __pyx_vtabstruct_4silx_5image_8bilinear_BilinearImage __pyx_vtable_4silx_5image_8bilinear_BilinearImage; static PyObject *__pyx_tp_new_4silx_5image_8bilinear_BilinearImage(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *)o); p->__pyx_vtab = __pyx_vtabptr_4silx_5image_8bilinear_BilinearImage; p->data.data = NULL; p->data.memview = NULL; if (unlikely(__pyx_pw_4silx_5image_8bilinear_13BilinearImage_1__cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_4silx_5image_8bilinear_BilinearImage(PyObject *o) { struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *p = (struct __pyx_obj_4silx_5image_8bilinear_BilinearImage *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_pw_4silx_5image_8bilinear_13BilinearImage_3__dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } __PYX_XDEC_MEMVIEW(&p->data, 1); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_getprop_4silx_5image_8bilinear_13BilinearImage_data(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_5image_8bilinear_13BilinearImage_4data_1__get__(o); } static PyObject *__pyx_getprop_4silx_5image_8bilinear_13BilinearImage_maxi(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_5image_8bilinear_13BilinearImage_4maxi_1__get__(o); } static PyObject *__pyx_getprop_4silx_5image_8bilinear_13BilinearImage_mini(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_5image_8bilinear_13BilinearImage_4mini_1__get__(o); } static PyObject *__pyx_getprop_4silx_5image_8bilinear_13BilinearImage_width(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_5image_8bilinear_13BilinearImage_5width_1__get__(o); } static PyObject *__pyx_getprop_4silx_5image_8bilinear_13BilinearImage_height(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_4silx_5image_8bilinear_13BilinearImage_6height_1__get__(o); } static PyMethodDef __pyx_methods_4silx_5image_8bilinear_BilinearImage[] = { {"opp_f", (PyCFunction)__pyx_pw_4silx_5image_8bilinear_13BilinearImage_7opp_f, METH_O, __pyx_doc_4silx_5image_8bilinear_13BilinearImage_6opp_f}, {"local_maxi", (PyCFunction)__pyx_pw_4silx_5image_8bilinear_13BilinearImage_9local_maxi, METH_O, __pyx_doc_4silx_5image_8bilinear_13BilinearImage_8local_maxi}, {"coarse_local_maxi", (PyCFunction)__pyx_pw_4silx_5image_8bilinear_13BilinearImage_11coarse_local_maxi, METH_O, __pyx_doc_4silx_5image_8bilinear_13BilinearImage_10coarse_local_maxi}, {"map_coordinates", (PyCFunction)__pyx_pw_4silx_5image_8bilinear_13BilinearImage_13map_coordinates, METH_O, __pyx_doc_4silx_5image_8bilinear_13BilinearImage_12map_coordinates}, {"profile_line", (PyCFunction)__pyx_pw_4silx_5image_8bilinear_13BilinearImage_15profile_line, METH_VARARGS|METH_KEYWORDS, __pyx_doc_4silx_5image_8bilinear_13BilinearImage_14profile_line}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_4silx_5image_8bilinear_BilinearImage[] = { {(char *)"data", __pyx_getprop_4silx_5image_8bilinear_13BilinearImage_data, 0, (char *)0, 0}, {(char *)"maxi", __pyx_getprop_4silx_5image_8bilinear_13BilinearImage_maxi, 0, (char *)0, 0}, {(char *)"mini", __pyx_getprop_4silx_5image_8bilinear_13BilinearImage_mini, 0, (char *)0, 0}, {(char *)"width", __pyx_getprop_4silx_5image_8bilinear_13BilinearImage_width, 0, (char *)0, 0}, {(char *)"height", __pyx_getprop_4silx_5image_8bilinear_13BilinearImage_height, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PyTypeObject __pyx_type_4silx_5image_8bilinear_BilinearImage = { PyVarObject_HEAD_INIT(0, 0) "silx.image.bilinear.BilinearImage", /*tp_name*/ sizeof(struct __pyx_obj_4silx_5image_8bilinear_BilinearImage), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_4silx_5image_8bilinear_BilinearImage, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ __pyx_pw_4silx_5image_8bilinear_13BilinearImage_5__call__, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ "Bilinear interpolator for images ... or any data on a regular grid\n ", /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_4silx_5image_8bilinear_BilinearImage, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_4silx_5image_8bilinear_BilinearImage, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_4silx_5image_8bilinear_BilinearImage, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_array __pyx_vtable_array; static PyObject *__pyx_tp_new_array(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_array_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_array_obj *)o); p->__pyx_vtab = __pyx_vtabptr_array; p->mode = ((PyObject*)Py_None); Py_INCREF(Py_None); p->_format = ((PyObject*)Py_None); Py_INCREF(Py_None); if (unlikely(__pyx_array___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_array(PyObject *o) { struct __pyx_array_obj *p = (struct __pyx_array_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_array___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->mode); Py_CLEAR(p->_format); (*Py_TYPE(o)->tp_free)(o); } static PyObject *__pyx_sq_item_array(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_array(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_array___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_tp_getattro_array(PyObject *o, PyObject *n) { PyObject *v = PyObject_GenericGetAttr(o, n); if (!v && PyErr_ExceptionMatches(PyExc_AttributeError)) { PyErr_Clear(); v = __pyx_array___getattr__(o, n); } return v; } static PyObject *__pyx_getprop___pyx_array_memview(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_5array_7memview_1__get__(o); } static PyMethodDef __pyx_methods_array[] = { {"__getattr__", (PyCFunction)__pyx_array___getattr__, METH_O|METH_COEXIST, 0}, {0, 0, 0, 0} }; static struct PyGetSetDef __pyx_getsets_array[] = { {(char *)"memview", __pyx_getprop___pyx_array_memview, 0, (char *)0, 0}, {0, 0, 0, 0, 0} }; static PySequenceMethods __pyx_tp_as_sequence_array = { 0, /*sq_length*/ 0, /*sq_concat*/ 0, /*sq_repeat*/ __pyx_sq_item_array, /*sq_item*/ 0, /*sq_slice*/ 0, /*sq_ass_item*/ 0, /*sq_ass_slice*/ 0, /*sq_contains*/ 0, /*sq_inplace_concat*/ 0, /*sq_inplace_repeat*/ }; static PyMappingMethods __pyx_tp_as_mapping_array = { 0, /*mp_length*/ __pyx_array___getitem__, /*mp_subscript*/ __pyx_mp_ass_subscript_array, /*mp_ass_subscript*/ }; static PyBufferProcs __pyx_tp_as_buffer_array = { #if PY_MAJOR_VERSION < 3 0, /*bf_getreadbuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_array_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_array = { PyVarObject_HEAD_INIT(0, 0) "silx.image.bilinear.array", /*tp_name*/ sizeof(struct __pyx_array_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_array, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif 0, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_array, /*tp_as_sequence*/ &__pyx_tp_as_mapping_array, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ __pyx_tp_getattro_array, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_array, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE, /*tp_flags*/ 0, /*tp_doc*/ 0, /*tp_traverse*/ 0, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_array, /*tp_methods*/ 0, /*tp_members*/ __pyx_getsets_array, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ 0, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_array, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static PyObject *__pyx_tp_new_Enum(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { struct __pyx_MemviewEnum_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_MemviewEnum_obj *)o); p->name = Py_None; Py_INCREF(Py_None); return o; } static void __pyx_tp_dealloc_Enum(PyObject *o) { struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); Py_CLEAR(p->name); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_Enum(PyObject *o, visitproc v, void *a) { int e; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; if (p->name) { e = (*v)(p->name, a); if (e) return e; } return 0; } static int __pyx_tp_clear_Enum(PyObject *o) { PyObject* tmp; struct __pyx_MemviewEnum_obj *p = (struct __pyx_MemviewEnum_obj *)o; tmp = ((PyObject*)p->name); p->name = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); return 0; } static PyMethodDef __pyx_methods_Enum[] = { {0, 0, 0, 0} }; static PyTypeObject __pyx_type___pyx_MemviewEnum = { PyVarObject_HEAD_INIT(0, 0) "silx.image.bilinear.Enum", /*tp_name*/ sizeof(struct __pyx_MemviewEnum_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_Enum, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_MemviewEnum___repr__, /*tp_repr*/ 0, /*tp_as_number*/ 0, /*tp_as_sequence*/ 0, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ 0, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ 0, /*tp_as_buffer*/ Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ 0, /*tp_doc*/ __pyx_tp_traverse_Enum, /*tp_traverse*/ __pyx_tp_clear_Enum, /*tp_clear*/ 0, /*tp_richcompare*/ 0, /*tp_weaklistoffset*/ 0, /*tp_iter*/ 0, /*tp_iternext*/ __pyx_methods_Enum, /*tp_methods*/ 0, /*tp_members*/ 0, /*tp_getset*/ 0, /*tp_base*/ 0, /*tp_dict*/ 0, /*tp_descr_get*/ 0, /*tp_descr_set*/ 0, /*tp_dictoffset*/ __pyx_MemviewEnum___init__, /*tp_init*/ 0, /*tp_alloc*/ __pyx_tp_new_Enum, /*tp_new*/ 0, /*tp_free*/ 0, /*tp_is_gc*/ 0, /*tp_bases*/ 0, /*tp_mro*/ 0, /*tp_cache*/ 0, /*tp_subclasses*/ 0, /*tp_weaklist*/ 0, /*tp_del*/ 0, /*tp_version_tag*/ #if PY_VERSION_HEX >= 0x030400a1 0, /*tp_finalize*/ #endif }; static struct __pyx_vtabstruct_memoryview __pyx_vtable_memoryview; static PyObject *__pyx_tp_new_memoryview(PyTypeObject *t, PyObject *a, PyObject *k) { struct __pyx_memoryview_obj *p; PyObject *o; if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) { o = (*t->tp_alloc)(t, 0); } else { o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0); } if (unlikely(!o)) return 0; p = ((struct __pyx_memoryview_obj *)o); p->__pyx_vtab = __pyx_vtabptr_memoryview; p->obj = Py_None; Py_INCREF(Py_None); p->_size = Py_None; Py_INCREF(Py_None); p->_array_interface = Py_None; Py_INCREF(Py_None); p->view.obj = NULL; if (unlikely(__pyx_memoryview___cinit__(o, a, k) < 0)) goto bad; return o; bad: Py_DECREF(o); o = 0; return NULL; } static void __pyx_tp_dealloc_memoryview(PyObject *o) { struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; #if PY_VERSION_HEX >= 0x030400a1 if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { if (PyObject_CallFinalizerFromDealloc(o)) return; } #endif PyObject_GC_UnTrack(o); { PyObject *etype, *eval, *etb; PyErr_Fetch(&etype, &eval, &etb); ++Py_REFCNT(o); __pyx_memoryview___dealloc__(o); --Py_REFCNT(o); PyErr_Restore(etype, eval, etb); } Py_CLEAR(p->obj); Py_CLEAR(p->_size); Py_CLEAR(p->_array_interface); (*Py_TYPE(o)->tp_free)(o); } static int __pyx_tp_traverse_memoryview(PyObject *o, visitproc v, void *a) { int e; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; if (p->obj) { e = (*v)(p->obj, a); if (e) return e; } if (p->_size) { e = (*v)(p->_size, a); if (e) return e; } if (p->_array_interface) { e = (*v)(p->_array_interface, a); if (e) return e; } if (p->view.obj) { e = (*v)(p->view.obj, a); if (e) return e; } return 0; } static int __pyx_tp_clear_memoryview(PyObject *o) { PyObject* tmp; struct __pyx_memoryview_obj *p = (struct __pyx_memoryview_obj *)o; tmp = ((PyObject*)p->obj); p->obj = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_size); p->_size = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); tmp = ((PyObject*)p->_array_interface); p->_array_interface = Py_None; Py_INCREF(Py_None); Py_XDECREF(tmp); Py_CLEAR(p->view.obj); return 0; } static PyObject *__pyx_sq_item_memoryview(PyObject *o, Py_ssize_t i) { PyObject *r; PyObject *x = PyInt_FromSsize_t(i); if(!x) return 0; r = Py_TYPE(o)->tp_as_mapping->mp_subscript(o, x); Py_DECREF(x); return r; } static int __pyx_mp_ass_subscript_memoryview(PyObject *o, PyObject *i, PyObject *v) { if (v) { return __pyx_memoryview___setitem__(o, i, v); } else { PyErr_Format(PyExc_NotImplementedError, "Subscript deletion not supported by %.200s", Py_TYPE(o)->tp_name); return -1; } } static PyObject *__pyx_getprop___pyx_memoryview_T(PyObject *o, CYTHON_UNUSED void *x) { return __pyx_pw_15View_dot_MemoryView_10memoryview_1T_1__get__(o); } static PyObject *__pyx_getprop___pyx_memoryview_base(PyObject *o, CYTHON_UNUSED void *x) { return 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PY_MAJOR_VERSION < 3 0, /*bf_getwritebuffer*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getsegcount*/ #endif #if PY_MAJOR_VERSION < 3 0, /*bf_getcharbuffer*/ #endif __pyx_memoryview_getbuffer, /*bf_getbuffer*/ 0, /*bf_releasebuffer*/ }; static PyTypeObject __pyx_type___pyx_memoryview = { PyVarObject_HEAD_INIT(0, 0) "silx.image.bilinear.memoryview", /*tp_name*/ sizeof(struct __pyx_memoryview_obj), /*tp_basicsize*/ 0, /*tp_itemsize*/ __pyx_tp_dealloc_memoryview, /*tp_dealloc*/ 0, /*tp_print*/ 0, /*tp_getattr*/ 0, /*tp_setattr*/ #if PY_MAJOR_VERSION < 3 0, /*tp_compare*/ #endif #if PY_MAJOR_VERSION >= 3 0, /*tp_as_async*/ #endif __pyx_memoryview___repr__, /*tp_repr*/ 0, /*tp_as_number*/ &__pyx_tp_as_sequence_memoryview, /*tp_as_sequence*/ &__pyx_tp_as_mapping_memoryview, /*tp_as_mapping*/ 0, /*tp_hash*/ 0, /*tp_call*/ __pyx_memoryview___str__, /*tp_str*/ 0, /*tp_getattro*/ 0, /*tp_setattro*/ &__pyx_tp_as_buffer_memoryview, /*tp_as_buffer*/ 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if (PyDict_SetItem(__pyx_memoryview_type->tp_dict, __pyx_n_s_pyx_getbuffer, __pyx_t_1) < 0) __PYX_ERR(1, 535, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; PyType_Modified(__pyx_memoryview_type); /* "View.MemoryView":981 * return self.from_object * * __pyx_getbuffer = capsule( &__pyx_memoryview_getbuffer, "getbuffer(obj, view, flags)") # <<<<<<<<<<<<<< * * */ __pyx_t_1 = __pyx_capsule_create(((void *)(&__pyx_memoryview_getbuffer)), ((char *)"getbuffer(obj, view, flags)")); if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 981, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); if (PyDict_SetItem(__pyx_memoryviewslice_type->tp_dict, __pyx_n_s_pyx_getbuffer, __pyx_t_1) < 0) __PYX_ERR(1, 981, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; PyType_Modified(__pyx_memoryviewslice_type); /* "View.MemoryView":1391 * * @cname('__pyx_memoryview__slice_assign_scalar') * cdef void _slice_assign_scalar(char *data, Py_ssize_t *shape, # <<<<<<<<<<<<<< * Py_ssize_t *strides, int ndim, * size_t itemsize, void *item) nogil: */ /*--- Wrapped vars code ---*/ goto __pyx_L0; __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_2); __Pyx_XDECREF(__pyx_t_3); __Pyx_XDECREF(__pyx_t_4); __Pyx_XDECREF(__pyx_t_5); if (__pyx_m) { if (__pyx_d) { __Pyx_AddTraceback("init silx.image.bilinear", __pyx_clineno, __pyx_lineno, __pyx_filename); } Py_DECREF(__pyx_m); __pyx_m = 0; } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_ImportError, "init silx.image.bilinear"); } __pyx_L0:; __Pyx_RefNannyFinishContext(); #if PY_MAJOR_VERSION < 3 return; #else return __pyx_m; #endif } /* --- Runtime support code --- */ /* Refnanny */ #if CYTHON_REFNANNY static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { PyObject *m = NULL, *p = NULL; void *r = NULL; m = PyImport_ImportModule((char *)modname); if (!m) goto end; p = PyObject_GetAttrString(m, (char *)"RefNannyAPI"); if (!p) goto end; r = PyLong_AsVoidPtr(p); end: Py_XDECREF(p); Py_XDECREF(m); return (__Pyx_RefNannyAPIStruct *)r; } #endif /* GetBuiltinName */ static PyObject *__Pyx_GetBuiltinName(PyObject *name) { PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); if (unlikely(!result)) { PyErr_Format(PyExc_NameError, #if PY_MAJOR_VERSION >= 3 "name '%U' is not defined", name); #else "name '%.200s' is not defined", PyString_AS_STRING(name)); #endif } return result; } /* RaiseDoubleKeywords */ static void __Pyx_RaiseDoubleKeywordsError( const char* func_name, PyObject* kw_name) { PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION >= 3 "%s() got multiple values for keyword argument '%U'", func_name, kw_name); #else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* RaiseArgTupleInvalid */ static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found) { Py_ssize_t num_expected; const char *more_or_less; if (num_found < num_min) { num_expected = num_min; more_or_less = "at least"; } else { num_expected = num_max; more_or_less = "at most"; } if (exact) { more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { if (op1 == op2) { Py_RETURN_TRUE; } #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long a = PyInt_AS_LONG(op1); if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a; const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; } #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15 default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ); #else default: Py_RETURN_FALSE; #endif } } if (a == b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); if ((double)a == (double)b) { Py_RETURN_TRUE; } else { Py_RETURN_FALSE; } } return PyObject_RichCompare(op1, op2, Py_EQ); } #endif /* GetItemInt */ static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { PyObject *r; if (!j) return NULL; r = PyObject_GetItem(o, j); Py_DECREF(j); return r; } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { PyObject *r = PyList_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, i); Py_INCREF(r); return r; } return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); #else return PySequence_GetItem(o, i); #endif } static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list, CYTHON_NCP_UNUSED int wraparound, CYTHON_NCP_UNUSED int boundscheck) { #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS if (is_list || PyList_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { PyObject *r = PyList_GET_ITEM(o, n); Py_INCREF(r); return r; } } else if (PyTuple_CheckExact(o)) { Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { PyObject *r = PyTuple_GET_ITEM(o, n); Py_INCREF(r); return r; } } else { PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; if (likely(m && m->sq_item)) { if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { Py_ssize_t l = m->sq_length(o); if (likely(l >= 0)) { i += l; } else { if (!PyErr_ExceptionMatches(PyExc_OverflowError)) return NULL; PyErr_Clear(); } } return m->sq_item(o, i); } } #else if (is_list || PySequence_Check(o)) { return PySequence_GetItem(o, i); } #endif return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); } /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL); } #endif // CYTHON_FAST_PYCCALL /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = PyThreadState_GET(); PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif // CPython < 3.6 #endif // CYTHON_FAST_PYCALL /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* PyObjectCallNoArg */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, NULL, 0); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* BufferFormatCheck */ static CYTHON_INLINE int __Pyx_IsLittleEndian(void) { unsigned int n = 1; return *(unsigned char*)(&n) != 0; } static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static CYTHON_INLINE PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_IsLittleEndian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static CYTHON_INLINE int __Pyx_GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { if (obj == Py_None || obj == NULL) { __Pyx_ZeroBuffer(buf); return 0; } buf->buf = NULL; if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail; if (buf->ndim != nd) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned)buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_ZeroBuffer(buf); return -1; } static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (info->buf == NULL) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } /* MemviewSliceInit */ static int __Pyx_init_memviewslice(struct __pyx_memoryview_obj *memview, int ndim, __Pyx_memviewslice *memviewslice, int memview_is_new_reference) { __Pyx_RefNannyDeclarations int i, retval=-1; Py_buffer *buf = &memview->view; __Pyx_RefNannySetupContext("init_memviewslice", 0); if (!buf) { PyErr_SetString(PyExc_ValueError, "buf is NULL."); goto fail; } else if (memviewslice->memview || memviewslice->data) { PyErr_SetString(PyExc_ValueError, "memviewslice is already initialized!"); goto fail; } if (buf->strides) { for (i = 0; i < ndim; i++) { memviewslice->strides[i] = buf->strides[i]; } } else { Py_ssize_t stride = buf->itemsize; for (i = ndim - 1; i >= 0; i--) { memviewslice->strides[i] = stride; stride *= buf->shape[i]; } } for (i = 0; i < ndim; i++) { memviewslice->shape[i] = buf->shape[i]; if (buf->suboffsets) { memviewslice->suboffsets[i] = buf->suboffsets[i]; } else { memviewslice->suboffsets[i] = -1; } } memviewslice->memview = memview; memviewslice->data = (char *)buf->buf; if (__pyx_add_acquisition_count(memview) == 0 && !memview_is_new_reference) { Py_INCREF(memview); } retval = 0; goto no_fail; fail: memviewslice->memview = 0; memviewslice->data = 0; retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } static CYTHON_INLINE void __pyx_fatalerror(const char *fmt, ...) { va_list vargs; char msg[200]; #ifdef HAVE_STDARG_PROTOTYPES va_start(vargs, fmt); #else va_start(vargs); #endif vsnprintf(msg, 200, fmt, vargs); Py_FatalError(msg); va_end(vargs); } static CYTHON_INLINE int __pyx_add_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)++; PyThread_release_lock(lock); return result; } static CYTHON_INLINE int __pyx_sub_acquisition_count_locked(__pyx_atomic_int *acquisition_count, PyThread_type_lock lock) { int result; PyThread_acquire_lock(lock, 1); result = (*acquisition_count)--; PyThread_release_lock(lock); return result; } static CYTHON_INLINE void __Pyx_INC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int first_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview || (PyObject *) memview == Py_None) return; if (__pyx_get_slice_count(memview) < 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); first_time = __pyx_add_acquisition_count(memview) == 0; if (first_time) { if (have_gil) { Py_INCREF((PyObject *) memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_INCREF((PyObject *) memview); PyGILState_Release(_gilstate); } } } static CYTHON_INLINE void __Pyx_XDEC_MEMVIEW(__Pyx_memviewslice *memslice, int have_gil, int lineno) { int last_time; struct __pyx_memoryview_obj *memview = memslice->memview; if (!memview ) { return; } else if ((PyObject *) memview == Py_None) { memslice->memview = NULL; return; } if (__pyx_get_slice_count(memview) <= 0) __pyx_fatalerror("Acquisition count is %d (line %d)", __pyx_get_slice_count(memview), lineno); last_time = __pyx_sub_acquisition_count(memview) == 1; memslice->data = NULL; if (last_time) { if (have_gil) { Py_CLEAR(memslice->memview); } else { PyGILState_STATE _gilstate = PyGILState_Ensure(); Py_CLEAR(memslice->memview); PyGILState_Release(_gilstate); } } else { memslice->memview = NULL; } } /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* WriteUnraisableException */ static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, int full_traceback, CYTHON_UNUSED int nogil) { PyObject *old_exc, *old_val, *old_tb; PyObject *ctx; __Pyx_PyThreadState_declare #ifdef WITH_THREAD PyGILState_STATE state; if (nogil) state = PyGILState_Ensure(); #ifdef _MSC_VER else state = (PyGILState_STATE)-1; #endif #endif __Pyx_PyThreadState_assign __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); if (full_traceback) { Py_XINCREF(old_exc); Py_XINCREF(old_val); Py_XINCREF(old_tb); __Pyx_ErrRestore(old_exc, old_val, old_tb); PyErr_PrintEx(1); } #if PY_MAJOR_VERSION < 3 ctx = PyString_FromString(name); #else ctx = PyUnicode_FromString(name); #endif __Pyx_ErrRestore(old_exc, old_val, old_tb); if (!ctx) { PyErr_WriteUnraisable(Py_None); } else { PyErr_WriteUnraisable(ctx); Py_DECREF(ctx); } #ifdef WITH_THREAD if (nogil) PyGILState_Release(state); #endif } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* IterFinish */ static CYTHON_INLINE int __Pyx_IterFinish(void) { #if CYTHON_FAST_THREAD_STATE PyThreadState *tstate = PyThreadState_GET(); PyObject* exc_type = tstate->curexc_type; if (unlikely(exc_type)) { if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { PyObject *exc_value, *exc_tb; exc_value = tstate->curexc_value; exc_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; Py_DECREF(exc_type); Py_XDECREF(exc_value); Py_XDECREF(exc_tb); return 0; } else { return -1; } } return 0; #else if (unlikely(PyErr_Occurred())) { if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { PyErr_Clear(); return 0; } else { return -1; } } return 0; #endif } /* UnpackItemEndCheck */ static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { if (unlikely(retval)) { Py_DECREF(retval); __Pyx_RaiseTooManyValuesError(expected); return -1; } else { return __Pyx_IterFinish(); } return 0; } /* ArgTypeTest */ static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); } static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { if (likely(Py_TYPE(obj) == type)) return 1; #if PY_MAJOR_VERSION == 2 else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(PyObject_TypeCheck(obj, type))) return 1; } __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } #if PY_VERSION_HEX >= 0x03030000 if (cause) { #else if (cause && cause != Py_None) { #endif PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = PyThreadState_GET(); PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* BytesEquals */ static CYTHON_INLINE int __Pyx_PyBytes_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else if (s1 == s2) { return (equals == Py_EQ); } else if (PyBytes_CheckExact(s1) & PyBytes_CheckExact(s2)) { const char *ps1, *ps2; Py_ssize_t length = PyBytes_GET_SIZE(s1); if (length != PyBytes_GET_SIZE(s2)) return (equals == Py_NE); ps1 = PyBytes_AS_STRING(s1); ps2 = PyBytes_AS_STRING(s2); if (ps1[0] != ps2[0]) { return (equals == Py_NE); } else if (length == 1) { return (equals == Py_EQ); } else { int result = memcmp(ps1, ps2, (size_t)length); return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & PyBytes_CheckExact(s2)) { return (equals == Py_NE); } else if ((s2 == Py_None) & PyBytes_CheckExact(s1)) { return (equals == Py_NE); } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } #endif } /* UnicodeEquals */ static CYTHON_INLINE int __Pyx_PyUnicode_Equals(PyObject* s1, PyObject* s2, int equals) { #if CYTHON_COMPILING_IN_PYPY return PyObject_RichCompareBool(s1, s2, equals); #else #if PY_MAJOR_VERSION < 3 PyObject* owned_ref = NULL; #endif int s1_is_unicode, s2_is_unicode; if (s1 == s2) { goto return_eq; } s1_is_unicode = PyUnicode_CheckExact(s1); s2_is_unicode = PyUnicode_CheckExact(s2); #if PY_MAJOR_VERSION < 3 if ((s1_is_unicode & (!s2_is_unicode)) && PyString_CheckExact(s2)) { owned_ref = PyUnicode_FromObject(s2); if (unlikely(!owned_ref)) return -1; s2 = owned_ref; s2_is_unicode = 1; } else if ((s2_is_unicode & (!s1_is_unicode)) && PyString_CheckExact(s1)) { owned_ref = PyUnicode_FromObject(s1); if (unlikely(!owned_ref)) return -1; s1 = owned_ref; s1_is_unicode = 1; } else if (((!s2_is_unicode) & (!s1_is_unicode))) { return __Pyx_PyBytes_Equals(s1, s2, equals); } #endif if (s1_is_unicode & s2_is_unicode) { Py_ssize_t length; int kind; void *data1, *data2; if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) return -1; length = __Pyx_PyUnicode_GET_LENGTH(s1); if (length != __Pyx_PyUnicode_GET_LENGTH(s2)) { goto return_ne; } kind = __Pyx_PyUnicode_KIND(s1); if (kind != __Pyx_PyUnicode_KIND(s2)) { goto return_ne; } data1 = __Pyx_PyUnicode_DATA(s1); data2 = __Pyx_PyUnicode_DATA(s2); if (__Pyx_PyUnicode_READ(kind, data1, 0) != __Pyx_PyUnicode_READ(kind, data2, 0)) { goto return_ne; } else if (length == 1) { goto return_eq; } else { int result = memcmp(data1, data2, (size_t)(length * kind)); #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ) ? (result == 0) : (result != 0); } } else if ((s1 == Py_None) & s2_is_unicode) { goto return_ne; } else if ((s2 == Py_None) & s1_is_unicode) { goto return_ne; } else { int result; PyObject* py_result = PyObject_RichCompare(s1, s2, equals); if (!py_result) return -1; result = __Pyx_PyObject_IsTrue(py_result); Py_DECREF(py_result); return result; } return_eq: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_EQ); return_ne: #if PY_MAJOR_VERSION < 3 Py_XDECREF(owned_ref); #endif return (equals == Py_NE); #endif } /* None */ static CYTHON_INLINE Py_ssize_t __Pyx_div_Py_ssize_t(Py_ssize_t a, Py_ssize_t b) { Py_ssize_t q = a / b; Py_ssize_t r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* GetAttr */ static CYTHON_INLINE PyObject *__Pyx_GetAttr(PyObject *o, PyObject *n) { #if CYTHON_COMPILING_IN_CPYTHON #if PY_MAJOR_VERSION >= 3 if (likely(PyUnicode_Check(n))) #else if (likely(PyString_Check(n))) #endif return __Pyx_PyObject_GetAttrStr(o, n); #endif return PyObject_GetAttr(o, n); } /* decode_c_string */ static CYTHON_INLINE PyObject* __Pyx_decode_c_string( const char* cstring, Py_ssize_t start, Py_ssize_t stop, const char* encoding, const char* errors, PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { Py_ssize_t length; if (unlikely((start < 0) | (stop < 0))) { size_t slen = strlen(cstring); if (unlikely(slen > (size_t) PY_SSIZE_T_MAX)) { PyErr_SetString(PyExc_OverflowError, "c-string too long to convert to Python"); return NULL; } length = (Py_ssize_t) slen; if (start < 0) { start += length; if (start < 0) start = 0; } if (stop < 0) stop += length; } length = stop - start; if (unlikely(length <= 0)) return PyUnicode_FromUnicode(NULL, 0); cstring += start; if (decode_func) { return decode_func(cstring, length, errors); } else { return PyUnicode_Decode(cstring, length, encoding, errors); } } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) { PyObject *exc_type = tstate->curexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; return PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* SwapException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSwap(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = *type; tstate->exc_value = *value; tstate->exc_traceback = *tb; *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #else static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); PyErr_SetExcInfo(*type, *value, *tb); *type = tmp_type; *value = tmp_value; *tb = tmp_tb; } #endif /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_VERSION_HEX < 0x03030000 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* PyIntBinop */ #if !CYTHON_COMPILING_IN_PYPY static PyObject* __Pyx_PyInt_AddObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) { #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(op1))) { const long b = intval; long x; long a = PyInt_AS_LONG(op1); x = (long)((unsigned long)a + b); if (likely((x^a) >= 0 || (x^b) >= 0)) return PyInt_FromLong(x); return PyLong_Type.tp_as_number->nb_add(op1, op2); } #endif #if CYTHON_USE_PYLONG_INTERNALS if (likely(PyLong_CheckExact(op1))) { const long b = intval; long a, x; #ifdef HAVE_LONG_LONG const PY_LONG_LONG llb = intval; PY_LONG_LONG lla, llx; #endif const digit* digits = ((PyLongObject*)op1)->ob_digit; const Py_ssize_t size = Py_SIZE(op1); if (likely(__Pyx_sst_abs(size) <= 1)) { a = likely(size) ? digits[0] : 0; if (size == -1) a = -a; } else { switch (size) { case -2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 2: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 2 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 3: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 3 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case -4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = -(PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } case 4: if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])); break; #ifdef HAVE_LONG_LONG } else if (8 * sizeof(PY_LONG_LONG) - 1 > 4 * PyLong_SHIFT) { lla = (PY_LONG_LONG) (((((((((unsigned PY_LONG_LONG)digits[3]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[2]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[1]) << PyLong_SHIFT) | (unsigned PY_LONG_LONG)digits[0])); goto long_long; #endif } default: return PyLong_Type.tp_as_number->nb_add(op1, op2); } } x = a + b; return PyLong_FromLong(x); #ifdef HAVE_LONG_LONG long_long: llx = lla + llb; return PyLong_FromLongLong(llx); #endif } #endif if (PyFloat_CheckExact(op1)) { const long b = intval; double a = PyFloat_AS_DOUBLE(op1); double result; PyFPE_START_PROTECT("add", return NULL) result = ((double)a) + (double)b; PyFPE_END_PROTECT(result) return PyFloat_FromDouble(result); } return (inplace ? PyNumber_InPlaceAdd : PyNumber_Add)(op1, op2); } #endif /* None */ static CYTHON_INLINE void __Pyx_RaiseUnboundLocalError(const char *varname) { PyErr_Format(PyExc_UnboundLocalError, "local variable '%s' referenced before assignment", varname); } /* None */ static CYTHON_INLINE long __Pyx_div_long(long a, long b) { long q = a / b; long r = a - q*b; q -= ((r != 0) & ((r ^ b) < 0)); return q; } /* SetVTable */ static int __Pyx_SetVtable(PyObject *dict, void *vtable) { #if PY_VERSION_HEX >= 0x02070000 PyObject *ob = PyCapsule_New(vtable, 0, 0); #else PyObject *ob = PyCObject_FromVoidPtr(vtable, 0); #endif if (!ob) goto bad; if (PyDict_SetItem(dict, __pyx_n_s_pyx_vtable, ob) < 0) goto bad; Py_DECREF(ob); return 0; bad: Py_XDECREF(ob); return -1; } /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; py_code = __pyx_find_code_object(c_line ? c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? c_line : py_line, py_code); } py_frame = PyFrame_New( PyThreadState_GET(), /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_array_type)) return __pyx_array_getbuffer(obj, view, flags); if (PyObject_TypeCheck(obj, __pyx_memoryview_type)) return __pyx_memoryview_getbuffer(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } Py_DECREF(obj); view->obj = NULL; } #endif /* MemviewSliceIsContig */ static int __pyx_memviewslice_is_contig(const __Pyx_memviewslice mvs, char order, int ndim) { int i, index, step, start; Py_ssize_t itemsize = mvs.memview->view.itemsize; if (order == 'F') { step = 1; start = 0; } else { step = -1; start = ndim - 1; } for (i = 0; i < ndim; i++) { index = start + step * i; if (mvs.suboffsets[index] >= 0 || mvs.strides[index] != itemsize) return 0; itemsize *= mvs.shape[index]; } return 1; } /* OverlappingSlices */ static void __pyx_get_array_memory_extents(__Pyx_memviewslice *slice, void **out_start, void **out_end, int ndim, size_t itemsize) { char *start, *end; int i; start = end = slice->data; for (i = 0; i < ndim; i++) { Py_ssize_t stride = slice->strides[i]; Py_ssize_t extent = slice->shape[i]; if (extent == 0) { *out_start = *out_end = start; return; } else { if (stride > 0) end += stride * (extent - 1); else start += stride * (extent - 1); } } *out_start = start; *out_end = end + itemsize; } static int __pyx_slices_overlap(__Pyx_memviewslice *slice1, __Pyx_memviewslice *slice2, int ndim, size_t itemsize) { void *start1, *end1, *start2, *end2; __pyx_get_array_memory_extents(slice1, &start1, &end1, ndim, itemsize); __pyx_get_array_memory_extents(slice2, &start2, &end2, ndim, itemsize); return (start1 < end2) && (start2 < end1); } /* Capsule */ static CYTHON_INLINE PyObject * __pyx_capsule_create(void *p, CYTHON_UNUSED const char *sig) { PyObject *cobj; #if PY_VERSION_HEX >= 0x02070000 cobj = PyCapsule_New(p, sig, NULL); #else cobj = PyCObject_FromVoidPtr(p, NULL); #endif return cobj; } /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* MemviewDtypeToObject */ static CYTHON_INLINE PyObject *__pyx_memview_get_float(const char *itemp) { return (PyObject *) PyFloat_FromDouble(*(float *) itemp); } static CYTHON_INLINE int __pyx_memview_set_float(const char *itemp, PyObject *obj) { float value = __pyx_PyFloat_AsFloat(obj); if ((value == (float)-1) && PyErr_Occurred()) return 0; *(float *) itemp = value; return 1; } /* MemviewSliceCopyTemplate */ static __Pyx_memviewslice __pyx_memoryview_copy_new_contig(const __Pyx_memviewslice *from_mvs, const char *mode, int ndim, size_t sizeof_dtype, int contig_flag, int dtype_is_object) { __Pyx_RefNannyDeclarations int i; __Pyx_memviewslice new_mvs = { 0, 0, { 0 }, { 0 }, { 0 } }; struct __pyx_memoryview_obj *from_memview = from_mvs->memview; Py_buffer *buf = &from_memview->view; PyObject *shape_tuple = NULL; PyObject *temp_int = NULL; struct __pyx_array_obj *array_obj = NULL; struct __pyx_memoryview_obj *memview_obj = NULL; __Pyx_RefNannySetupContext("__pyx_memoryview_copy_new_contig", 0); for (i = 0; i < ndim; i++) { if (from_mvs->suboffsets[i] >= 0) { PyErr_Format(PyExc_ValueError, "Cannot copy memoryview slice with " "indirect dimensions (axis %d)", i); goto fail; } } shape_tuple = PyTuple_New(ndim); if (unlikely(!shape_tuple)) { goto fail; } __Pyx_GOTREF(shape_tuple); for(i = 0; i < ndim; i++) { temp_int = PyInt_FromSsize_t(from_mvs->shape[i]); if(unlikely(!temp_int)) { goto fail; } else { PyTuple_SET_ITEM(shape_tuple, i, temp_int); temp_int = NULL; } } array_obj = __pyx_array_new(shape_tuple, sizeof_dtype, buf->format, (char *) mode, NULL); if (unlikely(!array_obj)) { goto fail; } __Pyx_GOTREF(array_obj); memview_obj = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( (PyObject *) array_obj, contig_flag, dtype_is_object, from_mvs->memview->typeinfo); if (unlikely(!memview_obj)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview_obj, ndim, &new_mvs, 1) < 0)) goto fail; if (unlikely(__pyx_memoryview_copy_contents(*from_mvs, new_mvs, ndim, ndim, dtype_is_object) < 0)) goto fail; goto no_fail; fail: __Pyx_XDECREF(new_mvs.memview); new_mvs.memview = NULL; new_mvs.data = NULL; no_fail: __Pyx_XDECREF(shape_tuple); __Pyx_XDECREF(temp_int); __Pyx_XDECREF(array_obj); __Pyx_RefNannyFinishContext(); return new_mvs; } /* CIntFromPy */ static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *x) { const size_t neg_one = (size_t) -1, const_zero = (size_t) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(size_t) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(size_t, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (size_t) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (size_t) 0; case 1: __PYX_VERIFY_RETURN_INT(size_t, digit, digits[0]) case 2: if (8 * sizeof(size_t) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) >= 2 * PyLong_SHIFT) { return (size_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } } break; case 3: if (8 * sizeof(size_t) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) >= 3 * PyLong_SHIFT) { return (size_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } } break; case 4: if (8 * sizeof(size_t) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) >= 4 * PyLong_SHIFT) { return (size_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (size_t) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(size_t) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(size_t) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (size_t) 0; case -1: __PYX_VERIFY_RETURN_INT(size_t, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(size_t, digit, +digits[0]) case -2: if (8 * sizeof(size_t) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) { return (size_t) (((size_t)-1)*(((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case 2: if (8 * sizeof(size_t) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) { return (size_t) ((((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case -3: if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) { return (size_t) (((size_t)-1)*(((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case 3: if (8 * sizeof(size_t) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) { return (size_t) ((((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case -4: if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 4 * PyLong_SHIFT) { return (size_t) (((size_t)-1)*(((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; case 4: if (8 * sizeof(size_t) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(size_t) - 1 > 4 * PyLong_SHIFT) { return (size_t) ((((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]))); } } break; } #endif if (sizeof(size_t) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(size_t) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(size_t, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else size_t val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (size_t) -1; } } else { size_t val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (size_t) -1; val = __Pyx_PyInt_As_size_t(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to size_t"); return (size_t) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to size_t"); return (size_t) -1; } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) { const char neg_one = (char) -1, const_zero = (char) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(char) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (char) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case 1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0]) case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) { return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) { return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) { return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (char) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(char) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (char) 0; case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(char, digit, +digits[0]) case -2: if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 2: if (8 * sizeof(char) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -3: if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 3: if (8 * sizeof(char) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case -4: if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; case 4: if (8 * sizeof(char) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) { return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]))); } } break; } #endif if (sizeof(char) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else char val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (char) -1; } } else { char val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (char) -1; val = __Pyx_PyInt_As_char(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to char"); return (char) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to char"); return (char) -1; } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* TypeInfoCompare */ static int __pyx_typeinfo_cmp(__Pyx_TypeInfo *a, __Pyx_TypeInfo *b) { int i; if (!a || !b) return 0; if (a == b) return 1; if (a->size != b->size || a->typegroup != b->typegroup || a->is_unsigned != b->is_unsigned || a->ndim != b->ndim) { if (a->typegroup == 'H' || b->typegroup == 'H') { return a->size == b->size; } else { return 0; } } if (a->ndim) { for (i = 0; i < a->ndim; i++) if (a->arraysize[i] != b->arraysize[i]) return 0; } if (a->typegroup == 'S') { if (a->flags != b->flags) return 0; if (a->fields || b->fields) { if (!(a->fields && b->fields)) return 0; for (i = 0; a->fields[i].type && b->fields[i].type; i++) { __Pyx_StructField *field_a = a->fields + i; __Pyx_StructField *field_b = b->fields + i; if (field_a->offset != field_b->offset || !__pyx_typeinfo_cmp(field_a->type, field_b->type)) return 0; } return !a->fields[i].type && !b->fields[i].type; } } return 1; } /* MemviewSliceValidateAndInit */ static int __pyx_check_strides(Py_buffer *buf, int dim, int ndim, int spec) { if (buf->shape[dim] <= 1) return 1; if (buf->strides) { if (spec & __Pyx_MEMVIEW_CONTIG) { if (spec & (__Pyx_MEMVIEW_PTR|__Pyx_MEMVIEW_FULL)) { if (buf->strides[dim] != sizeof(void *)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly contiguous " "in dimension %d.", dim); goto fail; } } else if (buf->strides[dim] != buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } if (spec & __Pyx_MEMVIEW_FOLLOW) { Py_ssize_t stride = buf->strides[dim]; if (stride < 0) stride = -stride; if (stride < buf->itemsize) { PyErr_SetString(PyExc_ValueError, "Buffer and memoryview are not contiguous " "in the same dimension."); goto fail; } } } else { if (spec & __Pyx_MEMVIEW_CONTIG && dim != ndim - 1) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not contiguous in " "dimension %d", dim); goto fail; } else if (spec & (__Pyx_MEMVIEW_PTR)) { PyErr_Format(PyExc_ValueError, "C-contiguous buffer is not indirect in " "dimension %d", dim); goto fail; } else if (buf->suboffsets) { PyErr_SetString(PyExc_ValueError, "Buffer exposes suboffsets but no strides"); goto fail; } } return 1; fail: return 0; } static int __pyx_check_suboffsets(Py_buffer *buf, int dim, CYTHON_UNUSED int ndim, int spec) { if (spec & __Pyx_MEMVIEW_DIRECT) { if (buf->suboffsets && buf->suboffsets[dim] >= 0) { PyErr_Format(PyExc_ValueError, "Buffer not compatible with direct access " "in dimension %d.", dim); goto fail; } } if (spec & __Pyx_MEMVIEW_PTR) { if (!buf->suboffsets || (buf->suboffsets && buf->suboffsets[dim] < 0)) { PyErr_Format(PyExc_ValueError, "Buffer is not indirectly accessible " "in dimension %d.", dim); goto fail; } } return 1; fail: return 0; } static int __pyx_verify_contig(Py_buffer *buf, int ndim, int c_or_f_flag) { int i; if (c_or_f_flag & __Pyx_IS_F_CONTIG) { Py_ssize_t stride = 1; for (i = 0; i < ndim; i++) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not fortran contiguous."); goto fail; } stride = stride * buf->shape[i]; } } else if (c_or_f_flag & __Pyx_IS_C_CONTIG) { Py_ssize_t stride = 1; for (i = ndim - 1; i >- 1; i--) { if (stride * buf->itemsize != buf->strides[i] && buf->shape[i] > 1) { PyErr_SetString(PyExc_ValueError, "Buffer not C contiguous."); goto fail; } stride = stride * buf->shape[i]; } } return 1; fail: return 0; } static int __Pyx_ValidateAndInit_memviewslice( int *axes_specs, int c_or_f_flag, int buf_flags, int ndim, __Pyx_TypeInfo *dtype, __Pyx_BufFmt_StackElem stack[], __Pyx_memviewslice *memviewslice, PyObject *original_obj) { struct __pyx_memoryview_obj *memview, *new_memview; __Pyx_RefNannyDeclarations Py_buffer *buf; int i, spec = 0, retval = -1; __Pyx_BufFmt_Context ctx; int from_memoryview = __pyx_memoryview_check(original_obj); __Pyx_RefNannySetupContext("ValidateAndInit_memviewslice", 0); if (from_memoryview && __pyx_typeinfo_cmp(dtype, ((struct __pyx_memoryview_obj *) original_obj)->typeinfo)) { memview = (struct __pyx_memoryview_obj *) original_obj; new_memview = NULL; } else { memview = (struct __pyx_memoryview_obj *) __pyx_memoryview_new( original_obj, buf_flags, 0, dtype); new_memview = memview; if (unlikely(!memview)) goto fail; } buf = &memview->view; if (buf->ndim != ndim) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", ndim, buf->ndim); goto fail; } if (new_memview) { __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if ((unsigned) buf->itemsize != dtype->size) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "u byte%s) " "does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "u byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } for (i = 0; i < ndim; i++) { spec = axes_specs[i]; if (!__pyx_check_strides(buf, i, ndim, spec)) goto fail; if (!__pyx_check_suboffsets(buf, i, ndim, spec)) goto fail; } if (buf->strides && !__pyx_verify_contig(buf, ndim, c_or_f_flag)) goto fail; if (unlikely(__Pyx_init_memviewslice(memview, ndim, memviewslice, new_memview != NULL) == -1)) { goto fail; } retval = 0; goto no_fail; fail: Py_XDECREF(new_memview); retval = -1; no_fail: __Pyx_RefNannyFinishContext(); return retval; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_d_dc_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_FOLLOW), (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 2, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_ds_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_STRIDED) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, 0, PyBUF_RECORDS, 1, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* ObjectToMemviewSlice */ static CYTHON_INLINE __Pyx_memviewslice __Pyx_PyObject_to_MemoryviewSlice_dc_float(PyObject *obj) { __Pyx_memviewslice result = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_BufFmt_StackElem stack[1]; int axes_specs[] = { (__Pyx_MEMVIEW_DIRECT | __Pyx_MEMVIEW_CONTIG) }; int retcode; if (obj == Py_None) { result.memview = (struct __pyx_memoryview_obj *) Py_None; return result; } retcode = __Pyx_ValidateAndInit_memviewslice(axes_specs, __Pyx_IS_C_CONTIG, (PyBUF_C_CONTIGUOUS | PyBUF_FORMAT | PyBUF_WRITABLE), 1, &__Pyx_TypeInfo_float, stack, &result, obj); if (unlikely(retcode == -1)) goto __pyx_fail; return result; __pyx_fail: result.memview = NULL; result.data = NULL; return result; } /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT) if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { #if PY_VERSION_HEX < 0x03030000 char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; #else if (__Pyx_PyUnicode_READY(o) == -1) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (PyUnicode_IS_ASCII(o)) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif #endif } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); } else if (m && m->nb_long) { name = "long"; res = PyNumber_Long(x); } #else if (m && m->nb_int) { name = "int"; res = PyNumber_Long(x); } #endif #else res = PyNumber_Int(x); #endif if (res) { #if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ silx-0.6.1/silx/image/sift.py0000644023630100076410000000246013202530432016515 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ from silx.opencl.sift import * silx-0.6.1/silx/image/reconstruction.py0000644023630100076410000000247213202530432020634 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ from silx.opencl.reconstruction import * silx-0.6.1/silx/image/__init__.py0000644023630100076410000000253013202530432017305 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "14/02/2017" silx-0.6.1/silx/image/projection.py0000644023630100076410000000246613202530432017732 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ from silx.opencl.projection import * silx-0.6.1/silx/image/medianfilter.py0000644023630100076410000001106313202530432020212 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """ This module provides :func:`medfilt2d`, a 2D median filter function with the choice between 2 implementations: 'cpp' and 'opencl'. """ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "04/05/2017" from silx.math import medianfilter as medianfilter_cpp try: from silx.opencl import medfilt as medfilt_opencl except ImportError: medfilt_opencl = None import logging _logger = logging.getLogger(__name__) MEDFILT_ENGINES = ['cpp', 'opencl'] def medfilt2d(image, kernel_size=3, engine='cpp'): """Apply a median filter on an image. This median filter is using a 'nearest' padding for values past the array edges. If you want more padding options or functionalities for the median filter (conditional filter for example) please have a look at :mod:`silx.math.medianfilter`. :param numpy.ndarray image: the 2D array for which we want to apply the median filter. :param kernel_size: the dimension of the kernel. Kernel size must be odd. If a scalar is given, then it is used as the size in both dimension. Default: (3, 3) :type kernel_size: A int or a list of 2 int (kernel_height, kernel_width) :param engine: the type of implementation to use. Valid values are: 'cpp' (default) and 'opencl' :returns: the array with the median value for each pixel. .. note:: if the opencl implementation is requested but is not present or fails, the cpp implementation is called. """ if engine not in MEDFILT_ENGINES: err = 'silx doesn\'t have an implementation for the requested engine: ' err += '%s' % engine raise ValueError(err) if len(image.shape) is not 2: raise ValueError('medfilt2d deals with arrays of dimension 2 only') if engine == 'cpp': return medianfilter_cpp.medfilt(data=image, kernel_size=kernel_size, conditional=False) elif engine == 'opencl': if medfilt_opencl is None: wrn = 'opencl median filter module import failed' wrn += 'Launching cpp implementation.' _logger.warning(wrn) # instead call the cpp implementation return medianfilter_cpp.medfilt(data=image, kernel_size=kernel_size, conditional=False) else: try: medianfilter = medfilt_opencl.MedianFilter2D(image.shape, devicetype="gpu") res = medianfilter.medfilt2d(image, kernel_size) except(RuntimeError, MemoryError, ImportError): wrn = 'Exception occured in opencl median filter. ' wrn += 'To get more information see debug log.' wrn += 'Launching cpp implementation.' _logger.warning(wrn) _logger.debug("median filter - openCL implementation issue.", exc_info=True) # instead call the cpp implementation res = medianfilter_cpp.medfilt(data=image, kernel_size=kernel_size, conditional=False) return res silx-0.6.1/silx/image/phantomgenerator.py0000644023630100076410000001423113202530432021124 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["N. Vigano", "H. Payno", "P. Paleo"] __license__ = "MIT" __date__ = "19/09/2017" import numpy class PhantomGenerator(object): """ Class for generating Phantoms """ class _Ellipsoid: def __init__(self, a, b, c, x0, y0, z0, alpha, mu): self.a = a self.b = b self.c = c self.x0 = x0 self.y0 = y0 self.z0 = z0 self.alpha = alpha * numpy.pi / 180.0 self.mu = mu self.cosAlpha = numpy.cos(self.alpha) self.sinAlpha = numpy.sin(self.alpha) SHEPP_LOGAN = [ # a b c x0 y0 z0 alpha mu _Ellipsoid(0.69, 0.92, 0.90, 0.0, 0.0, 0.0, 0.0, 0.10), _Ellipsoid(0.6624, 0.874, 0.88, 0.0, -0.02, 0.0, 0.0, -0.08), _Ellipsoid(0.11, 0.31, 0.21, 0.22, -0.0, 0.0, -18.0, -0.02), _Ellipsoid(0.16, 0.41, 0.22, -0.22, 0.0, -0.25, 18.0, -0.02), _Ellipsoid(0.21, 0.25, 0.35, 0.0, 0.35, -0.25, 0.0, 0.03), _Ellipsoid(0.046, 0.046, 0.046, 0.0, 0.10, -0.25, 0.0, 0.01), _Ellipsoid(0.046, 0.046, 0.02, 0.0, -0.10, -0.25, 0.0, 0.01), _Ellipsoid(0.046, 0.023, 0.02, -0.08, -0.605, -0.25, 0.0, 0.01), _Ellipsoid(0.023, 0.023, 0.10, 0.0, -0.605, -0.25, 0.0, 0.01), _Ellipsoid(0.023, 0.046, 0.10, 0.06, -0.605, -0.25, 0.0, 0.01) ] @staticmethod def get2DPhantomSheppLogan(n, ellipsoidID=None): """ generate a classical 2D shepp logan phantom. :param n: The width (and height) of the phantom to generate :param ellipsoidID: The Id of the ellipsoid to pick. If None will produce every ellipsoid :return numpy.ndarray: shepp logan phantom """ assert(ellipsoidID is None or (ellipsoidID >= 0 and ellipsoidID < len(PhantomGenerator.SHEPP_LOGAN))) if ellipsoidID is None: area = PhantomGenerator._get2DPhantom(n, PhantomGenerator.SHEPP_LOGAN) else: area = PhantomGenerator._get2DPhantom(n, [PhantomGenerator.SHEPP_LOGAN[ellipsoidID]]) indices = numpy.abs(area) > 0 area[indices] = numpy.multiply(area[indices] + 0.1, 5) return area / 100.0 @staticmethod def _get2DPhantom(n, phantomSpec): area = numpy.ndarray(shape=(n, n)) area.fill(0.) count = 0 for ell in phantomSpec: count = count+1 for x in range(n): sumSquareXandY = PhantomGenerator._getSquareXandYsum(n, x, ell) indices = sumSquareXandY <= 1 area[indices, x] = ell.mu return area @staticmethod def _getSquareXandYsum(n, x, ell): supportX1 = numpy.ndarray(shape=(n, )) supportX2 = numpy.ndarray(shape=(n, )) support_consts = numpy.ndarray(shape=(n, )) xScaled = float(2*x-n)/float(n) xCos = xScaled * ell.cosAlpha xSin = -xScaled * ell.sinAlpha supportX1.fill(xCos) supportX2.fill(xSin) supportY1 = numpy.arange(n) support_consts.fill(2.) supportY1 = numpy.multiply(support_consts, supportY1) support_consts.fill(n) supportY1 = numpy.subtract(supportY1, support_consts) support_consts.fill(n) supportY1 = numpy.divide(supportY1, support_consts) supportY2 = numpy.array(supportY1) support_consts.fill(ell.sinAlpha) supportY1 = numpy.add(supportX1, numpy.multiply(supportY1, support_consts)) support_consts.fill(ell.cosAlpha) supportY2 = numpy.add(supportX2, numpy.multiply(supportY2, support_consts)) support_consts.fill(ell.x0) supportY1 = numpy.subtract(supportY1, support_consts) support_consts.fill(ell.y0) supportY2 = numpy.subtract(supportY2, support_consts) support_consts.fill(ell.a) supportY1 = numpy.power((numpy.divide(supportY1, support_consts)), 2) support_consts.fill(ell.b) supportY2 = numpy.power(numpy.divide(supportY2, support_consts), 2) return numpy.add(supportY1, supportY2) @staticmethod def _getSquareZ(n, ell): supportZ1 = numpy.arange(n) support_consts = numpy.ndarray(shape=(n, )) support_consts.fill(2.) supportZ1 = numpy.multiply(support_consts, supportZ1) support_consts.fill(n) supportZ1 = numpy.subtract(supportZ1, support_consts) support_consts.fill(n) supportZ1 = numpy.divide(supportZ1, support_consts) support_consts.fill(ell.z0) supportZ1 = numpy.subtract(supportZ1, ell.z0) support_consts.fill(ell.c) return numpy.power(numpy.divide(supportZ1, support_consts), 2) silx-0.6.1/silx/image/backprojection.py0000644023630100076410000000247213202530432020550 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ from silx.opencl.backprojection import * silx-0.6.1/silx/image/setup.py0000644023630100076410000000364113202530432016712 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # Copyright (C) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ __authors__ = ["J. Kieffer"] __license__ = "MIT" __date__ = "18/07/2016" from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('image', parent_package, top_path) config.add_subpackage('test') config.add_extension('bilinear', sources=["bilinear.pyx"], language='c') config.add_extension('shapes', sources=["shapes.pyx"], language='c') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/image/shapes.pyx0000644023630100076410000002534213202530306017227 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2015-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ############################################################################*/ """This module provides functions making masks on an image. - :func:`circle_fill` function generates coordinates of a circle in an image. - :func:`draw_line` function generates coordinates of a line in an image. - :func:`polygon_fill_mask` function generates a mask from a set of points defining a polygon. The :class:`Polygon` class provides checking if a point is inside a polygon. The whole module uses the (row, col) (i.e., (y, x))) convention for 2D coordinates. """ __authors__ = ["Jérôme Kieffer", "T. Vincent"] __license__ = "MIT" __date__ = "03/06/2016" __status__ = "dev" cimport cython import numpy from libc.math cimport ceil, fabs cdef class Polygon(object): """Define a polygon that provides inside check and mask generation. :param vertices: corners of the polygon :type vertices: Nx2 array of floats of (row, col) """ cdef float[:,:] vertices cdef int nvert def __init__(self, vertices): self.vertices = numpy.ascontiguousarray(vertices, dtype=numpy.float32) self.nvert = self.vertices.shape[0] def is_inside(self, row, col): """Check if (row, col) is inside or outside the polygon :param float row: :param float col: :return: True if position is inside polygon, False otherwise """ return self.c_is_inside(row, col) @cython.cdivision(True) @cython.wraparound(False) @cython.boundscheck(False) cdef bint c_is_inside(self, float row, float col) nogil: """Check if (row, col) is inside or outside the polygon Pure C_Cython class implementation. :param float row: :param float col: :return: True if position is inside polygon, False otherwise """ cdef int index, is_inside cdef float pt1x, pt1y, pt2x, pt2y, xinters is_inside = 0 pt1x = self.vertices[self.nvert-1, 1] pt1y = self.vertices[self.nvert-1, 0] for index in range(self.nvert): pt2x = self.vertices[index, 1] pt2y = self.vertices[index, 0] if (((pt1y <= row and row < pt2y) or (pt2y <= row and row < pt1y)) and # Extra (optional) condition to avoid some computation (col <= pt1x or col <= pt2x)): xinters = (row - pt1y) * (pt2x - pt1x) / (pt2y - pt1y) + pt1x is_inside ^= col < xinters pt1x, pt1y = pt2x, pt2y return is_inside @cython.cdivision(True) @cython.wraparound(False) @cython.boundscheck(False) def make_mask(self, int height, int width): """Create a mask array representing the filled polygon :param int height: Height of the mask array :param int width: Width of the mask array :return: 2D array (height, width) """ cdef unsigned char[:, :] mask = numpy.zeros((height, width), dtype=numpy.uint8) cdef int row_min, row_max, col_min, col_max # mask subpart to update cdef int row, col, index # Loop indixes cdef float pt1x, pt1y, pt2x, pt2y # segment end points cdef int xinters, is_inside, current row_min = max(int(min(self.vertices[:, 0])), 0) row_max = min(int(max(self.vertices[:, 0])) + 1, height) # Can be replaced by prange(row_min, row_max, nogil=True) with nogil: for row in range(row_min, row_max): # For each line of the image, mark intersection of all segments # in the line and then run a xor scan to fill inner parts # Adapted from http://alienryderflex.com/polygon_fill/ pt1x = self.vertices[self.nvert-1, 1] pt1y = self.vertices[self.nvert-1, 0] col_min = width - 1 col_max = 0 is_inside = 0 # Init with whether first col is inside or not for index in range(self.nvert): pt2x = self.vertices[index, 1] pt2y = self.vertices[index, 0] if ((pt1y <= row and row < pt2y) or (pt2y <= row and row < pt1y)): # Intersection casted to int so that ]x, x+1] => x xinters = (ceil(pt1x + (row - pt1y) * (pt2x - pt1x) / (pt2y - pt1y))) - 1 # Update column range to patch if xinters < col_min: col_min = xinters if xinters > col_max: col_max = xinters if xinters < 0: # Add an intersection to init value of xor scan is_inside ^= 1 elif xinters < width: # Mark intersection in mask mask[row, xinters] ^= 1 # else: do not consider intersection on the right pt1x, pt1y = pt2x, pt2y if col_min < col_max: # Clip column range to mask if col_min < 0: col_min = 0 if col_max > width - 1: col_max = width - 1 # xor exclusive scan for col in range(col_min, col_max + 1): current = mask[row, col] mask[row, col] = is_inside is_inside = current ^ is_inside # Ensures the result is exported as numpy array and not memory view. return numpy.asarray(mask) def polygon_fill_mask(vertices, shape): """Return a mask of boolean, True for pixels inside a polygon. :param vertices: Strip of segments end points (row, column) or (y, x) :type vertices: numpy.ndarray like container of dimension Nx2 :param shape: size of the mask as (height, width) :type shape: 2-tuple of int :return: Mask corresponding to the polygon :rtype: numpy.ndarray of dimension shape """ return Polygon(vertices).make_mask(shape[0], shape[1]) @cython.wraparound(False) @cython.boundscheck(False) def draw_line(int row0, int col0, int row1, int col1, int width=1): """Line includes both end points. Width is handled by drawing parallel lines, so junctions of lines belonging to different octant with width > 1 will not look nice. Using Bresenham line algorithm: Bresenham, J. E. Algorithm for computer control of a digital plotter. IBM Systems Journal. Vol 4 No 1. 1965. pp 25-30 :param int row0: Start point row :param int col0: Start point col :param int row1: End point row :param int col1: End point col :param int width: Thickness of the line in pixels (default 1) Width must be at least 1. :return: Array coordinates of points inside the line (might be negative) :rtype: 2-tuple of numpy.ndarray (rows, cols) """ cdef int drow, dcol, invert_coords cdef int db, da, delta, b, a, step_a, step_b cdef int index, offset # Loop indices # Store coordinates of points of the line cdef int[:, :] b_coords cdef int[:, :] a_coords dcol = abs(col1 - col0) drow = abs(row1 - row0) invert_coords = dcol < drow if dcol == 0 and drow == 0: return (numpy.array((row0,), dtype=numpy.int32), numpy.array((col0,), dtype=numpy.int32)) if width < 1: width = 1 # Set a and b according to segment octant if not invert_coords: da = dcol db = drow step_a = 1 if col1 > col0 else -1 step_b = 1 if row1 > row0 else -1 a = col0 b = row0 else: da = drow db = dcol step_a = 1 if row1 > row0 else -1 step_b = 1 if col1 > col0 else -1 a = row0 b = col0 b_coords = numpy.empty((da + 1, width), dtype=numpy.int32) a_coords = numpy.empty((da + 1, width), dtype=numpy.int32) with nogil: b -= (width - 1) // 2 delta = 2 * db - da for index in range(da + 1): for offset in range(width): b_coords[index, offset] = b + offset a_coords[index, offset] = a if delta >= 0: # M2: Move by step_a + step_b b += step_b delta -= 2 * da # else M1: Move by step_a a += step_a delta += 2 * db if not invert_coords: return (numpy.asarray(b_coords).reshape(-1), numpy.asarray(a_coords).reshape(-1)) else: return (numpy.asarray(a_coords).reshape(-1), numpy.asarray(b_coords).reshape(-1)) def circle_fill(int crow, int ccol, float radius): """Generates coordinate of image points lying in a disk. :param int crow: Row of the center of the disk :param int ccol: Column of the center of the disk :param float radius: Radius of the disk :return: Array coordinates of points inside the disk (might be negative) :rtype: 2-tuple of numpy.ndarray (rows, cols) """ cdef int i_radius, len_coords radius = fabs(radius) i_radius = radius coords = numpy.arange(-i_radius, ceil(radius) + 1, dtype=numpy.float32) ** 2 len_coords = len(coords) # rows, cols = where(row**2 + col**2 < radius**2) rows, cols = numpy.where(coords.reshape(1, len_coords) + coords.reshape(len_coords, 1) < radius ** 2) return rows + crow - i_radius, cols + ccol - i_radius silx-0.6.1/silx/gui/0000755023630100076410000000000013202537043014703 5ustar knobelusers00000000000000silx-0.6.1/silx/gui/icons.py0000644023630100076410000003074413202530432016373 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Set of icons for buttons. Use :func:`getQIcon` to create Qt QIcon from the name identifying an icon. """ __authors__ = ["T. Vincent"] __license__ = "MIT" __date__ = "06/09/2017" import os import logging import weakref from . import qt import silx.resources from silx.utils import weakref as silxweakref from silx.utils.deprecation import deprecated _logger = logging.getLogger(__name__) """Module logger""" _cached_icons = weakref.WeakValueDictionary() """Cache loaded icons in a weak structure""" _supported_formats = None """Order of file format extension to check""" class AbstractAnimatedIcon(qt.QObject): """Store an animated icon. It provides an event containing the new icon everytime it is updated.""" def __init__(self, parent=None): """Constructor :param qt.QObject parent: Parent of the QObject :raises: ValueError when name is not known """ qt.QObject.__init__(self, parent) self.__targets = silxweakref.WeakList() self.__currentIcon = None iconChanged = qt.Signal(qt.QIcon) """Signal sent with a QIcon everytime the animation changed.""" def register(self, obj): """Register an object to the AnimatedIcon. If no object are registred, the animation is paused. Object are stored in a weaked list. :param object obj: An object """ if obj not in self.__targets: self.__targets.append(obj) self._updateState() def unregister(self, obj): """Remove the object from the registration. If no object are registred the animation is paused. :param object obj: A registered object """ if obj in self.__targets: self.__targets.remove(obj) self._updateState() def hasRegistredObjects(self): """Returns true if any object is registred. :rtype: bool """ return len(self.__targets) def isRegistered(self, obj): """Returns true if the object is registred in the AnimatedIcon. :param object obj: An object :rtype: bool """ return obj in self.__targets def currentIcon(self): """Returns the icon of the current frame. :rtype: qt.QIcon """ return self.__currentIcon def _updateState(self): """Update the object according to the connected objects.""" pass def _setCurrentIcon(self, icon): """Store the current icon and emit a `iconChanged` event. :param qt.QIcon icon: The current icon """ self.__currentIcon = icon self.iconChanged.emit(self.__currentIcon) class MovieAnimatedIcon(AbstractAnimatedIcon): """Store a looping QMovie to provide icons for each frames. Provides an event with the new icon everytime the movie frame is updated.""" def __init__(self, filename, parent=None): """Constructor :param str filename: An icon name to an animated format :param qt.QObject parent: Parent of the QObject :raises: ValueError when name is not known """ AbstractAnimatedIcon.__init__(self, parent) qfile = getQFile(filename) self.__movie = qt.QMovie(qfile.fileName(), qt.QByteArray(), parent) self.__movie.setCacheMode(qt.QMovie.CacheAll) self.__movie.frameChanged.connect(self.__frameChanged) self.__cacheIcons = {} self.__movie.jumpToFrame(0) self.__updateIconAtFrame(0) def __frameChanged(self, frameId): """Callback everytime the QMovie frame change :param int frameId: Current frame id """ self.__updateIconAtFrame(frameId) def __updateIconAtFrame(self, frameId): """ Update the current stored QIcon :param int frameId: Current frame id """ if frameId in self.__cacheIcons: icon = self.__cacheIcons[frameId] else: icon = qt.QIcon(self.__movie.currentPixmap()) self.__cacheIcons[frameId] = icon self._setCurrentIcon(icon) def _updateState(self): """Update the movie play according to internal stat of the AnimatedIcon.""" self.__movie.setPaused(not self.hasRegistredObjects()) class MultiImageAnimatedIcon(AbstractAnimatedIcon): """Store a looping QMovie to provide icons for each frames. Provides an event with the new icon everytime the movie frame is updated.""" def __init__(self, filename, parent=None): """Constructor :param str filename: An icon name to an animated format :param qt.QObject parent: Parent of the QObject :raises: ValueError when name is not known """ AbstractAnimatedIcon.__init__(self, parent) self.__frames = [] for i in range(100): try: pixmap = getQPixmap("%s/%02d" % (filename, i)) except ValueError: break icon = qt.QIcon(pixmap) self.__frames.append(icon) if len(self.__frames) == 0: raise ValueError("Animated icon '%s' do not exists" % filename) self.__frameId = -1 self.__timer = qt.QTimer(self) self.__timer.timeout.connect(self.__increaseFrame) self.__updateIconAtFrame(0) def __increaseFrame(self): """Callback called every timer timeout to change the current frame of the animation """ frameId = (self.__frameId + 1) % len(self.__frames) self.__updateIconAtFrame(frameId) def __updateIconAtFrame(self, frameId): """ Update the current stored QIcon :param int frameId: Current frame id """ self.__frameId = frameId icon = self.__frames[frameId] self._setCurrentIcon(icon) def _updateState(self): """Update the object to wake up or sleep it according to its use.""" if self.hasRegistredObjects(): if not self.__timer.isActive(): self.__timer.start(100) else: if self.__timer.isActive(): self.__timer.stop() class AnimatedIcon(MovieAnimatedIcon): """Store a looping QMovie to provide icons for each frames. Provides an event with the new icon everytime the movie frame is updated. It may not be available anymore for the silx release 0.6. .. deprecated:: 0.5 Use :class:`MovieAnimatedIcon` instead. """ @deprecated def __init__(self, filename, parent=None): MovieAnimatedIcon.__init__(self, filename, parent=parent) def getWaitIcon(): """Returns a cached version of the waiting AbstractAnimatedIcon. :rtype: AbstractAnimatedIcon """ return getAnimatedIcon("process-working") def getAnimatedIcon(name): """Create an AbstractAnimatedIcon from a resource name. The resource name can be prefixed by the name of a resource directory. For example "silx:foo.png" identify the resource "foo.png" from the resource directory "silx". If no prefix are specified, the file with be returned from the silx resource directory with a specific path "gui/icons". See also :func:`silx.resources.register_resource_directory`. Try to load a mng or a gif file, then try to load a multi-image animated icon. In Qt5 mng or gif are not used, because the transparency is not very well managed. :param str name: Name of the icon, in one of the defined icons in this module. :return: Corresponding AbstractAnimatedIcon :raises: ValueError when name is not known """ key = name + "__anim" if key not in _cached_icons: qtMajorVersion = int(qt.qVersion().split(".")[0]) icon = None # ignore mng and gif in Qt5 if qtMajorVersion != 5: try: icon = MovieAnimatedIcon(name) except ValueError: icon = None if icon is None: try: icon = MultiImageAnimatedIcon(name) except ValueError: icon = None if icon is None: raise ValueError("Not an animated icon name: %s", name) _cached_icons[key] = icon else: icon = _cached_icons[key] return icon def getQIcon(name): """Create a QIcon from its name. The resource name can be prefixed by the name of a resource directory. For example "silx:foo.png" identify the resource "foo.png" from the resource directory "silx". If no prefix are specified, the file with be returned from the silx resource directory with a specific path "gui/icons". See also :func:`silx.resources.register_resource_directory`. :param str name: Name of the icon, in one of the defined icons in this module. :return: Corresponding QIcon :raises: ValueError when name is not known """ if name not in _cached_icons: qfile = getQFile(name) icon = qt.QIcon(qfile.fileName()) _cached_icons[name] = icon else: icon = _cached_icons[name] return icon def getQPixmap(name): """Create a QPixmap from its name. The resource name can be prefixed by the name of a resource directory. For example "silx:foo.png" identify the resource "foo.png" from the resource directory "silx". If no prefix are specified, the file with be returned from the silx resource directory with a specific path "gui/icons". See also :func:`silx.resources.register_resource_directory`. :param str name: Name of the icon, in one of the defined icons in this module. :return: Corresponding QPixmap :raises: ValueError when name is not known """ qfile = getQFile(name) return qt.QPixmap(qfile.fileName()) def getQFile(name): """Create a QFile from an icon name. Filename is found according to supported Qt formats. The resource name can be prefixed by the name of a resource directory. For example "silx:foo.png" identify the resource "foo.png" from the resource directory "silx". If no prefix are specified, the file with be returned from the silx resource directory with a specific path "gui/icons". See also :func:`silx.resources.register_resource_directory`. :param str name: Name of the icon, in one of the defined icons in this module. :return: Corresponding QFile :rtype: qt.QFile :raises: ValueError when name is not known """ global _supported_formats if _supported_formats is None: _supported_formats = [] supported_formats = qt.supportedImageFormats() order = ["mng", "gif", "svg", "png", "jpg"] for format_ in order: if format_ in supported_formats: _supported_formats.append(format_) if len(_supported_formats) == 0: _logger.error("No format supported for icons") else: _logger.debug("Format %s supported", ", ".join(_supported_formats)) for format_ in _supported_formats: format_ = str(format_) filename = silx.resources._resource_filename('%s.%s' % (name, format_), default_directory=os.path.join('gui', 'icons')) qfile = qt.QFile(filename) if qfile.exists(): return qfile raise ValueError('Not an icon name: %s' % name) silx-0.6.1/silx/gui/widgets/0000755023630100076410000000000013202537043016351 5ustar knobelusers00000000000000silx-0.6.1/silx/gui/widgets/WaitingPushButton.py0000644023630100076410000002031413202530432022354 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """WaitingPushButton module """ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "26/04/2017" from .. import qt from .. import icons class WaitingPushButton(qt.QPushButton): """Button which allows to display a waiting status when, for example, something is still computing. The component is graphically disabled when it is in waiting. Then we overwrite the enabled method to dissociate the 2 concepts: graphically enabled/disabled, and enabled/disabled .. image:: img/WaitingPushButton.png """ def __init__(self, parent=None, text=None, icon=None): """Constructor :param str text: Text displayed on the button :param qt.QIcon icon: Icon displayed on the button :param qt.QWidget parent: Parent of the widget """ if icon is not None: qt.QPushButton.__init__(self, icon, text, parent) elif text is not None: qt.QPushButton.__init__(self, text, parent) else: qt.QPushButton.__init__(self, parent) self.__waiting = False self.__enabled = True self.__icon = icon self.__disabled_when_waiting = True self.__waitingIcon = icons.getWaitIcon() def sizeHint(self): """Returns the recommended size for the widget. This implementation of the recommended size always consider there is an icon. In this way it avoid to update the layout when the waiting icon is displayed. """ self.ensurePolished() w = 0 h = 0 opt = qt.QStyleOptionButton() self.initStyleOption(opt) # Content with icon # no condition, assume that there is an icon to avoid blinking # when the widget switch to waiting state ih = opt.iconSize.height() iw = opt.iconSize.width() + 4 w += iw h = max(h, ih) # Content with text text = self.text() isEmpty = text == "" if isEmpty: text = "XXXX" fm = self.fontMetrics() textSize = fm.size(qt.Qt.TextShowMnemonic, text) if not isEmpty or w == 0: w += textSize.width() if not isEmpty or h == 0: h = max(h, textSize.height()) # Content with menu indicator opt.rect.setSize(qt.QSize(w, h)) # PM_MenuButtonIndicator depends on the height if self.menu() is not None: w += self.style().pixelMetric(qt.QStyle.PM_MenuButtonIndicator, opt, self) contentSize = qt.QSize(w, h) if qt.qVersion().startswith("4.8."): # On PyQt4/PySide the method QCommonStyle sizeFromContents returns # different size when the widget provides an icon or not. # In Qt5 there is not this problem. opt.icon = qt.QIcon() sizeHint = self.style().sizeFromContents(qt.QStyle.CT_PushButton, opt, contentSize, self) sizeHint = sizeHint.expandedTo(qt.QApplication.globalStrut()) return sizeHint def setDisabledWhenWaiting(self, isDisabled): """Enable or disable the auto disable behaviour when the button is waiting. :param bool isDisabled: Enable the auto-disable behaviour """ if self.__disabled_when_waiting == isDisabled: return self.__disabled_when_waiting = isDisabled self.__updateVisibleEnabled() def isDisabledWhenWaiting(self): """Returns true if the button is auto disabled when it is waiting. :rtype: bool """ return self.__disabled_when_waiting disabledWhenWaiting = qt.Property(bool, isDisabledWhenWaiting, setDisabledWhenWaiting) """Property to enable/disable the auto disabled state when the button is waiting.""" def __setWaitingIcon(self, icon): """Called when the waiting icon is updated. It is called every frames of the animation. :param qt.QIcon icon: The new waiting icon """ qt.QPushButton.setIcon(self, icon) def setIcon(self, icon): """Set the button icon. If the button is waiting, the icon is not visible directly, but will be visible when the waiting state will be removed. :param qt.QIcon icon: An icon """ self.__icon = icon self.__updateVisibleIcon() def getIcon(self): """Returns the icon set to the button. If the widget is waiting it is not returning the visible icon, but the one requested by the application (the one displayed when the widget is not in waiting state). :rtype: qt.QIcon """ return self.__icon icon = qt.Property(qt.QIcon, getIcon, setIcon) """Property providing access to the icon.""" def __updateVisibleIcon(self): """Update the visible icon according to the state of the widget.""" if not self.isWaiting(): icon = self.__icon else: icon = self.__waitingIcon.currentIcon() if icon is None: icon = qt.QIcon() qt.QPushButton.setIcon(self, icon) def setEnabled(self, enabled): """Set the enabled state of the widget. :param bool enabled: The enabled state """ if self.__enabled == enabled: return self.__enabled = enabled self.__updateVisibleEnabled() def isEnabled(self): """Returns the enabled state of the widget. :rtype: bool """ return self.__enabled enabled = qt.Property(bool, isEnabled, setEnabled) """Property providing access to the enabled state of the widget""" def __updateVisibleEnabled(self): """Update the visible enabled state according to the state of the widget.""" if self.__disabled_when_waiting: enabled = not self.isWaiting() and self.__enabled else: enabled = self.__enabled qt.QPushButton.setEnabled(self, enabled) def setWaiting(self, waiting): """Set the waiting state of the widget. :param bool waiting: Requested state""" if self.__waiting == waiting: return self.__waiting = waiting if self.__waiting: self.__waitingIcon.register(self) self.__waitingIcon.iconChanged.connect(self.__setWaitingIcon) else: # unregister only if the object is registred self.__waitingIcon.unregister(self) self.__waitingIcon.iconChanged.disconnect(self.__setWaitingIcon) self.__updateVisibleEnabled() self.__updateVisibleIcon() def isWaiting(self): """Returns true if the widget is in waiting state. :rtype: bool""" return self.__waiting @qt.Slot() def wait(self): """Enable the waiting state.""" self.setWaiting(True) @qt.Slot() def stopWaiting(self): """Disable the waiting state.""" self.setWaiting(False) @qt.Slot() def swapWaiting(self): """Swap the waiting state.""" self.setWaiting(not self.isWaiting()) silx-0.6.1/silx/gui/widgets/test/0000755023630100076410000000000013202537043017330 5ustar knobelusers00000000000000silx-0.6.1/silx/gui/widgets/test/test_threadpoolpushbutton.py0000644023630100076410000001150213202530306025230 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test for silx.gui.hdf5 module""" __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "15/12/2016" import unittest import time from silx.gui import qt from silx.gui.test.utils import TestCaseQt from silx.gui.test.utils import SignalListener from silx.gui.widgets.ThreadPoolPushButton import ThreadPoolPushButton from silx.test.utils import TestLogging class TestThreadPoolPushButton(TestCaseQt): def setUp(self): super(TestThreadPoolPushButton, self).setUp() self._result = [] def _trace(self, name, delay=0): self._result.append(name) if delay != 0: time.sleep(delay / 1000.0) def _compute(self): return "result" def _computeFail(self): raise Exception("exception") def testExecute(self): button = ThreadPoolPushButton() button.setCallable(self._trace, "a", 0) button.executeCallable() time.sleep(0.1) self.assertListEqual(self._result, ["a"]) self.qapp.processEvents() def testMultiExecution(self): button = ThreadPoolPushButton() button.setCallable(self._trace, "a", 0) number = qt.QThreadPool.globalInstance().maxThreadCount() * 2 for _ in range(number): button.executeCallable() time.sleep(number * 0.01 + 0.1) self.assertListEqual(self._result, ["a"] * number) self.qapp.processEvents() def testSaturateThreadPool(self): button = ThreadPoolPushButton() button.setCallable(self._trace, "a", 100) number = qt.QThreadPool.globalInstance().maxThreadCount() * 2 for _ in range(number): button.executeCallable() time.sleep(number * 0.1 + 0.1) self.assertListEqual(self._result, ["a"] * number) self.qapp.processEvents() def testSuccess(self): listener = SignalListener() button = ThreadPoolPushButton() button.setCallable(self._compute) button.beforeExecuting.connect(listener.partial(test="be")) button.started.connect(listener.partial(test="s")) button.succeeded.connect(listener.partial(test="result")) button.failed.connect(listener.partial(test="Unexpected exception")) button.finished.connect(listener.partial(test="f")) button.executeCallable() self.qapp.processEvents() time.sleep(0.1) self.qapp.processEvents() result = listener.karguments(argumentName="test") self.assertListEqual(result, ["be", "s", "result", "f"]) def testFail(self): listener = SignalListener() button = ThreadPoolPushButton() button.setCallable(self._computeFail) button.beforeExecuting.connect(listener.partial(test="be")) button.started.connect(listener.partial(test="s")) button.succeeded.connect(listener.partial(test="Unexpected success")) button.failed.connect(listener.partial(test="exception")) button.finished.connect(listener.partial(test="f")) with TestLogging('silx.gui.widgets.ThreadPoolPushButton', error=1): button.executeCallable() self.qapp.processEvents() time.sleep(0.1) self.qapp.processEvents() result = listener.karguments(argumentName="test") self.assertListEqual(result, ["be", "s", "exception", "f"]) listener.clear() def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestThreadPoolPushButton)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/gui/widgets/test/test_printpreview.py0000644023630100076410000000515513202530432023500 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test PrintPreview""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "19/07/2017" import unittest from silx.gui.test.utils import TestCaseQt from silx.gui.widgets.PrintPreview import PrintPreviewDialog from silx.gui import qt from silx.resources import resource_filename class TestPrintPreview(TestCaseQt): def testShow(self): p = qt.QPrinter() d = PrintPreviewDialog(printer=p) d.show() self.qapp.processEvents() def testAddImage(self): p = qt.QPrinter() d = PrintPreviewDialog(printer=p) d.addImage(qt.QImage(resource_filename("gui/icons/clipboard.png"))) self.qapp.processEvents() def testAddSvg(self): p = qt.QPrinter() d = PrintPreviewDialog(printer=p) d.addSvgItem(qt.QSvgRenderer(resource_filename("gui/icons/clipboard.svg"), d.page)) self.qapp.processEvents() def testAddPixmap(self): p = qt.QPrinter() d = PrintPreviewDialog(printer=p) d.addPixmap(qt.QPixmap.fromImage(qt.QImage(resource_filename("gui/icons/clipboard.png")))) self.qapp.processEvents() def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestPrintPreview)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/gui/widgets/test/test_periodictable.py0000644023630100076410000001355213202530306023550 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "05/12/2016" import unittest from .. import PeriodicTable from ...test.utils import TestCaseQt from silx.gui import qt class TestPeriodicTable(TestCaseQt): """Basic test for ArrayTableWidget with a numpy array""" def testShow(self): """basic test (instantiation done in setUp)""" pt = PeriodicTable.PeriodicTable() pt.show() self.qWaitForWindowExposed(pt) def testSelectable(self): """basic test (instantiation done in setUp)""" pt = PeriodicTable.PeriodicTable(selectable=True) self.assertTrue(pt.selectable) def testCustomElements(self): PTI = PeriodicTable.ColoredPeriodicTableItem my_items = [ PTI("Xx", 42, 43, 44, "xaxatorium", 1002.2, bgcolor="#FF0000"), PTI("Yy", 25, 22, 44, "yoyotrium", 8.8) ] pt = PeriodicTable.PeriodicTable(elements=my_items) pt.setSelection(["He", "Xx"]) selection = pt.getSelection() self.assertEqual(len(selection), 1) # "He" not found self.assertEqual(selection[0].symbol, "Xx") self.assertEqual(selection[0].Z, 42) self.assertEqual(selection[0].col, 43) self.assertAlmostEqual(selection[0].mass, 1002.2) self.assertEqual(qt.QColor(selection[0].bgcolor), qt.QColor(qt.Qt.red)) self.assertTrue(pt.isElementSelected("Xx")) self.assertFalse(pt.isElementSelected("Yy")) self.assertRaises(KeyError, pt.isElementSelected, "Yx") def testVeryCustomElements(self): class MyPTI(PeriodicTable.PeriodicTableItem): def __init__(self, *args): PeriodicTable.PeriodicTableItem.__init__(self, *args[:6]) self.my_feature = args[6] my_items = [ MyPTI("Xx", 42, 43, 44, "xaxatorium", 1002.2, "spam"), MyPTI("Yy", 25, 22, 44, "yoyotrium", 8.8, "eggs") ] pt = PeriodicTable.PeriodicTable(elements=my_items) pt.setSelection(["Xx", "Yy"]) selection = pt.getSelection() self.assertEqual(len(selection), 2) self.assertEqual(selection[1].symbol, "Yy") self.assertEqual(selection[1].Z, 25) self.assertEqual(selection[1].col, 22) self.assertEqual(selection[1].row, 44) self.assertAlmostEqual(selection[0].mass, 1002.2) self.assertAlmostEqual(selection[0].my_feature, "spam") class TestPeriodicCombo(TestCaseQt): """Basic test for ArrayTableWidget with a numpy array""" def setUp(self): super(TestPeriodicCombo, self).setUp() self.pc = PeriodicTable.PeriodicCombo() def tearDown(self): del self.pc super(TestPeriodicCombo, self).tearDown() def testShow(self): """basic test (instantiation done in setUp)""" self.pc.show() self.qWaitForWindowExposed(self.pc) def testSelect(self): self.pc.setSelection("Sb") selection = self.pc.getSelection() self.assertIsInstance(selection, PeriodicTable.PeriodicTableItem) self.assertEqual(selection.symbol, "Sb") self.assertEqual(selection.Z, 51) self.assertEqual(selection.name, "antimony") class TestPeriodicList(TestCaseQt): """Basic test for ArrayTableWidget with a numpy array""" def setUp(self): super(TestPeriodicList, self).setUp() self.pl = PeriodicTable.PeriodicList() def tearDown(self): del self.pl super(TestPeriodicList, self).tearDown() def testShow(self): """basic test (instantiation done in setUp)""" self.pl.show() self.qWaitForWindowExposed(self.pl) def testSelect(self): self.pl.setSelectedElements(["Li", "He", "Au"]) sel_elmts = self.pl.getSelection() self.assertEqual(len(sel_elmts), 3, "Wrong number of elements selected") for e in sel_elmts: self.assertIsInstance(e, PeriodicTable.PeriodicTableItem) self.assertIn(e.symbol, ["Li", "He", "Au"]) self.assertIn(e.Z, [2, 3, 79]) self.assertIn(e.name, ["lithium", "helium", "gold"]) def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestPeriodicTable)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestPeriodicList)) test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestPeriodicCombo)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/gui/widgets/test/__init__.py0000644023630100076410000000354213202530432021440 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ import unittest from . import test_periodictable from . import test_tablewidget from . import test_threadpoolpushbutton from . import test_hierarchicaltableview from . import test_printpreview __authors__ = ["V. Valls", "P. Knobel"] __license__ = "MIT" __date__ = "19/07/2017" def suite(): test_suite = unittest.TestSuite() test_suite.addTests( [test_threadpoolpushbutton.suite(), test_tablewidget.suite(), test_periodictable.suite(), test_printpreview.suite(), test_hierarchicaltableview.suite(), ]) return test_suite silx-0.6.1/silx/gui/widgets/test/test_tablewidget.py0000644023630100076410000000411513202530306023230 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Test TableWidget""" __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "05/12/2016" import unittest from silx.gui.test.utils import TestCaseQt from silx.gui.widgets.TableWidget import TableWidget class TestTableWidget(TestCaseQt): def setUp(self): super(TestTableWidget, self).setUp() self._result = [] def testShow(self): table = TableWidget() table.setColumnCount(10) table.setRowCount(7) table.enableCut() table.enablePaste() table.show() table.hide() self.qapp.processEvents() def suite(): test_suite = unittest.TestSuite() test_suite.addTest( unittest.defaultTestLoader.loadTestsFromTestCase(TestTableWidget)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/gui/widgets/test/test_hierarchicaltableview.py0000644023630100076410000000765613202530432025273 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "07/04/2017" import unittest from .. import HierarchicalTableView from ...test.utils import TestCaseQt from silx.gui import qt class TableModel(HierarchicalTableView.HierarchicalTableModel): def __init__(self, parent): HierarchicalTableView.HierarchicalTableModel.__init__(self, parent) self.__content = {} def rowCount(self, parent=qt.QModelIndex()): return 3 def columnCount(self, parent=qt.QModelIndex()): return 3 def setData1(self): if qt.qVersion() > "4.6": self.beginResetModel() else: self.reset() content = {} content[0, 0] = ("title", True, (1, 3)) content[0, 1] = ("a", True, (2, 1)) content[1, 1] = ("b", False, (1, 2)) content[1, 2] = ("c", False, (1, 1)) content[2, 2] = ("d", False, (1, 1)) self.__content = content if qt.qVersion() > "4.6": self.endResetModel() def data(self, index, role=qt.Qt.DisplayRole): if not index.isValid(): return None cell = self.__content.get((index.column(), index.row()), None) if cell is None: return None if role == self.SpanRole: return cell[2] elif role == self.IsHeaderRole: return cell[1] elif role == qt.Qt.DisplayRole: return cell[0] return None class TestHierarchicalTableView(TestCaseQt): """Test for HierarchicalTableView""" def testEmpty(self): widget = HierarchicalTableView.HierarchicalTableView() widget.show() self.qWaitForWindowExposed(widget) def testModel(self): widget = HierarchicalTableView.HierarchicalTableView() model = TableModel(widget) # set the data before using the model into the widget model.setData1() widget.setModel(model) span = widget.rowSpan(0, 0), widget.columnSpan(0, 0) self.assertEqual(span, (1, 3)) widget.show() self.qWaitForWindowExposed(widget) def testModelUpdate(self): widget = HierarchicalTableView.HierarchicalTableView() model = TableModel(widget) widget.setModel(model) # set the data after using the model into the widget model.setData1() span = widget.rowSpan(0, 0), widget.columnSpan(0, 0) self.assertEqual(span, (1, 3)) def suite(): loader = unittest.defaultTestLoader.loadTestsFromTestCase test_suite = unittest.TestSuite() test_suite.addTest(loader(TestHierarchicalTableView)) return test_suite if __name__ == '__main__': unittest.main(defaultTest='suite') silx-0.6.1/silx/gui/widgets/PeriodicTable.py0000644023630100076410000007717713202530432021447 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Periodic table widgets Classes ------- Widgets: - :class:`PeriodicTable` - :class:`PeriodicList` - :class:`PeriodicCombo` Data model: - :class:`PeriodicTableItem` - :class:`ColoredPeriodicTableItem` Example of usage ---------------- This example uses the widgets with the standard builtin elements list. .. code-block:: python from silx.gui import qt from silx.gui.widgets.PeriodicTable import PeriodicTable, \ PeriodicCombo, PeriodicList a = qt.QApplication([]) w = qt.QTabWidget() ptable = PeriodicTable(w, selectable=True) pcombo = PeriodicCombo(w) plist = PeriodicList(w) w.addTab(ptable, "PeriodicTable") w.addTab(plist, "PeriodicList") w.addTab(pcombo, "PeriodicCombo") ptable.setSelection(['H', 'Fe', 'Si']) plist.setSelectedElements(['H', 'Be', 'F']) pcombo.setSelection("Li") def change_list(items): print("New list selection:", [item.symbol for item in items]) def change_combo(item): print("New combo selection:", item.symbol) def click_table(item): print("New table click:", item.symbol) def change_table(items): print("New table selection:", [item.symbol for item in items]) ptable.sigElementClicked.connect(click_table) ptable.sigSelectionChanged.connect(change_table) plist.sigSelectionChanged.connect(change_list) pcombo.sigSelectionChanged.connect(change_combo) w.show() a.exec_() The second example explains how to define custom elements. .. code-block:: python from silx.gui import qt from silx.gui.widgets.PeriodicTable import PeriodicTable, \ PeriodicCombo, PeriodicList from silx.gui.widgets.PeriodicTable import PeriodicTableItem # subclass PeriodicTableItem class MyPeriodicTableItem(PeriodicTableItem): "New item with added mass number and number of protons" def __init__(self, symbol, Z, A, col, row, name, mass, subcategory=""): PeriodicTableItem.__init__( self, symbol, Z, col, row, name, mass, subcategory) self.A = A "Mass number (neutrons + protons)" self.num_neutrons = A - Z "Number of neutrons" # build your list of elements my_elements = [MyPeriodicTableItem("H", 1, 1, 1, 1, "hydrogen", 1.00800, "diatomic nonmetal"), MyPeriodicTableItem("He", 2, 4, 18, 1, "helium", 4.0030, "noble gas"), # etc ... ] app = qt.QApplication([]) ptable = PeriodicTable(elements=my_elements, selectable=True) ptable.show() def click_table(item): "Callback function printing the mass number of clicked element" print("New table click, mass number:", item.A) ptable.sigElementClicked.connect(click_table) app.exec_() """ __authors__ = ["E. Papillon", "V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "26/01/2017" from collections import OrderedDict import logging from silx.gui import qt _logger = logging.getLogger(__name__) # Symbol Atomic Number col row name mass subcategory _elements = [("H", 1, 1, 1, "hydrogen", 1.00800, "diatomic nonmetal"), ("He", 2, 18, 1, "helium", 4.0030, "noble gas"), ("Li", 3, 1, 2, "lithium", 6.94000, "alkali metal"), ("Be", 4, 2, 2, "beryllium", 9.01200, "alkaline earth metal"), ("B", 5, 13, 2, "boron", 10.8110, "metalloid"), ("C", 6, 14, 2, "carbon", 12.0100, "polyatomic nonmetal"), ("N", 7, 15, 2, "nitrogen", 14.0080, "diatomic nonmetal"), ("O", 8, 16, 2, "oxygen", 16.0000, "diatomic nonmetal"), ("F", 9, 17, 2, "fluorine", 19.0000, "diatomic nonmetal"), ("Ne", 10, 18, 2, "neon", 20.1830, "noble gas"), ("Na", 11, 1, 3, "sodium", 22.9970, "alkali metal"), ("Mg", 12, 2, 3, "magnesium", 24.3200, "alkaline earth metal"), ("Al", 13, 13, 3, "aluminium", 26.9700, "post transition metal"), ("Si", 14, 14, 3, "silicon", 28.0860, "metalloid"), ("P", 15, 15, 3, "phosphorus", 30.9750, "polyatomic nonmetal"), ("S", 16, 16, 3, "sulphur", 32.0660, "polyatomic nonmetal"), ("Cl", 17, 17, 3, "chlorine", 35.4570, "diatomic nonmetal"), ("Ar", 18, 18, 3, "argon", 39.9440, "noble gas"), ("K", 19, 1, 4, "potassium", 39.1020, "alkali metal"), ("Ca", 20, 2, 4, "calcium", 40.0800, "alkaline earth metal"), ("Sc", 21, 3, 4, "scandium", 44.9600, "transition metal"), ("Ti", 22, 4, 4, "titanium", 47.9000, "transition metal"), ("V", 23, 5, 4, "vanadium", 50.9420, "transition metal"), ("Cr", 24, 6, 4, "chromium", 51.9960, "transition metal"), ("Mn", 25, 7, 4, "manganese", 54.9400, "transition metal"), ("Fe", 26, 8, 4, "iron", 55.8500, "transition metal"), ("Co", 27, 9, 4, "cobalt", 58.9330, "transition metal"), ("Ni", 28, 10, 4, "nickel", 58.6900, "transition metal"), ("Cu", 29, 11, 4, "copper", 63.5400, "transition metal"), ("Zn", 30, 12, 4, "zinc", 65.3800, "transition metal"), ("Ga", 31, 13, 4, "gallium", 69.7200, "post transition metal"), ("Ge", 32, 14, 4, "germanium", 72.5900, "metalloid"), ("As", 33, 15, 4, "arsenic", 74.9200, "metalloid"), ("Se", 34, 16, 4, "selenium", 78.9600, "polyatomic nonmetal"), ("Br", 35, 17, 4, "bromine", 79.9200, "diatomic nonmetal"), ("Kr", 36, 18, 4, "krypton", 83.8000, "noble gas"), ("Rb", 37, 1, 5, "rubidium", 85.4800, "alkali metal"), ("Sr", 38, 2, 5, "strontium", 87.6200, "alkaline earth metal"), ("Y", 39, 3, 5, "yttrium", 88.9050, "transition metal"), ("Zr", 40, 4, 5, "zirconium", 91.2200, "transition metal"), ("Nb", 41, 5, 5, "niobium", 92.9060, "transition metal"), ("Mo", 42, 6, 5, "molybdenum", 95.9500, "transition metal"), ("Tc", 43, 7, 5, "technetium", 99.0000, "transition metal"), ("Ru", 44, 8, 5, "ruthenium", 101.0700, "transition metal"), ("Rh", 45, 9, 5, "rhodium", 102.9100, "transition metal"), ("Pd", 46, 10, 5, "palladium", 106.400, "transition metal"), ("Ag", 47, 11, 5, "silver", 107.880, "transition metal"), ("Cd", 48, 12, 5, "cadmium", 112.410, "transition metal"), ("In", 49, 13, 5, "indium", 114.820, "post transition metal"), ("Sn", 50, 14, 5, "tin", 118.690, "post transition metal"), ("Sb", 51, 15, 5, "antimony", 121.760, "metalloid"), ("Te", 52, 16, 5, "tellurium", 127.600, "metalloid"), ("I", 53, 17, 5, "iodine", 126.910, "diatomic nonmetal"), ("Xe", 54, 18, 5, "xenon", 131.300, "noble gas"), ("Cs", 55, 1, 6, "caesium", 132.910, "alkali metal"), ("Ba", 56, 2, 6, "barium", 137.360, "alkaline earth metal"), ("La", 57, 3, 6, "lanthanum", 138.920, "lanthanide"), ("Ce", 58, 4, 9, "cerium", 140.130, "lanthanide"), ("Pr", 59, 5, 9, "praseodymium", 140.920, "lanthanide"), ("Nd", 60, 6, 9, "neodymium", 144.270, "lanthanide"), ("Pm", 61, 7, 9, "promethium", 147.000, "lanthanide"), ("Sm", 62, 8, 9, "samarium", 150.350, "lanthanide"), ("Eu", 63, 9, 9, "europium", 152.000, "lanthanide"), ("Gd", 64, 10, 9, "gadolinium", 157.260, "lanthanide"), ("Tb", 65, 11, 9, "terbium", 158.930, "lanthanide"), ("Dy", 66, 12, 9, "dysprosium", 162.510, "lanthanide"), ("Ho", 67, 13, 9, "holmium", 164.940, "lanthanide"), ("Er", 68, 14, 9, "erbium", 167.270, "lanthanide"), ("Tm", 69, 15, 9, "thulium", 168.940, "lanthanide"), ("Yb", 70, 16, 9, "ytterbium", 173.040, "lanthanide"), ("Lu", 71, 17, 9, "lutetium", 174.990, "lanthanide"), ("Hf", 72, 4, 6, "hafnium", 178.500, "transition metal"), ("Ta", 73, 5, 6, "tantalum", 180.950, "transition metal"), ("W", 74, 6, 6, "tungsten", 183.920, "transition metal"), ("Re", 75, 7, 6, "rhenium", 186.200, "transition metal"), ("Os", 76, 8, 6, "osmium", 190.200, "transition metal"), ("Ir", 77, 9, 6, "iridium", 192.200, "transition metal"), ("Pt", 78, 10, 6, "platinum", 195.090, "transition metal"), ("Au", 79, 11, 6, "gold", 197.200, "transition metal"), ("Hg", 80, 12, 6, "mercury", 200.610, "transition metal"), ("Tl", 81, 13, 6, "thallium", 204.390, "post transition metal"), ("Pb", 82, 14, 6, "lead", 207.210, "post transition metal"), ("Bi", 83, 15, 6, "bismuth", 209.000, "post transition metal"), ("Po", 84, 16, 6, "polonium", 209.000, "post transition metal"), ("At", 85, 17, 6, "astatine", 210.000, "metalloid"), ("Rn", 86, 18, 6, "radon", 222.000, "noble gas"), ("Fr", 87, 1, 7, "francium", 223.000, "alkali metal"), ("Ra", 88, 2, 7, "radium", 226.000, "alkaline earth metal"), ("Ac", 89, 3, 7, "actinium", 227.000, "actinide"), ("Th", 90, 4, 10, "thorium", 232.000, "actinide"), ("Pa", 91, 5, 10, "proactinium", 231.03588, "actinide"), ("U", 92, 6, 10, "uranium", 238.070, "actinide"), ("Np", 93, 7, 10, "neptunium", 237.000, "actinide"), ("Pu", 94, 8, 10, "plutonium", 239.100, "actinide"), ("Am", 95, 9, 10, "americium", 243, "actinide"), ("Cm", 96, 10, 10, "curium", 247, "actinide"), ("Bk", 97, 11, 10, "berkelium", 247, "actinide"), ("Cf", 98, 12, 10, "californium", 251, "actinide"), ("Es", 99, 13, 10, "einsteinium", 252, "actinide"), ("Fm", 100, 14, 10, "fermium", 257, "actinide"), ("Md", 101, 15, 10, "mendelevium", 258, "actinide"), ("No", 102, 16, 10, "nobelium", 259, "actinide"), ("Lr", 103, 17, 10, "lawrencium", 262, "actinide"), ("Rf", 104, 4, 7, "rutherfordium", 261, "transition metal"), ("Db", 105, 5, 7, "dubnium", 262, "transition metal"), ("Sg", 106, 6, 7, "seaborgium", 266, "transition metal"), ("Bh", 107, 7, 7, "bohrium", 264, "transition metal"), ("Hs", 108, 8, 7, "hassium", 269, "transition metal"), ("Mt", 109, 9, 7, "meitnerium", 268)] class PeriodicTableItem(object): """Periodic table item, used as generic item in :class:`PeriodicTable`, :class:`PeriodicCombo` and :class:`PeriodicList`. This implementation stores the minimal amount of information needed by the widgets: - atomic symbol - atomic number - element name - atomic mass - column of element in periodic table - row of element in periodic table You can subclass this class to add additional information. :param str symbol: Atomic symbol (e.g. H, He, Li...) :param int Z: Proton number :param int col: 1-based column index of element in periodic table :param int row: 1-based row index of element in periodic table :param str name: PeriodicTableItem name ("hydrogen", ...) :param float mass: Atomic mass (gram per mol) :param str subcategory: Subcategory, based on physical properties (e.g. "alkali metal", "noble gas"...) """ def __init__(self, symbol, Z, col, row, name, mass, subcategory=""): self.symbol = symbol """Atomic symbol (e.g. H, He, Li...)""" self.Z = Z """Atomic number (Proton number)""" self.col = col """1-based column index of element in periodic table""" self.row = row """1-based row index of element in periodic table""" self.name = name """PeriodicTableItem name ("hydrogen", ...)""" self.mass = mass """Atomic mass (gram per mol)""" self.subcategory = subcategory """Subcategory, based on physical properties (e.g. "alkali metal", "noble gas"...)""" # pymca compatibility (elements used to be stored as a list of lists) def __getitem__(self, idx): if idx == 6: _logger.warning("density not implemented in silx, returning 0.") ret = [self.symbol, self.Z, self.col, self.row, self.name, self.mass, 0.] return ret[idx] def __len__(self): return 6 class ColoredPeriodicTableItem(PeriodicTableItem): """:class:`PeriodicTableItem` with an added :attr:`bgcolor`. The background color can be passed as a parameter to the constructor. If it is not specified, it will be defined based on :attr:`subcategory`. :param str bgcolor: Custom background color for element in periodic table, as a RGB string *#RRGGBB*""" COLORS = { "diatomic nonmetal": "#7FFF00", # chartreuse "noble gas": "#00FFFF", # cyan "alkali metal": "#FFE4B5", # Moccasin "alkaline earth metal": "#FFA500", # orange "polyatomic nonmetal": "#7FFFD4", # aquamarine "transition metal": "#FFA07A", # light salmon "metalloid": "#8FBC8F", # Dark Sea Green "post transition metal": "#D3D3D3", # light gray "lanthanide": "#FFB6C1", # light pink "actinide": "#F08080", # Light Coral "": "#FFFFFF" # white } """Dictionary defining RGB colors for each subcategory.""" def __init__(self, symbol, Z, col, row, name, mass, subcategory="", bgcolor=None): PeriodicTableItem.__init__(self, symbol, Z, col, row, name, mass, subcategory) self.bgcolor = self.COLORS.get(subcategory, "#FFFFFF") """Background color of element in the periodic table, based on its subcategory. This should be a string of a hexadecimal RGB code, with the format *#RRGGBB*. If the subcategory is unknown, use white (*#FFFFFF*) """ # possible custom color if bgcolor is not None: self.bgcolor = bgcolor _defaultTableItems = [ColoredPeriodicTableItem(*info) for info in _elements] class _ElementButton(qt.QPushButton): """Atomic element button, used as a cell in the periodic table """ sigElementEnter = qt.pyqtSignal(object) """Signal emitted as the cursor enters the widget""" sigElementLeave = qt.pyqtSignal(object) """Signal emitted as the cursor leaves the widget""" sigElementClicked = qt.pyqtSignal(object) """Signal emitted when the widget is clicked""" def __init__(self, item, parent=None): """ :param parent: Parent widget :param PeriodicTableItem item: :class:`PeriodicTableItem` object """ qt.QPushButton.__init__(self, parent) self.item = item """:class:`PeriodicTableItem` object represented by this button""" self.setText(item.symbol) self.setFlat(1) self.setCheckable(0) self.setSizePolicy(qt.QSizePolicy(qt.QSizePolicy.Expanding, qt.QSizePolicy.Expanding)) self.selected = False self.current = False # selection colors self.selected_color = qt.QColor(qt.Qt.yellow) self.current_color = qt.QColor(qt.Qt.gray) self.selected_current_color = qt.QColor(qt.Qt.darkYellow) # element colors if hasattr(item, "bgcolor"): self.bgcolor = qt.QColor(item.bgcolor) else: self.bgcolor = qt.QColor("#FFFFFF") self.brush = qt.QBrush() self.__setBrush() self.clicked.connect(self.clickedSlot) def sizeHint(self): return qt.QSize(40, 40) def setCurrent(self, b): """Set this element button as current. Multiple buttons can be selected. :param b: boolean """ self.current = b self.__setBrush() def isCurrent(self): """ :return: True if element button is current """ return self.current def isSelected(self): """ :return: True if element button is selected """ return self.selected def setSelected(self, b): """Set this element button as selected. Only a single button can be selected. :param b: boolean """ self.selected = b self.__setBrush() def __setBrush(self): """Selected cells are yellow when not current. The current cell is dark yellow when selected or grey when not selected. Other cells have no bg color by default, unless specified at instantiation (:attr:`bgcolor`)""" palette = self.palette() # if self.current and self.selected: # self.brush = qt.QBrush(self.selected_current_color) # el if self.selected: self.brush = qt.QBrush(self.selected_color) # elif self.current: # self.brush = qt.QBrush(self.current_color) elif self.bgcolor is not None: self.brush = qt.QBrush(self.bgcolor) else: self.brush = qt.QBrush() palette.setBrush(self.backgroundRole(), self.brush) self.setPalette(palette) self.update() def paintEvent(self, pEvent): # get button geometry widgGeom = self.rect() paintGeom = qt.QRect(widgGeom.left() + 1, widgGeom.top() + 1, widgGeom.width() - 2, widgGeom.height() - 2) # paint background color painter = qt.QPainter(self) if self.brush is not None: painter.fillRect(paintGeom, self.brush) # paint frame pen = qt.QPen(qt.Qt.black) pen.setWidth(1 if not self.isCurrent() else 5) painter.setPen(pen) painter.drawRect(paintGeom) painter.end() qt.QPushButton.paintEvent(self, pEvent) def enterEvent(self, e): """Emit a :attr:`sigElementEnter` signal and send a :class:`PeriodicTableItem` object""" self.sigElementEnter.emit(self.item) def leaveEvent(self, e): """Emit a :attr:`sigElementLeave` signal and send a :class:`PeriodicTableItem` object""" self.sigElementLeave.emit(self.item) def clickedSlot(self): """Emit a :attr:`sigElementClicked` signal and send a :class:`PeriodicTableItem` object""" self.sigElementClicked.emit(self.item) class PeriodicTable(qt.QWidget): """Periodic Table widget .. image:: img/PeriodicTable.png The following example shows how to connect clicking to selection:: from silx.gui import qt from silx.gui.widgets.PeriodicTable import PeriodicTable app = qt.QApplication([]) pt = PeriodicTable() pt.sigElementClicked.connect(pt.elementToggle) pt.show() app.exec_() To print all selected elements each time a new element is selected:: def my_slot(item): pt.elementToggle(item) selected_elements = pt.getSelection() for e in selected_elements: print(e.symbol) pt.sigElementClicked.connect(my_slot) """ sigElementClicked = qt.pyqtSignal(object) """When any element is clicked in the table, the widget emits this signal and sends a :class:`PeriodicTableItem` object. """ sigSelectionChanged = qt.pyqtSignal(object) """When any element is selected/unselected in the table, the widget emits this signal and sends a list of :class:`PeriodicTableItem` objects. .. note:: To enable selection of elements, you must set *selectable=True* when you instantiate the widget. Alternatively, you can also connect :attr:`sigElementClicked` to :meth:`elementToggle` manually:: pt = PeriodicTable() pt.sigElementClicked.connect(pt.elementToggle) :param parent: parent QWidget :param str name: Widget window title :param elements: List of items (:class:`PeriodicTableItem` objects) to be represented in the table. By default, take elements from a predefined list with minimal information (symbol, atomic number, name, mass). :param bool selectable: If *True*, multiple elements can be selected by clicking with the mouse. If *False* (default), selection is only possible with method :meth:`setSelection`. """ def __init__(self, parent=None, name="PeriodicTable", elements=None, selectable=False): self.selectable = selectable qt.QWidget.__init__(self, parent) self.setWindowTitle(name) self.gridLayout = qt.QGridLayout(self) self.gridLayout.setContentsMargins(0, 0, 0, 0) self.gridLayout.addItem(qt.QSpacerItem(0, 5), 7, 0) for idx in range(10): self.gridLayout.setRowStretch(idx, 3) # row 8 (above lanthanoids is empty) self.gridLayout.setRowStretch(7, 2) # Element information displayed when cursor enters a cell self.eltLabel = qt.QLabel(self) f = self.eltLabel.font() f.setBold(1) self.eltLabel.setFont(f) self.eltLabel.setAlignment(qt.Qt.AlignHCenter) self.gridLayout.addWidget(self.eltLabel, 1, 1, 3, 10) self._eltCurrent = None """Current :class:`_ElementButton` (last clicked)""" self._eltButtons = OrderedDict() """Dictionary of all :class:`_ElementButton`. Keys are the symbols ("H", "He", "Li"...)""" if elements is None: elements = _defaultTableItems # fill cells with elements for elmt in elements: self.__addElement(elmt) def __addElement(self, elmt): """Add one :class:`_ElementButton` widget into the grid, connect its signals to interact with the cursor""" b = _ElementButton(elmt, self) b.setAutoDefault(False) self._eltButtons[elmt.symbol] = b self.gridLayout.addWidget(b, elmt.row, elmt.col) b.sigElementEnter.connect(self.elementEnter) b.sigElementLeave.connect(self._elementLeave) b.sigElementClicked.connect(self._elementClicked) def elementEnter(self, item): """Update label with element info (e.g. "Nb(41) - niobium") when mouse cursor hovers an element. :param PeriodicTableItem item: Element entered by cursor """ self.eltLabel.setText("%s(%d) - %s" % (item.symbol, item.Z, item.name)) def _elementLeave(self, item): """Clear label when the cursor leaves the cell :param PeriodicTableItem item: Element left """ self.eltLabel.setText("") def _elementClicked(self, item): """Emit :attr:`sigElementClicked`, toggle selected state of element :param PeriodicTableItem item: Element clicked """ if self._eltCurrent is not None: self._eltCurrent.setCurrent(False) self._eltButtons[item.symbol].setCurrent(True) self._eltCurrent = self._eltButtons[item.symbol] if self.selectable: self.elementToggle(item) self.sigElementClicked.emit(item) def getSelection(self): """Return a list of selected elements, as a list of :class:`PeriodicTableItem` objects. :return: Selected items :rtype: list(PeriodicTableItem) """ return [b.item for b in self._eltButtons.values() if b.isSelected()] def setSelection(self, symbols): """Set selected elements. This causes the sigSelectionChanged signal to be emitted, even if the selection didn't actually change. :param list(str) symbols: List of symbols of elements to be selected (e.g. *["Fe", "Hg", "Li"]*) """ # accept list of PeriodicTableItems as input, because getSelection # returns these objects and it makes sense to have getter and setter # use same type of data if isinstance(symbols[0], PeriodicTableItem): symbols = [elmt.symbol for elmt in symbols] for (e, b) in self._eltButtons.items(): b.setSelected(e in symbols) self.sigSelectionChanged.emit(self.getSelection()) def setElementSelected(self, symbol, state): """Modify *selected* status of a single element (select or unselect) :param str symbol: PeriodicTableItem symbol to be selected :param bool state: *True* to select, *False* to unselect """ self._eltButtons[symbol].setSelected(state) self.sigSelectionChanged.emit(self.getSelection()) def isElementSelected(self, symbol): """Return *True* if element is selected, else *False* :param str symbol: PeriodicTableItem symbol :return: *True* if element is selected, else *False* """ return self._eltButtons[symbol].isSelected() def elementToggle(self, item): """Toggle selected/unselected state for element :param item: PeriodicTableItem object """ b = self._eltButtons[item.symbol] b.setSelected(not b.isSelected()) self.sigSelectionChanged.emit(self.getSelection()) class PeriodicCombo(qt.QComboBox): """ Combo list with all atomic elements of the periodic table .. image:: img/PeriodicCombo.png :param bool detailed: True (default) display element symbol, Z and name. False display only element symbol and Z. :param elements: List of items (:class:`PeriodicTableItem` objects) to be represented in the table. By default, take elements from a predefined list with minimal information (symbol, atomic number, name, mass). """ sigSelectionChanged = qt.pyqtSignal(object) """Signal emitted when the selection changes. Send :class:`PeriodicTableItem` object representing selected element """ def __init__(self, parent=None, detailed=True, elements=None): qt.QComboBox.__init__(self, parent) # add all elements from global list if elements is None: elements = _defaultTableItems for i, elmt in enumerate(elements): if detailed: txt = "%2s (%d) - %s" % (elmt.symbol, elmt.Z, elmt.name) else: txt = "%2s (%d)" % (elmt.symbol, elmt.Z) self.insertItem(i, txt) self.currentIndexChanged[int].connect(self.__selectionChanged) def __selectionChanged(self, idx): """Emit :attr:`sigSelectionChanged`""" self.sigSelectionChanged.emit(_defaultTableItems[idx]) def getSelection(self): """Get selected element :return: Selected element :rtype: PeriodicTableItem """ return _defaultTableItems[self.currentIndex()] def setSelection(self, symbol): """Set selected item in combobox by giving the atomic symbol :param symbol: Symbol of element to be selected """ # accept PeriodicTableItem for getter/setter consistency if isinstance(symbol, PeriodicTableItem): symbol = symbol.symbol symblist = [elmt.symbol for elmt in _defaultTableItems] self.setCurrentIndex(symblist.index(symbol)) class PeriodicList(qt.QTreeWidget): """List of atomic elements in a :class:`QTreeView` .. image:: img/PeriodicList.png :param QWidget parent: Parent widget :param bool detailed: True (default) display element symbol, Z and name. False display only element symbol and Z. :param single: *True* for single element selection with mouse click, *False* for multiple element selection mode. """ sigSelectionChanged = qt.pyqtSignal(object) """When any element is selected/unselected in the widget, it emits this signal and sends a list of currently selected :class:`PeriodicTableItem` objects. """ def __init__(self, parent=None, detailed=True, single=False, elements=None): qt.QTreeWidget.__init__(self, parent) self.detailed = detailed headers = ["Z", "Symbol"] if detailed: headers.append("Name") self.setColumnCount(3) else: self.setColumnCount(2) self.setHeaderLabels(headers) self.header().setStretchLastSection(False) self.setRootIsDecorated(0) self.itemClicked.connect(self.__selectionChanged) self.setSelectionMode(qt.QAbstractItemView.SingleSelection if single else qt.QAbstractItemView.ExtendedSelection) self.__fill_widget(elements) self.resizeColumnToContents(0) self.resizeColumnToContents(1) if detailed: self.resizeColumnToContents(2) def __fill_widget(self, elements): """Fill tree widget with elements """ if elements is None: elements = _defaultTableItems self.tree_items = [] previous_item = None for elmt in elements: if previous_item is None: item = qt.QTreeWidgetItem(self) else: item = qt.QTreeWidgetItem(self, previous_item) item.setText(0, str(elmt.Z)) item.setText(1, elmt.symbol) if self.detailed: item.setText(2, elmt.name) self.tree_items.append(item) previous_item = item def __selectionChanged(self, treeItem, column): """Emit a :attr:`sigSelectionChanged` and send a list of :class:`PeriodicTableItem` objects.""" self.sigSelectionChanged.emit(self.getSelection()) def getSelection(self): """Get a list of selected elements, as a list of :class:`PeriodicTableItem` objects. :return: Selected elements :rtype: list(PeriodicTableItem)""" return [_defaultTableItems[idx] for idx in range(len(self.tree_items)) if self.tree_items[idx].isSelected()] # setSelection is a bad name (name of a QTreeWidget method) def setSelectedElements(self, symbolList): """ :param symbolList: List of atomic symbols ["H", "He", "Li"...] to be selected in the widget """ # accept PeriodicTableItem for getter/setter consistency if isinstance(symbolList[0], PeriodicTableItem): symbolList = [elmt.symbol for elmt in symbolList] for idx in range(len(self.tree_items)): self.tree_items[idx].setSelected(_defaultTableItems[idx].symbol in symbolList) silx-0.6.1/silx/gui/widgets/ThreadPoolPushButton.py0000644023630100076410000002121613202530432023015 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """ThreadPoolPushButton module """ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "13/10/2016" import logging from .. import qt from .WaitingPushButton import WaitingPushButton _logger = logging.getLogger(__name__) class _Wrapper(qt.QRunnable): """Wrapper to allow to call a function into a `QThreadPool` and sending signals during the life cycle of the object""" def __init__(self, signalHolder, function, args, kwargs): """Constructor""" super(_Wrapper, self).__init__() self.__signalHolder = signalHolder self.__callable = function self.__args = args self.__kwargs = kwargs def run(self): holder = self.__signalHolder holder.started.emit() try: result = self.__callable(*self.__args, **self.__kwargs) holder.succeeded.emit(result) except Exception as e: module = self.__callable.__module__ name = self.__callable.__name__ _logger.error("Error while executing callable %s.%s.", module, name, exc_info=True) holder.failed.emit(e) finally: holder.finished.emit() holder._sigReleaseRunner.emit(self) def autoDelete(self): """Returns true to ask the QThreadPool to manage the life cycle of this QRunner.""" return True class ThreadPoolPushButton(WaitingPushButton): """ ThreadPoolPushButton provides a simple push button to execute a threaded task with user feedback when the task is running. The task can be defined with the method `setCallable`. It takes a python function and arguments as parameters. WARNING: This task is run in a separate thread. Everytime the button is pushed a new runner is created to execute the function with defined arguments. An animated waiting icon is displayed to show the activity. By default the button is disabled when an execution is requested. This behaviour can be disabled by using `setDisabledWhenWaiting`. When the button is clicked a `beforeExecuting` signal is sent from the Qt main thread. Then the task is started in a thread pool and the following signals are emitted from the thread pool. Right before calling the registered callable, the widget emits a `started` signal. When the task ends, its result is emitted by the `succeeded` signal, but if it fails the signal `failed` is emitted with the resulting exception. At the end, the `finished` signal is emitted. The task can be programatically executed by using `executeCallable`. >>> # Compute a value >>> import math >>> button = ThreadPoolPushButton(text="Compute 2^16") >>> button.setCallable(math.pow, 2, 16) >>> button.succeeded.connect(print) # python3 .. image:: img/ThreadPoolPushButton.png >>> # Compute a wrong value >>> import math >>> button = ThreadPoolPushButton(text="Compute sqrt(-1)") >>> button.setCallable(math.sqrt, -1) >>> button.failed.connect(print) # python3 """ def __init__(self, parent=None, text=None, icon=None): """Constructor :param str text: Text displayed on the button :param qt.QIcon icon: Icon displayed on the button :param qt.QWidget parent: Parent of the widget """ WaitingPushButton.__init__(self, parent=parent, text=text, icon=icon) self.__callable = None self.__args = None self.__kwargs = None self.__runnerCount = 0 self.__runnerSet = set([]) self.clicked.connect(self.executeCallable) self.finished.connect(self.__runnerFinished) self._sigReleaseRunner.connect(self.__releaseRunner) beforeExecuting = qt.Signal() """Signal emitted just before execution of the callable by the main Qt thread. In synchronous mode (direct mode), it can be used to define dynamically `setCallable`, or to execute something in the Qt thread before the execution, or both.""" started = qt.Signal() """Signal emitted from the thread pool when the defined callable is started. WARNING: This signal is emitted from the thread performing the task, and might be received after the registered callable has been called. If you want to perform some initialisation or set the callable to run, use the `beforeExecuting` signal instead. """ finished = qt.Signal() """Signal emitted from the thread pool when the defined callable is finished""" succeeded = qt.Signal(object) """Signal emitted from the thread pool when the callable exit with a success. The parameter of the signal is the result returned by the callable. """ failed = qt.Signal(object) """Signal emitted emitted from the thread pool when the callable raises an exception. The parameter of the signal is the raised exception. """ _sigReleaseRunner = qt.Signal(object) """Callback to release runners""" def __runnerStarted(self): """Called when a runner is started. Count the number of executed tasks to change the state of the widget. """ self.__runnerCount += 1 if self.__runnerCount > 0: self.wait() def __runnerFinished(self): """Called when a runner is finished. Count the number of executed tasks to change the state of the widget. """ self.__runnerCount -= 1 if self.__runnerCount <= 0: self.stopWaiting() @qt.Slot() def executeCallable(self): """Execute the defined callable in QThreadPool. First emit a `beforeExecuting` signal. If callable is not defined, nothing append. If a callable is defined, it will be started as a new thread using the `QThreadPool` system. At start of the thread the `started` will be emitted. When the callable returns a result it is emitted by the `succeeded` signal. If the callable fail, the signal `failed` is emitted with the resulting exception. Then the `finished` signal is emitted. """ self.beforeExecuting.emit() if self.__callable is None: return self.__runnerStarted() runner = self._createRunner(self.__callable, self.__args, self.__kwargs) qt.QThreadPool.globalInstance().start(runner) self.__runnerSet.add(runner) def __releaseRunner(self, runner): self.__runnerSet.remove(runner) def _createRunner(self, function, args, kwargs): """Create a QRunnable from a callable object. :param callable function: A callable Python object. :param list args: List of arguments to call the function. :param dict kwargs: Dictionary of arguments used to call the function. :rtpye: qt.QRunnable """ runnable = _Wrapper(self, function, args, kwargs) return runnable def setCallable(self, function, *args, **kwargs): """Define a callable which will be executed on QThreadPool everytime the button is clicked. To retrieve the results, connect to the `succeeded` signal. WARNING: The callable will be called in a separate thread. :param callable function: A callable Python object :param list args: List of arguments to call the function. :param dict kwargs: Dictionary of arguments used to call the function. """ self.__callable = function self.__args = args self.__kwargs = kwargs silx-0.6.1/silx/gui/widgets/FrameBrowser.py0000644023630100076410000002535213202530432021323 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module defines two main classes: - :class:`FrameBrowser`: a widget with 4 buttons (first, previous, next, last) to browse between frames and a text entry to access a specific frame by typing it's number) - :class:`HorizontalSliderWithBrowser`: a FrameBrowser with an additional slider. This class inherits :class:`qt.QAbstractSlider`. """ from silx.gui import qt from silx.gui import icons __authors__ = ["V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "16/01/2017" class FrameBrowser(qt.QWidget): """Frame browser widget, with 4 buttons/icons and a line edit to provide a way of selecting a frame index in a stack of images. .. image:: img/FrameBrowser.png It can be used in more generic case to select an integer within a range. :param QWidget parent: Parent widget :param int n: Number of frames. This will set the range of frame indices to 0--n-1. If None, the range is initialized to the default QSlider range (0--99).""" sigIndexChanged = qt.pyqtSignal(object) def __init__(self, parent=None, n=None): qt.QWidget.__init__(self, parent) # Use the font size as the icon size to avoid to create bigger buttons fontMetric = self.fontMetrics() iconSize = qt.QSize(fontMetric.height(), fontMetric.height()) self.mainLayout = qt.QHBoxLayout(self) self.mainLayout.setContentsMargins(0, 0, 0, 0) self.mainLayout.setSpacing(0) self.firstButton = qt.QPushButton(self) self.firstButton.setIcon(icons.getQIcon("first")) self.firstButton.setIconSize(iconSize) self.previousButton = qt.QPushButton(self) self.previousButton.setIcon(icons.getQIcon("previous")) self.previousButton.setIconSize(iconSize) self._lineEdit = qt.QLineEdit(self) self._label = qt.QLabel(self) self.nextButton = qt.QPushButton(self) self.nextButton.setIcon(icons.getQIcon("next")) self.nextButton.setIconSize(iconSize) self.lastButton = qt.QPushButton(self) self.lastButton.setIcon(icons.getQIcon("last")) self.lastButton.setIconSize(iconSize) self.mainLayout.addWidget(self.firstButton) self.mainLayout.addWidget(self.previousButton) self.mainLayout.addWidget(self._lineEdit) self.mainLayout.addWidget(self._label) self.mainLayout.addWidget(self.nextButton) self.mainLayout.addWidget(self.lastButton) if n is None: first = qt.QSlider().minimum() last = qt.QSlider().maximum() else: first, last = 0, n self._lineEdit.setFixedWidth(self._lineEdit.fontMetrics().width('%05d' % last)) validator = qt.QIntValidator(first, last, self._lineEdit) self._lineEdit.setValidator(validator) self._lineEdit.setText("%d" % first) self._label.setText("of %d" % last) self._index = first """0-based index""" self.firstButton.clicked.connect(self._firstClicked) self.previousButton.clicked.connect(self._previousClicked) self.nextButton.clicked.connect(self._nextClicked) self.lastButton.clicked.connect(self._lastClicked) self._lineEdit.editingFinished.connect(self._textChangedSlot) def lineEdit(self): """Returns the line edit provided by this widget. :rtype: qt.QLineEdit """ return self._lineEdit def limitWidget(self): """Returns the widget displaying axes limits. :rtype: qt.QLabel """ return self._label def _firstClicked(self): """Select first/lowest frame number""" self._lineEdit.setText("%d" % self._lineEdit.validator().bottom()) self._textChangedSlot() def _previousClicked(self): """Select previous frame number""" if self._index > self._lineEdit.validator().bottom(): self._lineEdit.setText("%d" % (self._index - 1)) self._textChangedSlot() def _nextClicked(self): """Select next frame number""" if self._index < (self._lineEdit.validator().top()): self._lineEdit.setText("%d" % (self._index + 1)) self._textChangedSlot() def _lastClicked(self): """Select last/highest frame number""" self._lineEdit.setText("%d" % self._lineEdit.validator().top()) self._textChangedSlot() def _textChangedSlot(self): """Select frame number typed in the line edit widget""" txt = self._lineEdit.text() if not len(txt): self._lineEdit.setText("%d" % self._index) return new_value = int(txt) if new_value == self._index: return ddict = { "event": "indexChanged", "old": self._index, "new": new_value, "id": id(self) } self._index = new_value self.sigIndexChanged.emit(ddict) def setRange(self, first, last): """Set minimum and maximum frame indices Initialize the frame index to *first*. Update the label text to *" limits: first, last"* :param int first: Minimum frame index :param int last: Maximum frame index""" return self.setLimits(first, last) def setLimits(self, first, last): """Set minimum and maximum frame indices. Initialize the frame index to *first*. Update the label text to *" limits: first, last"* :param int first: Minimum frame index :param int last: Maximum frame index""" bottom = min(first, last) top = max(first, last) self._lineEdit.validator().setTop(top) self._lineEdit.validator().setBottom(bottom) self._index = bottom self._lineEdit.setText("%d" % self._index) self._label.setText(" limits: %d, %d " % (bottom, top)) def setNFrames(self, nframes): """Set minimum=0 and maximum=nframes-1 frame numbers. Initialize the frame index to 0. Update the label text to *"1 of nframes"* :param int nframes: Number of frames""" bottom = 0 top = nframes - 1 self._lineEdit.validator().setTop(top) self._lineEdit.validator().setBottom(bottom) self._index = bottom self._lineEdit.setText("%d" % self._index) # display 1-based index in label self._label.setText(" %d of %d " % (self._index + 1, top + 1)) def getCurrentIndex(self): """Get 0-based frame index """ return self._index def setValue(self, value): """Set 0-based frame index :param int value: Frame number""" self._lineEdit.setText("%d" % value) self._textChangedSlot() class HorizontalSliderWithBrowser(qt.QAbstractSlider): """ Slider widget combining a :class:`QSlider` and a :class:`FrameBrowser`. .. image:: img/HorizontalSliderWithBrowser.png The data model is an integer within a range. The default value is the default :class:`QSlider` value (0), and the default range is the default QSlider range (0 -- 99) The signal emitted when the value is changed is the usual QAbstractSlider signal :attr:`valueChanged`. The signal carries the value (as an integer). :param QWidget parent: Optional parent widget """ sigIndexChanged = qt.pyqtSignal(object) def __init__(self, parent=None): qt.QAbstractSlider.__init__(self, parent) self.setOrientation(qt.Qt.Horizontal) self.mainLayout = qt.QHBoxLayout(self) self.mainLayout.setContentsMargins(0, 0, 0, 0) self.mainLayout.setSpacing(2) self._slider = qt.QSlider(self) self._slider.setOrientation(qt.Qt.Horizontal) self._browser = FrameBrowser(self) self.mainLayout.addWidget(self._slider, 1) self.mainLayout.addWidget(self._browser) self._slider.valueChanged[int].connect(self._sliderSlot) self._browser.sigIndexChanged.connect(self._browserSlot) def lineEdit(self): """Returns the line edit provided by this widget. :rtype: qt.QLineEdit """ return self._browser.lineEdit() def limitWidget(self): """Returns the widget displaying axes limits. :rtype: qt.QLabel """ return self._browser.limitWidget() def setMinimum(self, value): """Set minimum value :param int value: Minimum value""" self._slider.setMinimum(value) maximum = self._slider.maximum() self._browser.setRange(value, maximum) def setMaximum(self, value): """Set maximum value :param int value: Maximum value """ self._slider.setMaximum(value) minimum = self._slider.minimum() self._browser.setRange(minimum, value) def setRange(self, first, last): """Set minimum/maximum values :param int first: Minimum value :param int last: Maximum value""" self._slider.setRange(first, last) self._browser.setRange(first, last) def _sliderSlot(self, value): """Emit selected value when slider is activated """ self._browser.setValue(value) self.valueChanged.emit(value) def _browserSlot(self, ddict): """Emit selected value when browser state is changed""" self._slider.setValue(ddict['new']) def setValue(self, value): """Set value :param int value: value""" self._slider.setValue(value) self._browser.setValue(value) def value(self): """Get selected value""" return self._slider.value() silx-0.6.1/silx/gui/widgets/FloatEdit.py0000644023630100076410000000461013202530432020572 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """Module contains a float editor """ from __future__ import division __authors__ = ["V.A. Sole", "T. Vincent"] __license__ = "MIT" __date__ = "02/10/2017" from .. import qt class FloatEdit(qt.QLineEdit): """Field to edit a float value. :param parent: See :class:`QLineEdit` :param float value: The value to set the QLineEdit to. """ def __init__(self, parent=None, value=None): qt.QLineEdit.__init__(self, parent) validator = qt.QDoubleValidator(self) self.setValidator(validator) self.setAlignment(qt.Qt.AlignRight) if value is not None: self.setValue(value) def value(self): """Return the QLineEdit current value as a float.""" text = self.text() value, validated = self.validator().locale().toDouble(text) if not validated: self.setValue(value) return value def setValue(self, value): """Set the current value of the LineEdit :param float value: The value to set the QLineEdit to. """ text = self.validator().locale().toString(value) self.setText(text) silx-0.6.1/silx/gui/widgets/MedianFilterDialog.py0000644023630100076410000000576113202530432022412 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """ MedianFilterDialog Classes ------- Widgets: - :class:`MedianFilterDialog` """ __authors__ = ["H. Payno"] __license__ = "MIT" __date__ = "14/02/2017" from silx.gui import qt class MedianFilterDialog(qt.QDialog): """QDialog window featuring a :class:`BackgroundWidget`""" sigFilterOptChanged = qt.Signal(int, bool) def __init__(self, parent=None): qt.QDialog.__init__(self, parent) self.setWindowTitle("Median filter options") self.mainLayout = qt.QHBoxLayout(self) self.setLayout(self.mainLayout) # filter width GUI self.mainLayout.addWidget(qt.QLabel('filter width:', parent = self)) self._filterWidth = qt.QSpinBox(parent=self) self._filterWidth.setMinimum(1) self._filterWidth.setValue(1) self._filterWidth.setSingleStep(2); widthTooltip = """radius width of the pixel including in the filter for each pixel""" self._filterWidth.setToolTip(widthTooltip) self._filterWidth.valueChanged.connect(self._filterOptionChanged) self.mainLayout.addWidget(self._filterWidth) # filter option GUI self._filterOption = qt.QCheckBox('conditional', parent=self) conditionalTooltip = """if check, implement a conditional filter""" self._filterOption.stateChanged.connect(self._filterOptionChanged) self.mainLayout.addWidget(self._filterOption) def _filterOptionChanged(self): """Call back used when the filter values are changed""" if self._filterWidth.value()%2 == 0: logging.warning('median filter only accept odd values') else: self.sigFilterOptChanged.emit(self._filterWidth.value(), self._filterOption.isChecked())silx-0.6.1/silx/gui/widgets/__init__.py0000644023630100076410000000271313202530306020460 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This package provides a few simple Qt widgets that rely only on a Qt wrapper for Python (PyQt5, PyQt4 or PySide). No other optional dependencies of *silx* should be required.""" silx-0.6.1/silx/gui/widgets/PrintPreview.py0000644023630100076410000006344113202530432021364 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module implements a print preview dialog. The dialog provides methods to send images, pixmaps and SVG items to the page to be printed. The user can interactively move and resize the items. """ import sys import logging from silx.gui import qt __authors__ = ["V.A. Sole", "P. Knobel"] __license__ = "MIT" __date__ = "11/07/2017" _logger = logging.getLogger(__name__) class PrintPreviewDialog(qt.QDialog): """Print preview dialog widget. """ def __init__(self, parent=None, printer=None): qt.QDialog.__init__(self, parent) self.setWindowTitle("Print Preview") self.setModal(False) self.resize(400, 500) self.mainLayout = qt.QVBoxLayout(self) self.mainLayout.setContentsMargins(0, 0, 0, 0) self.mainLayout.setSpacing(0) self._buildToolbar() self.printer = printer # :class:`QPrinter` (paint device that paints on a printer). # :meth:`showEvent` has been reimplemented to enforce printer # setup. self.printDialog = None # :class:`QPrintDialog` (dialog for specifying the printer's # configuration) self.scene = None # :class:`QGraphicsScene` (surface for managing # 2D graphical items) self.page = None # :class:`QGraphicsRectItem` used as white background page on which # to display the print preview. self.view = None # :class:`QGraphicsView` widget for displaying :attr:`scene` self._svgItems = [] # List storing :class:`QSvgRenderer` items to be printed, added in # :meth:`addSvgItem`, cleared in :meth:`_clearAll`. # This ensures that there is a reference pointing to the items, # which ensures they are not destroyed before being printed. self._viewScale = 1.0 # Zoom level (1.0 is 100%) self._toBeCleared = False # Flag indicating that all items must be removed from :attr:`scene` # and from :attr:`_svgItems`. # Set to True after a successful printing. The widget is then hidden, # and it will be cleared the next time it is shown. # Reset to False after :meth:`_clearAll` has done its job. def _buildToolbar(self): toolBar = qt.QWidget(self) # a layout for the toolbar toolsLayout = qt.QHBoxLayout(toolBar) toolsLayout.setContentsMargins(0, 0, 0, 0) toolsLayout.setSpacing(0) hideBut = qt.QPushButton("Hide", toolBar) hideBut.setToolTip("Hide print preview dialog") hideBut.clicked.connect(self.hide) cancelBut = qt.QPushButton("Clear All", toolBar) cancelBut.setToolTip("Remove all items") cancelBut.clicked.connect(self._clearAll) removeBut = qt.QPushButton("Remove", toolBar) removeBut.setToolTip("Remove selected item (use left click to select)") removeBut.clicked.connect(self._remove) setupBut = qt.QPushButton("Setup", toolBar) setupBut.setToolTip("Select and configure a printer") setupBut.clicked.connect(self.setup) printBut = qt.QPushButton("Print", toolBar) printBut.setToolTip("Print page and close print preview") printBut.clicked.connect(self._print) zoomPlusBut = qt.QPushButton("Zoom +", toolBar) zoomPlusBut.clicked.connect(self._zoomPlus) zoomMinusBut = qt.QPushButton("Zoom -", toolBar) zoomMinusBut.clicked.connect(self._zoomMinus) toolsLayout.addWidget(hideBut) toolsLayout.addWidget(printBut) toolsLayout.addWidget(cancelBut) toolsLayout.addWidget(removeBut) toolsLayout.addWidget(setupBut) # toolsLayout.addStretch() # toolsLayout.addWidget(marginLabel) # toolsLayout.addWidget(self.marginSpin) toolsLayout.addStretch() # toolsLayout.addWidget(scaleLabel) # toolsLayout.addWidget(self.scaleCombo) toolsLayout.addWidget(zoomPlusBut) toolsLayout.addWidget(zoomMinusBut) # toolsLayout.addStretch() self.toolBar = toolBar self.mainLayout.addWidget(self.toolBar) def _buildStatusBar(self): """Create the status bar used to display the printer name or output file name.""" # status bar statusBar = qt.QStatusBar(self) self.targetLabel = qt.QLabel(statusBar) self._updateTargetLabel() statusBar.addWidget(self.targetLabel) self.mainLayout.addWidget(statusBar) def _updateTargetLabel(self): """Update printer name or file name shown in the status bar.""" if self.printer is None: self.targetLabel.setText("Undefined printer") return if self.printer.outputFileName(): self.targetLabel.setText("File:" + self.printer.outputFileName()) else: self.targetLabel.setText("Printer:" + self.printer.printerName()) def _updatePrinter(self): """Resize :attr:`page`, :attr:`scene` and :attr:`view` to :attr:`printer` width and height.""" printer = self.printer assert printer is not None, \ "_updatePrinter should not be called unless a printer is defined" if self.scene is None: self.scene = qt.QGraphicsScene() self.scene.setBackgroundBrush(qt.QColor(qt.Qt.lightGray)) self.scene.setSceneRect(qt.QRectF(0, 0, printer.width(), printer.height())) if self.page is None: self.page = qt.QGraphicsRectItem(0, 0, printer.width(), printer.height()) self.page.setBrush(qt.QColor(qt.Qt.white)) self.scene.addItem(self.page) self.scene.setSceneRect(qt.QRectF(0, 0, printer.width(), printer.height())) self.page.setPos(qt.QPointF(0.0, 0.0)) self.page.setRect(qt.QRectF(0, 0, printer.width(), printer.height())) if self.view is None: self.view = qt.QGraphicsView(self.scene) self.mainLayout.addWidget(self.view) self._buildStatusBar() # self.view.scale(1./self._viewScale, 1./self._viewScale) self.view.fitInView(self.page.rect(), qt.Qt.KeepAspectRatio) self._viewScale = 1.00 self._updateTargetLabel() # Public methods def addImage(self, image, title=None, comment=None, commentPosition=None): """Add an image to the print preview scene. :param QImage image: Image to be added to the scene :param str title: Title shown above (centered) the image :param str comment: Comment displayed below the image :param commentPosition: "CENTER" or "LEFT" """ self.addPixmap(qt.QPixmap.fromImage(image), title=title, comment=comment, commentPosition=commentPosition) def addPixmap(self, pixmap, title=None, comment=None, commentPosition=None): """Add a pixmap to the print preview scene :param QPixmap pixmap: Pixmap to be added to the scene :param str title: Title shown above (centered) the pixmap :param str comment: Comment displayed below the pixmap :param commentPosition: "CENTER" or "LEFT" """ if self._toBeCleared: self._clearAll() self.ensurePrinterIsSet() if self.printer is None: _logger.error("printer is not set, cannot add pixmap to page") return if title is None: title = ' ' * 88 if comment is None: comment = ' ' * 88 if commentPosition is None: commentPosition = "CENTER" if qt.qVersion() < "5.0": rectItem = qt.QGraphicsRectItem(self.page, self.scene) else: rectItem = qt.QGraphicsRectItem(self.page) rectItem.setRect(qt.QRectF(1, 1, pixmap.width(), pixmap.height())) pen = rectItem.pen() color = qt.QColor(qt.Qt.red) color.setAlpha(1) pen.setColor(color) rectItem.setPen(pen) rectItem.setZValue(1) rectItem.setFlag(qt.QGraphicsItem.ItemIsSelectable, True) rectItem.setFlag(qt.QGraphicsItem.ItemIsMovable, True) rectItem.setFlag(qt.QGraphicsItem.ItemIsFocusable, False) rectItemResizeRect = _GraphicsResizeRectItem(rectItem, self.scene) rectItemResizeRect.setZValue(2) if qt.qVersion() < "5.0": pixmapItem = qt.QGraphicsPixmapItem(rectItem, self.scene) else: pixmapItem = qt.QGraphicsPixmapItem(rectItem) pixmapItem.setPixmap(pixmap) pixmapItem.setZValue(0) # I add the title if qt.qVersion() < "5.0": textItem = qt.QGraphicsTextItem(title, rectItem, self.scene) else: textItem = qt.QGraphicsTextItem(title, rectItem) textItem.setTextInteractionFlags(qt.Qt.TextEditorInteraction) offset = 0.5 * textItem.boundingRect().width() textItem.moveBy(0.5 * pixmap.width() - offset, -20) textItem.setZValue(2) # I add the comment if qt.qVersion() < "5.0": commentItem = qt.QGraphicsTextItem(comment, rectItem, self.scene) else: commentItem = qt.QGraphicsTextItem(comment, rectItem) commentItem.setTextInteractionFlags(qt.Qt.TextEditorInteraction) offset = 0.5 * commentItem.boundingRect().width() if commentPosition.upper() == "LEFT": x = 1 else: x = 0.5 * pixmap.width() - offset commentItem.moveBy(x, pixmap.height() + 20) commentItem.setZValue(2) rectItem.moveBy(20, 40) def addSvgItem(self, item, title=None, comment=None, commentPosition=None, viewBox=None): """Add a SVG item to the scene. :param QSvgRenderer item: SVG item to be added to the scene. :param str title: Title shown above (centered) the SVG item. :param str comment: Comment displayed below the SVG item. :param str commentPosition: "CENTER" or "LEFT" :param QRectF viewBox: Bounding box for the item on the print page (xOffset, yOffset, width, height). If None, use original item size. """ if not qt.HAS_SVG: raise RuntimeError("Missing QtSvg library.") if not isinstance(item, qt.QSvgRenderer): raise TypeError("addSvgItem: QSvgRenderer expected") if self._toBeCleared: self._clearAll() self.ensurePrinterIsSet() if self.printer is None: _logger.error("printer is not set, cannot add SvgItem to page") return if title is None: title = 50 * ' ' if comment is None: comment = 80 * ' ' if commentPosition is None: commentPosition = "CENTER" if viewBox is None: if hasattr(item, "_viewBox"): # PyMca compatibility: viewbox attached to item viewBox = item._viewBox else: # try the original item viewbox viewBox = item.viewBoxF() svgItem = _GraphicsSvgRectItem(viewBox, self.page) svgItem.setSvgRenderer(item) svgItem.setCacheMode(qt.QGraphicsItem.NoCache) svgItem.setZValue(0) svgItem.setFlag(qt.QGraphicsItem.ItemIsSelectable, True) svgItem.setFlag(qt.QGraphicsItem.ItemIsMovable, True) svgItem.setFlag(qt.QGraphicsItem.ItemIsFocusable, False) rectItemResizeRect = _GraphicsResizeRectItem(svgItem, self.scene) rectItemResizeRect.setZValue(2) self._svgItems.append(item) if qt.qVersion() < '5.0': textItem = qt.QGraphicsTextItem(title, svgItem, self.scene) else: textItem = qt.QGraphicsTextItem(title, svgItem) textItem.setTextInteractionFlags(qt.Qt.TextEditorInteraction) title_offset = 0.5 * textItem.boundingRect().width() textItem.setZValue(1) textItem.setFlag(qt.QGraphicsItem.ItemIsMovable, True) dummyComment = 80 * "1" if qt.qVersion() < '5.0': commentItem = qt.QGraphicsTextItem(dummyComment, svgItem, self.scene) else: commentItem = qt.QGraphicsTextItem(dummyComment, svgItem) commentItem.setTextInteractionFlags(qt.Qt.TextEditorInteraction) scaleCalculationRect = qt.QRectF(commentItem.boundingRect()) scale = svgItem.boundingRect().width() / scaleCalculationRect.width() comment_offset = 0.5 * commentItem.boundingRect().width() if commentPosition.upper() == "LEFT": x = 1 else: x = 0.5 * svgItem.boundingRect().width() - comment_offset * scale # fixme: centering commentItem.moveBy(svgItem.boundingRect().x() + x, svgItem.boundingRect().y() + svgItem.boundingRect().height()) commentItem.setPlainText(comment) commentItem.setZValue(1) commentItem.setFlag(qt.QGraphicsItem.ItemIsMovable, True) if qt.qVersion() < "5.0": commentItem.scale(scale, scale) else: # the correct equivalent would be: # rectItem.setTransform(qt.QTransform.fromScale(scalex, scaley)) commentItem.setScale(scale) textItem.moveBy(svgItem.boundingRect().x() + 0.5 * svgItem.boundingRect().width() - title_offset * scale, svgItem.boundingRect().y()) if qt.qVersion() < "5.0": textItem.scale(scale, scale) else: # the correct equivalent would be: # rectItem.setTransform(qt.QTransform.fromScale(scalex, scaley)) textItem.setScale(scale) def setup(self): """Open a print dialog to ensure the :attr:`printer` is set. If the setting fails or is cancelled, :attr:`printer` is reset to *None*. """ if self.printer is None: self.printer = qt.QPrinter() if self.printDialog is None: self.printDialog = qt.QPrintDialog(self.printer, self) if self.printDialog.exec_(): if self.printer.width() <= 0 or self.printer.height() <= 0: self.message = qt.QMessageBox(self) self.message.setIcon(qt.QMessageBox.Critical) self.message.setText("Unknown library error \non printer initialization") self.message.setWindowTitle("Library Error") self.message.setModal(0) self.printer = None return self.printer.setFullPage(True) self._updatePrinter() else: # printer setup cancelled, check for a possible previous configuration if self.page is None: # not initialized self.printer = None def ensurePrinterIsSet(self): """If the printer is not already set, try to interactively setup the printer using a QPrintDialog. In case of failure, hide widget and log a warning. """ if self.printer is None: self.setup() if self.printer is None: self.hide() _logger.warning("Printer setup failed or was cancelled, " + "but printer is required.") def setOutputFileName(self, name): """Set output filename. Setting a non-empty name enables printing to file. :param str name: File name (path)""" self.printer.setOutputFileName(name) # overloaded methods def exec_(self): if self._toBeCleared: self._clearAll() return qt.QDialog.exec_(self) def raise_(self): if self._toBeCleared: self._clearAll() return qt.QDialog.raise_(self) def showEvent(self, event): """Reimplemented to force printer setup. In case of failure, hide the widget.""" if self._toBeCleared: self._clearAll() self.ensurePrinterIsSet() return super(PrintPreviewDialog, self).showEvent(event) # button callbacks def _print(self): """Do the printing, hide the print preview dialog, set :attr:`_toBeCleared` flag to True to trigger clearing the next time the dialog is shown. If the printer is not setup, do it first.""" printer = self.printer painter = qt.QPainter() if not painter.begin(printer) or printer is None: _logger.error("Cannot initialize printer") return try: self.scene.render(painter, qt.QRectF(0, 0, printer.width(), printer.height()), qt.QRectF(self.page.rect().x(), self.page.rect().y(), self.page.rect().width(), self.page.rect().height()), qt.Qt.KeepAspectRatio) painter.end() self.hide() self.accept() self._toBeCleared = True except: # FIXME painter.end() qt.QMessageBox.critical(self, "ERROR", 'Printing problem:\n %s' % sys.exc_info()[1]) _logger.error('printing problem:\n %s' % sys.exc_info()[1]) return def _zoomPlus(self): self._viewScale *= 1.20 self.view.scale(1.20, 1.20) def _zoomMinus(self): self._viewScale *= 0.80 self.view.scale(0.80, 0.80) def _clearAll(self): """ Clear the print preview window, remove all items but keep the page. """ itemlist = self.scene.items() keep = self.page while len(itemlist) != 1: if itemlist.index(keep) == 0: self.scene.removeItem(itemlist[1]) else: self.scene.removeItem(itemlist[0]) itemlist = self.scene.items() self._svgItems = [] self._toBeCleared = False def _remove(self): """Remove selected item in :attr:`scene`. """ itemlist = self.scene.items() # this loop is not efficient if there are many items ... for item in itemlist: if item.isSelected(): self.scene.removeItem(item) class SingletonPrintPreviewDialog(PrintPreviewDialog): """Singleton print preview dialog. All widgets in a program that instantiate this class will share a single print preview dialog. This enables sending multiple images to a single page to be printed. """ _instance = None def __new__(self, *var, **kw): if self._instance is None: self._instance = PrintPreviewDialog(*var, **kw) return self._instance class _GraphicsSvgRectItem(qt.QGraphicsRectItem): """:class:`qt.QGraphicsRectItem` with an attached :class:`qt.QSvgRenderer`, and with a painter redefined to render the SVG item.""" def setSvgRenderer(self, renderer): """ :param QSvgRenderer renderer: svg renderer """ self._renderer = renderer def paint(self, painter, *var, **kw): self._renderer.render(painter, self.boundingRect()) class _GraphicsResizeRectItem(qt.QGraphicsRectItem): """Resizable QGraphicsRectItem.""" def __init__(self, parent=None, scene=None, keepratio=True): if qt.qVersion() < '5.0': qt.QGraphicsRectItem.__init__(self, parent, scene) else: qt.QGraphicsRectItem.__init__(self, parent) rect = parent.boundingRect() x = rect.x() y = rect.y() w = rect.width() h = rect.height() self._newRect = None self.keepRatio = keepratio self.setRect(qt.QRectF(x + w - 40, y + h - 40, 40, 40)) self.setAcceptHoverEvents(True) pen = qt.QPen() color = qt.QColor(qt.Qt.white) color.setAlpha(0) pen.setColor(color) pen.setStyle(qt.Qt.NoPen) self.setPen(pen) self.setBrush(color) self.setFlag(self.ItemIsMovable, True) self.show() def hoverEnterEvent(self, event): if self.parentItem().isSelected(): self.parentItem().setSelected(False) if self.keepRatio: self.setCursor(qt.QCursor(qt.Qt.SizeFDiagCursor)) else: self.setCursor(qt.QCursor(qt.Qt.SizeAllCursor)) self.setBrush(qt.QBrush(qt.Qt.yellow, qt.Qt.SolidPattern)) return qt.QGraphicsRectItem.hoverEnterEvent(self, event) def hoverLeaveEvent(self, event): self.setCursor(qt.QCursor(qt.Qt.ArrowCursor)) pen = qt.QPen() color = qt.QColor(qt.Qt.white) color.setAlpha(0) pen.setColor(color) pen.setStyle(qt.Qt.NoPen) self.setPen(pen) self.setBrush(color) return qt.QGraphicsRectItem.hoverLeaveEvent(self, event) def mousePressEvent(self, event): if self._newRect is not None: self._newRect = None self._point0 = self.pos() parent = self.parentItem() scene = self.scene() # following line prevents dragging along the previously selected # item when resizing another one scene.clearSelection() rect = parent.rect() self._x = rect.x() self._y = rect.y() self._w = rect.width() self._h = rect.height() self._ratio = self._w / self._h if qt.qVersion() < "5.0": self._newRect = qt.QGraphicsRectItem(parent, scene) else: self._newRect = qt.QGraphicsRectItem(parent) self._newRect.setRect(qt.QRectF(self._x, self._y, self._w, self._h)) qt.QGraphicsRectItem.mousePressEvent(self, event) def mouseMoveEvent(self, event): point1 = self.pos() deltax = point1.x() - self._point0.x() deltay = point1.y() - self._point0.y() if self.keepRatio: r1 = (self._w + deltax) / self._w r2 = (self._h + deltay) / self._h if r1 < r2: self._newRect.setRect(qt.QRectF(self._x, self._y, self._w + deltax, (self._w + deltax) / self._ratio)) else: self._newRect.setRect(qt.QRectF(self._x, self._y, (self._h + deltay) * self._ratio, self._h + deltay)) else: self._newRect.setRect(qt.QRectF(self._x, self._y, self._w + deltax, self._h + deltay)) qt.QGraphicsRectItem.mouseMoveEvent(self, event) def mouseReleaseEvent(self, event): point1 = self.pos() deltax = point1.x() - self._point0.x() deltay = point1.y() - self._point0.y() self.moveBy(-deltax, -deltay) parent = self.parentItem() # deduce scale from rectangle if (qt.qVersion() < "5.0") or self.keepRatio: scalex = self._newRect.rect().width() / self._w scaley = scalex else: scalex = self._newRect.rect().width() / self._w scaley = self._newRect.rect().height() / self._h if qt.qVersion() < "5.0": parent.scale(scalex, scaley) else: # the correct equivalent would be: # rectItem.setTransform(qt.QTransform.fromScale(scalex, scaley)) parent.setScale(scalex) self.scene().removeItem(self._newRect) self._newRect = None qt.QGraphicsRectItem.mouseReleaseEvent(self, event) def main(): """ """ import sys if len(sys.argv) < 2: print("give an image file as parameter please.") sys.exit(1) if len(sys.argv) > 2: print("only one parameter please.") sys.exit(1) filename = sys.argv[1] w = PrintPreviewDialog() w.resize(400, 500) comment = "" for i in range(20): comment += "Line number %d: En un lugar de La Mancha de cuyo nombre ...\n" % i if filename[-3:] == "svg": item = qt.QSvgRenderer(filename, w.page) w.addSvgItem(item, title=filename, comment=comment, commentPosition="CENTER") else: w.addPixmap(qt.QPixmap.fromImage(qt.QImage(filename)), title=filename, comment=comment, commentPosition="CENTER") w.addImage(qt.QImage(filename), comment=comment, commentPosition="LEFT") sys.exit(w.exec_()) if __name__ == '__main__': a = qt.QApplication(sys.argv) main() a.exec_() silx-0.6.1/silx/gui/widgets/HierarchicalTableView.py0000644023630100076410000001515413202530432023105 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """ This module define a hierarchical table view and model. It allows to define many headers in the middle of a table. The implementation hide the default header and allows to custom each cells to became a header. Row and column span is a concept of the view in a QTableView. This implementation also provide a span property as part of the model of the cell. A role is define to custom this information. The view is updated everytime the model is reset to take care of the changes of this information. A default item delegate is used to redefine the paint of the cells. """ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "07/04/2017" from silx.gui import qt class HierarchicalTableModel(qt.QAbstractTableModel): """ Abstract table model to provide more custom on row and column span and headers. Default headers are ignored and each cells can define IsHeaderRole and SpanRole using the `data` function. """ SpanRole = qt.Qt.UserRole + 0 """Role returning a tuple for number of row span then column span. None and (1, 1) are neutral for the rendering. """ IsHeaderRole = qt.Qt.UserRole + 1 """Role returning True is the identified cell is a header.""" UserRole = qt.Qt.UserRole + 2 """First index of user defined roles""" def headerData(self, section, orientation, role=qt.Qt.DisplayRole): """Returns the 0-based row or column index, for display in the horizontal and vertical headers In this case the headers are just ignored. Header information is part of each cells. """ return None class HierarchicalItemDelegate(qt.QStyledItemDelegate): """ Delegate item to take care of the rendering of the default table cells and also the header cells. """ def __init__(self, parent=None): """ Constructor :param qt.QObject parent: Parent of the widget """ qt.QStyledItemDelegate.__init__(self, parent) def paint(self, painter, option, index): """Override the paint function to inject the style of the header. :param qt.QPainter painter: Painter context used to displayed the cell :param qt.QStyleOptionViewItem option: Control how the editor is shown :param qt.QIndex index: Index of the data to display """ isHeader = index.data(role=HierarchicalTableModel.IsHeaderRole) if isHeader: span = index.data(role=HierarchicalTableModel.SpanRole) span = 1 if span is None else span[1] columnCount = index.model().columnCount() if span == columnCount: mainTitle = True position = qt.QStyleOptionHeader.OnlyOneSection else: mainTitle = False col = index.column() if col == 0: position = qt.QStyleOptionHeader.Beginning elif col < columnCount - 1: position = qt.QStyleOptionHeader.Middle else: position = qt.QStyleOptionHeader.End opt = qt.QStyleOptionHeader() opt.direction = option.direction opt.text = index.data() opt.textAlignment = qt.Qt.AlignCenter if mainTitle else qt.Qt.AlignVCenter opt.direction = option.direction opt.fontMetrics = option.fontMetrics opt.palette = option.palette opt.rect = option.rect opt.state = option.state opt.position = position margin = -1 style = qt.QApplication.instance().style() opt.rect = opt.rect.adjusted(margin, margin, -margin, -margin) style.drawControl(qt.QStyle.CE_HeaderSection, opt, painter, None) margin = 3 opt.rect = opt.rect.adjusted(margin, margin, -margin, -margin) style.drawControl(qt.QStyle.CE_HeaderLabel, opt, painter, None) else: qt.QStyledItemDelegate.paint(self, painter, option, index) class HierarchicalTableView(qt.QTableView): """A TableView which allow to display a `HierarchicalTableModel`.""" def __init__(self, parent=None): """ Constructor :param qt.QWidget parent: Parent of the widget """ super(HierarchicalTableView, self).__init__(parent) self.setItemDelegate(HierarchicalItemDelegate(self)) self.verticalHeader().setVisible(False) self.horizontalHeader().setVisible(False) def setModel(self, model): """Override the default function to connect the model to update function""" if self.model() is not None: model.modelReset.disconnect(self.__modelReset) super(HierarchicalTableView, self).setModel(model) if self.model() is not None: model.modelReset.connect(self.__modelReset) self.__modelReset() def __modelReset(self): """Update the model to take care of the changes of the span information""" self.clearSpans() model = self.model() for row in range(model.rowCount()): for column in range(model.columnCount()): index = model.index(row, column, qt.QModelIndex()) span = model.data(index, HierarchicalTableModel.SpanRole) if span is not None and span != (1, 1): self.setSpan(row, column, span[0], span[1]) silx-0.6.1/silx/gui/widgets/TableWidget.py0000644023630100076410000005764413202530432021131 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2004-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ """This module provides table widgets handling cut, copy and paste for multiple cell selections. These actions can be triggered using keyboard shortcuts or through a context menu (right-click). :class:`TableView` is a subclass of :class:`QTableView`. The added features are made available to users after a model is added to the widget, using :meth:`TableView.setModel`. :class:`TableWidget` is a subclass of :class:`qt.QTableWidget`, a table view with a built-in standard data model. The added features are available as soon as the widget is initialized. The cut, copy and paste actions are implemented as QActions: - :class:`CopySelectedCellsAction` (*Ctrl+C*) - :class:`CopyAllCellsAction` - :class:`CutSelectedCellsAction` (*Ctrl+X*) - :class:`CutAllCellsAction` - :class:`PasteCellsAction` (*Ctrl+V*) The copy actions are enabled by default. The cut and paste actions must be explicitly enabled, by passing parameters ``cut=True, paste=True`` when creating the widgets, or later by calling their :meth:`enableCut` and :meth:`enablePaste` methods. """ __authors__ = ["P. Knobel"] __license__ = "MIT" __date__ = "03/07/2017" import sys from .. import qt if sys.platform.startswith("win"): row_separator = "\r\n" else: row_separator = "\n" col_separator = "\t" class CopySelectedCellsAction(qt.QAction): """QAction to copy text from selected cells in a :class:`QTableWidget` into the clipboard. If multiple cells are selected, the copied text will be a concatenation of the texts in all selected cells, tabulated with tabulation and newline characters. If the cells are sparsely selected, the structure is preserved by representing the unselected cells as empty strings in between two tabulation characters. Beware of pasting this data in another table widget, because depending on how the paste is implemented, the empty cells may cause data in the target table to be deleted, even though you didn't necessarily select the corresponding cell in the origin table. :param table: :class:`QTableView` to which this action belongs. """ def __init__(self, table): if not isinstance(table, qt.QTableView): raise ValueError('CopySelectedCellsAction must be initialised ' + 'with a QTableWidget.') super(CopySelectedCellsAction, self).__init__(table) self.setText("Copy selection") self.setToolTip("Copy selected cells into the clipboard.") self.setShortcut(qt.QKeySequence.Copy) self.setShortcutContext(qt.Qt.WidgetShortcut) self.triggered.connect(self.copyCellsToClipboard) self.table = table self.cut = False """:attr:`cut` can be set to True by classes inheriting this action, to do a cut action.""" def copyCellsToClipboard(self): """Concatenate the text content of all selected cells into a string using tabulations and newlines to keep the table structure. Put this text into the clipboard. """ selected_idx = self.table.selectedIndexes() if not selected_idx: return selected_idx_tuples = [(idx.row(), idx.column()) for idx in selected_idx] selected_rows = [idx[0] for idx in selected_idx_tuples] selected_columns = [idx[1] for idx in selected_idx_tuples] data_model = self.table.model() copied_text = "" for row in range(min(selected_rows), max(selected_rows) + 1): for col in range(min(selected_columns), max(selected_columns) + 1): index = data_model.index(row, col) cell_text = data_model.data(index) flags = data_model.flags(index) if (row, col) in selected_idx_tuples and cell_text is not None: copied_text += cell_text if self.cut and (flags & qt.Qt.ItemIsEditable): data_model.setData(index, "") copied_text += col_separator # remove the right-most tabulation copied_text = copied_text[:-len(col_separator)] # add a newline copied_text += row_separator # remove final newline copied_text = copied_text[:-len(row_separator)] # put this text into clipboard qapp = qt.QApplication.instance() qapp.clipboard().setText(copied_text) class CopyAllCellsAction(qt.QAction): """QAction to copy text from all cells in a :class:`QTableWidget` into the clipboard. The copied text will be a concatenation of the texts in all cells, tabulated with tabulation and newline characters. :param table: :class:`QTableView` to which this action belongs. """ def __init__(self, table): if not isinstance(table, qt.QTableView): raise ValueError('CopyAllCellsAction must be initialised ' + 'with a QTableWidget.') super(CopyAllCellsAction, self).__init__(table) self.setText("Copy all") self.setToolTip("Copy all cells into the clipboard.") self.triggered.connect(self.copyCellsToClipboard) self.table = table self.cut = False def copyCellsToClipboard(self): """Concatenate the text content of all cells into a string using tabulations and newlines to keep the table structure. Put this text into the clipboard. """ data_model = self.table.model() copied_text = "" for row in range(data_model.rowCount()): for col in range(data_model.columnCount()): index = data_model.index(row, col) cell_text = data_model.data(index) flags = data_model.flags(index) if cell_text is not None: copied_text += cell_text if self.cut and (flags & qt.Qt.ItemIsEditable): data_model.setData(index, "") copied_text += col_separator # remove the right-most tabulation copied_text = copied_text[:-len(col_separator)] # add a newline copied_text += row_separator # remove final newline copied_text = copied_text[:-len(row_separator)] # put this text into clipboard qapp = qt.QApplication.instance() qapp.clipboard().setText(copied_text) class CutSelectedCellsAction(CopySelectedCellsAction): """QAction to cut text from selected cells in a :class:`QTableWidget` into the clipboard. The text is deleted from the original table widget (use :class:`CopySelectedCellsAction` to preserve the original data). If multiple cells are selected, the cut text will be a concatenation of the texts in all selected cells, tabulated with tabulation and newline characters. If the cells are sparsely selected, the structure is preserved by representing the unselected cells as empty strings in between two tabulation characters. Beware of pasting this data in another table widget, because depending on how the paste is implemented, the empty cells may cause data in the target table to be deleted, even though you didn't necessarily select the corresponding cell in the origin table. :param table: :class:`QTableView` to which this action belongs.""" def __init__(self, table): super(CutSelectedCellsAction, self).__init__(table) self.setText("Cut selection") self.setShortcut(qt.QKeySequence.Cut) self.setShortcutContext(qt.Qt.WidgetShortcut) # cutting is already implemented in CopySelectedCellsAction (but # it is disabled), we just need to enable it self.cut = True class CutAllCellsAction(CopyAllCellsAction): """QAction to cut text from all cells in a :class:`QTableWidget` into the clipboard. The text is deleted from the original table widget (use :class:`CopyAllCellsAction` to preserve the original data). The cut text will be a concatenation of the texts in all cells, tabulated with tabulation and newline characters. :param table: :class:`QTableView` to which this action belongs.""" def __init__(self, table): super(CutAllCellsAction, self).__init__(table) self.setText("Cut all") self.setToolTip("Cut all cells into the clipboard.") self.cut = True def _parseTextAsTable(text, row_separator=row_separator, col_separator=col_separator): """Parse text into list of lists (2D sequence). The input text must be tabulated using tabulation characters and newlines to separate columns and rows. :param text: text to be parsed :param record_separator: String, or single character, to be interpreted as a record/row separator. :param field_separator: String, or single character, to be interpreted as a field/column separator. :return: 2D sequence of strings """ rows = text.split(row_separator) table_data = [row.split(col_separator) for row in rows] return table_data class PasteCellsAction(qt.QAction): """QAction to paste text from the clipboard into the table. If the text contains tabulations and newlines, they are interpreted as column and row separators. In such a case, the text is split into multiple texts to be pasted into multiple cells. If a cell content is an empty string in the original text, it is ignored: the destination cell's text will not be deleted. :param table: :class:`QTableView` to which this action belongs. """ def __init__(self, table): if not isinstance(table, qt.QTableView): raise ValueError('PasteCellsAction must be initialised ' + 'with a QTableWidget.') super(PasteCellsAction, self).__init__(table) self.table = table self.setText("Paste") self.setShortcut(qt.QKeySequence.Paste) self.setShortcutContext(qt.Qt.WidgetShortcut) self.setToolTip("Paste data. The selected cell is the top-left" + "corner of the paste area.") self.triggered.connect(self.pasteCellFromClipboard) def pasteCellFromClipboard(self): """Paste text from clipboard into the table. :return: *True* in case of success, *False* if pasting data failed. """ selected_idx = self.table.selectedIndexes() if len(selected_idx) != 1: msgBox = qt.QMessageBox(parent=self.table) msgBox.setText("A single cell must be selected to paste data") msgBox.exec_() return False data_model = self.table.model() selected_row = selected_idx[0].row() selected_col = selected_idx[0].column() qapp = qt.QApplication.instance() clipboard_text = qapp.clipboard().text() table_data = _parseTextAsTable(clipboard_text) protected_cells = 0 out_of_range_cells = 0 # paste table data into cells, using selected cell as origin for row_offset in range(len(table_data)): for col_offset in range(len(table_data[row_offset])): target_row = selected_row + row_offset target_col = selected_col + col_offset if target_row >= data_model.rowCount() or\ target_col >= data_model.columnCount(): out_of_range_cells += 1 continue index = data_model.index(target_row, target_col) flags = data_model.flags(index) # ignore empty strings if table_data[row_offset][col_offset] != "": if not flags & qt.Qt.ItemIsEditable: protected_cells += 1 continue data_model.setData(index, table_data[row_offset][col_offset]) # item.setText(table_data[row_offset][col_offset]) if protected_cells or out_of_range_cells: msgBox = qt.QMessageBox(parent=self.table) msg = "Some data could not be inserted, " msg += "due to out-of-range or write-protected cells." msgBox.setText(msg) msgBox.exec_() return False return True class CopySingleCellAction(qt.QAction): """QAction to copy text from a single cell in a modified :class:`QTableWidget`. This action relies on the fact that the text in the last clicked cell are stored in :attr:`_last_cell_clicked` of the modified widget. In most cases, :class:`CopySelectedCellsAction` handles single cells, but if the selection mode of the widget has been set to NoSelection it is necessary to use this class instead. :param table: :class:`QTableView` to which this action belongs. """ def __init__(self, table): if not isinstance(table, qt.QTableView): raise ValueError('CopySingleCellAction must be initialised ' + 'with a QTableWidget.') super(CopySingleCellAction, self).__init__(table) self.setText("Copy cell") self.setToolTip("Copy cell content into the clipboard.") self.triggered.connect(self.copyCellToClipboard) self.table = table def copyCellToClipboard(self): """ """ cell_text = self.table._text_last_cell_clicked if cell_text is None: return # put this text into clipboard qapp = qt.QApplication.instance() qapp.clipboard().setText(cell_text) class TableWidget(qt.QTableWidget): """:class:`QTableWidget` with a context menu displaying up to 5 actions: - :class:`CopySelectedCellsAction` - :class:`CopyAllCellsAction` - :class:`CutSelectedCellsAction` - :class:`CutAllCellsAction` - :class:`PasteCellsAction` These actions interact with the clipboard and can be used to copy data to or from an external application, or another widget. The cut and paste actions are disabled by default, due to the risk of overwriting data (no *Undo* action is available). Use :meth:`enablePaste` and :meth:`enableCut` to activate them. .. image:: img/TableWidget.png :param parent: Parent QWidget :param bool cut: Enable cut action :param bool paste: Enable paste action """ def __init__(self, parent=None, cut=False, paste=False): super(TableWidget, self).__init__(parent) self._text_last_cell_clicked = None self.copySelectedCellsAction = CopySelectedCellsAction(self) self.copyAllCellsAction = CopyAllCellsAction(self) self.copySingleCellAction = None self.pasteCellsAction = None self.cutSelectedCellsAction = None self.cutAllCellsAction = None self.addAction(self.copySelectedCellsAction) self.addAction(self.copyAllCellsAction) if cut: self.enableCut() if paste: self.enablePaste() self.setContextMenuPolicy(qt.Qt.ActionsContextMenu) def mousePressEvent(self, event): item = self.itemAt(event.pos()) if item is not None: self._text_last_cell_clicked = item.text() super(TableWidget, self).mousePressEvent(event) def enablePaste(self): """Enable paste action, to paste data from the clipboard into the table. .. warning:: This action can cause data to be overwritten. There is currently no *Undo* action to retrieve lost data. """ self.pasteCellsAction = PasteCellsAction(self) self.addAction(self.pasteCellsAction) def enableCut(self): """Enable cut action. .. warning:: This action can cause data to be deleted. There is currently no *Undo* action to retrieve lost data.""" self.cutSelectedCellsAction = CutSelectedCellsAction(self) self.cutAllCellsAction = CutAllCellsAction(self) self.addAction(self.cutSelectedCellsAction) self.addAction(self.cutAllCellsAction) def setSelectionMode(self, mode): """Overloaded from QTableWidget to disable cut/copy selection actions in case mode is NoSelection :param mode: :return: """ if mode == qt.QTableView.NoSelection: self.copySelectedCellsAction.setVisible(False) self.copySelectedCellsAction.setEnabled(False) if self.cutSelectedCellsAction is not None: self.cutSelectedCellsAction.setVisible(False) self.cutSelectedCellsAction.setEnabled(False) if self.copySingleCellAction is None: self.copySingleCellAction = CopySingleCellAction(self) self.insertAction(self.copySelectedCellsAction, # before first action self.copySingleCellAction) self.copySingleCellAction.setVisible(True) self.copySingleCellAction.setEnabled(True) else: self.copySelectedCellsAction.setVisible(True) self.copySelectedCellsAction.setEnabled(True) if self.cutSelectedCellsAction is not None: self.cutSelectedCellsAction.setVisible(True) self.cutSelectedCellsAction.setEnabled(True) if self.copySingleCellAction is not None: self.copySingleCellAction.setVisible(False) self.copySingleCellAction.setEnabled(False) super(TableWidget, self).setSelectionMode(mode) class TableView(qt.QTableView): """:class:`QTableView` with a context menu displaying up to 5 actions: - :class:`CopySelectedCellsAction` - :class:`CopyAllCellsAction` - :class:`CutSelectedCellsAction` - :class:`CutAllCellsAction` - :class:`PasteCellsAction` These actions interact with the clipboard and can be used to copy data to or from an external application, or another widget. The cut and paste actions are disabled by default, due to the risk of overwriting data (no *Undo* action is available). Use :meth:`enablePaste` and :meth:`enableCut` to activate them. .. note:: These actions will be available only after a model is associated with this view, using :meth:`setModel`. :param parent: Parent QWidget :param bool cut: Enable cut action :param bool paste: Enable paste action """ def __init__(self, parent=None, cut=False, paste=False): super(TableView, self).__init__(parent) self._text_last_cell_clicked = None self.cut = cut self.paste = paste self.copySelectedCellsAction = None self.copyAllCellsAction = None self.copySingleCellAction = None self.pasteCellsAction = None self.cutSelectedCellsAction = None self.cutAllCellsAction = None def mousePressEvent(self, event): qindex = self.indexAt(event.pos()) if self.copyAllCellsAction is not None: # model was set self._text_last_cell_clicked = self.model().data(qindex) super(TableView, self).mousePressEvent(event) def setModel(self, model): """Set the data model for the table view, activate the actions and the context menu. :param model: :class:`qt.QAbstractItemModel` object """ super(TableView, self).setModel(model) self.copySelectedCellsAction = CopySelectedCellsAction(self) self.copyAllCellsAction = CopyAllCellsAction(self) self.addAction(self.copySelectedCellsAction) self.addAction(self.copyAllCellsAction) if self.cut: self.enableCut() if self.paste: self.enablePaste() self.setContextMenuPolicy(qt.Qt.ActionsContextMenu) def enablePaste(self): """Enable paste action, to paste data from the clipboard into the table. .. warning:: This action can cause data to be overwritten. There is currently no *Undo* action to retrieve lost data. """ self.pasteCellsAction = PasteCellsAction(self) self.addAction(self.pasteCellsAction) def enableCut(self): """Enable cut action. .. warning:: This action can cause data to be deleted. There is currently no *Undo* action to retrieve lost data. """ self.cutSelectedCellsAction = CutSelectedCellsAction(self) self.cutAllCellsAction = CutAllCellsAction(self) self.addAction(self.cutSelectedCellsAction) self.addAction(self.cutAllCellsAction) def addAction(self, action): # ensure the actions are not added multiple times: # compare action type and parent widget with those of existing actions for existing_action in self.actions(): if type(action) == type(existing_action): if hasattr(action, "table") and\ action.table is existing_action.table: return None super(TableView, self).addAction(action) def setSelectionMode(self, mode): """Overloaded from QTableView to disable cut/copy selection actions in case mode is NoSelection :param mode: :return: """ if mode == qt.QTableView.NoSelection: self.copySelectedCellsAction.setVisible(False) self.copySelectedCellsAction.setEnabled(False) if self.cutSelectedCellsAction is not None: self.cutSelectedCellsAction.setVisible(False) self.cutSelectedCellsAction.setEnabled(False) if self.copySingleCellAction is None: self.copySingleCellAction = CopySingleCellAction(self) self.insertAction(self.copySelectedCellsAction, # before first action self.copySingleCellAction) self.copySingleCellAction.setVisible(True) self.copySingleCellAction.setEnabled(True) else: self.copySelectedCellsAction.setVisible(True) self.copySelectedCellsAction.setEnabled(True) if self.cutSelectedCellsAction is not None: self.cutSelectedCellsAction.setVisible(True) self.cutSelectedCellsAction.setEnabled(True) if self.copySingleCellAction is not None: self.copySingleCellAction.setVisible(False) self.copySingleCellAction.setEnabled(False) super(TableView, self).setSelectionMode(mode) if __name__ == "__main__": app = qt.QApplication([]) tablewidget = TableWidget() tablewidget.setWindowTitle("TableWidget") tablewidget.setColumnCount(10) tablewidget.setRowCount(7) tablewidget.enableCut() tablewidget.enablePaste() tablewidget.show() tableview = TableView(cut=True, paste=True) tableview.setWindowTitle("TableView") model = qt.QStandardItemModel() model.setColumnCount(10) model.setRowCount(7) tableview.setModel(model) tableview.show() app.exec_() silx-0.6.1/silx/gui/widgets/setup.py0000644023630100076410000000325013202530306020056 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "11/10/2016" from numpy.distutils.misc_util import Configuration def configuration(parent_package='', top_path=None): config = Configuration('widgets', parent_package, top_path) config.add_subpackage('test') return config if __name__ == "__main__": from numpy.distutils.core import setup setup(configuration=configuration) silx-0.6.1/silx/gui/widgets/PrintGeometryDialog.py0000644023630100076410000002057713202530432022661 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ from silx.gui import qt from silx.gui.widgets.FloatEdit import FloatEdit class PrintGeometryWidget(qt.QWidget): """Widget to specify the size and aspect ratio of an item before sending it to the print preview dialog. Use methods :meth:`setPrintGeometry` and :meth:`getPrintGeometry` to interact with the widget. """ def __init__(self, parent=None): super(PrintGeometryWidget, self).__init__(parent) self.mainLayout = qt.QGridLayout(self) self.mainLayout.setContentsMargins(0, 0, 0, 0) self.mainLayout.setSpacing(2) hbox = qt.QWidget() hboxLayout = qt.QHBoxLayout(hbox) hboxLayout.setContentsMargins(0, 0, 0, 0) hboxLayout.setSpacing(2) label = qt.QLabel(self) label.setText("Units") label.setAlignment(qt.Qt.AlignCenter) self._pageButton = qt.QRadioButton() self._pageButton.setText("Page") self._inchButton = qt.QRadioButton() self._inchButton.setText("Inches") self._cmButton = qt.QRadioButton() self._cmButton.setText("Centimeters") self._buttonGroup = qt.QButtonGroup(self) self._buttonGroup.addButton(self._pageButton) self._buttonGroup.addButton(self._inchButton) self._buttonGroup.addButton(self._cmButton) self._buttonGroup.setExclusive(True) # units self.mainLayout.addWidget(label, 0, 0, 1, 4) hboxLayout.addWidget(self._pageButton) hboxLayout.addWidget(self._inchButton) hboxLayout.addWidget(self._cmButton) self.mainLayout.addWidget(hbox, 1, 0, 1, 4) self._pageButton.setChecked(True) # xOffset label = qt.QLabel(self) label.setText("X Offset:") self.mainLayout.addWidget(label, 2, 0) self._xOffset = FloatEdit(self, 0.1) self.mainLayout.addWidget(self._xOffset, 2, 1) # yOffset label = qt.QLabel(self) label.setText("Y Offset:") self.mainLayout.addWidget(label, 2, 2) self._yOffset = FloatEdit(self, 0.1) self.mainLayout.addWidget(self._yOffset, 2, 3) # width label = qt.QLabel(self) label.setText("Width:") self.mainLayout.addWidget(label, 3, 0) self._width = FloatEdit(self, 0.9) self.mainLayout.addWidget(self._width, 3, 1) # height label = qt.QLabel(self) label.setText("Height:") self.mainLayout.addWidget(label, 3, 2) self._height = FloatEdit(self, 0.9) self.mainLayout.addWidget(self._height, 3, 3) # aspect ratio self._aspect = qt.QCheckBox(self) self._aspect.setText("Keep screen aspect ratio") self._aspect.setChecked(True) self.mainLayout.addWidget(self._aspect, 4, 1, 1, 2) def getPrintGeometry(self): """Return the print geometry dictionary. See :meth:`setPrintGeometry` for documentation about the print geometry dictionary.""" ddict = {} if self._inchButton.isChecked(): ddict['units'] = "inches" elif self._cmButton.isChecked(): ddict['units'] = "centimeters" else: ddict['units'] = "page" ddict['xOffset'] = self._xOffset.value() ddict['yOffset'] = self._yOffset.value() ddict['width'] = self._width.value() ddict['height'] = self._height.value() if self._aspect.isChecked(): ddict['keepAspectRatio'] = True else: ddict['keepAspectRatio'] = False return ddict def setPrintGeometry(self, geometry=None): """Set the print geometry. The geometry parameters must be provided as a dictionary with the following keys: - *"xOffset"* (float) - *"yOffset"* (float) - *"width"* (float) - *"height"* (float) - *"units"*: possible values *"page", "inch", "cm"* - *"keepAspectRatio"*: *True* or *False* If *units* is *"page"*, the values should be floats in [0, 1.] and are interpreted as a fraction of the page width or height. :param dict geometry: Geometry parameters, as a dictionary.""" if geometry is None: geometry = {} oldDict = self.getPrintGeometry() for key in ["units", "xOffset", "yOffset", "width", "height", "keepAspectRatio"]: geometry[key] = geometry.get(key, oldDict[key]) if geometry['units'].lower().startswith("inc"): self._inchButton.setChecked(True) elif geometry['units'].lower().startswith("c"): self._cmButton.setChecked(True) else: self._pageButton.setChecked(True) self._xOffset.setText("%s" % float(geometry['xOffset'])) self._yOffset.setText("%s" % float(geometry['yOffset'])) self._width.setText("%s" % float(geometry['width'])) self._height.setText("%s" % float(geometry['height'])) if geometry['keepAspectRatio']: self._aspect.setChecked(True) else: self._aspect.setChecked(False) class PrintGeometryDialog(qt.QDialog): """Dialog embedding a :class:`PrintGeometryWidget`. Use methods :meth:`setPrintGeometry` and :meth:`getPrintGeometry` to interact with the widget. Execute method :meth:`exec_` to run the dialog. The return value of that method is *True* if the geometry was set (*Ok* button clicked) or *False* if the user clicked the *Cancel* button. """ def __init__(self, parent=None): qt.QDialog.__init__(self, parent) self.setWindowTitle("Set print size preferences") layout = qt.QVBoxLayout(self) layout.setContentsMargins(0, 0, 0, 0) layout.setSpacing(0) self.configurationWidget = PrintGeometryWidget(self) hbox = qt.QWidget(self) hboxLayout = qt.QHBoxLayout(hbox) self.okButton = qt.QPushButton(hbox) self.okButton.setText("Accept") self.okButton.setAutoDefault(False) self.rejectButton = qt.QPushButton(hbox) self.rejectButton.setText("Dismiss") self.rejectButton.setAutoDefault(False) self.okButton.clicked.connect(self.accept) self.rejectButton.clicked.connect(self.reject) hboxLayout.setContentsMargins(0, 0, 0, 0) hboxLayout.setSpacing(2) # hboxLayout.addWidget(qt.HorizontalSpacer(hbox)) hboxLayout.addWidget(self.okButton) hboxLayout.addWidget(self.rejectButton) # hboxLayout.addWidget(qt.HorizontalSpacer(hbox)) layout.addWidget(self.configurationWidget) layout.addWidget(hbox) def setPrintGeometry(self, geometry): """Return the print geometry dictionary. See :meth:`PrintGeometryWidget.setPrintGeometry` for documentation on print geometry dictionary. :param dict geometry: Print geometry parameters dictionary. """ self.configurationWidget.setPrintGeometry(geometry) def getPrintGeometry(self): """Return the print geometry dictionary. See :meth:`PrintGeometryWidget.setPrintGeometry` for documentation on print geometry dictionary.""" return self.configurationWidget.getPrintGeometry() silx-0.6.1/silx/gui/hdf5/0000755023630100076410000000000013202537043015531 5ustar knobelusers00000000000000silx-0.6.1/silx/gui/hdf5/NexusSortFilterProxyModel.py0000644023630100076410000001274013202530432023245 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "16/06/2017" import logging import re import numpy from .. import qt from .Hdf5TreeModel import Hdf5TreeModel _logger = logging.getLogger(__name__) try: import h5py except ImportError as e: _logger.error("Module %s requires h5py", __name__) raise e _logger = logging.getLogger(__name__) class NexusSortFilterProxyModel(qt.QSortFilterProxyModel): """Try to sort items according to Nexus structure. Else sort by name.""" def __init__(self, parent=None): qt.QSortFilterProxyModel.__init__(self, parent) self.__split = re.compile("(\\d+|\\D+)") def lessThan(self, sourceLeft, sourceRight): """Returns True if the value of the item referred to by the given index `sourceLeft` is less than the value of the item referred to by the given index `sourceRight`, otherwise returns false. :param qt.QModelIndex sourceLeft: :param qt.QModelIndex sourceRight: :rtype: bool """ if sourceLeft.column() != Hdf5TreeModel.NAME_COLUMN: return super(NexusSortFilterProxyModel, self).lessThan( sourceLeft, sourceRight) # Do not sort child of root (files) if sourceLeft.parent() == qt.QModelIndex(): return sourceLeft.row() < sourceRight.row() left = self.sourceModel().data(sourceLeft, Hdf5TreeModel.H5PY_ITEM_ROLE) right = self.sourceModel().data(sourceRight, Hdf5TreeModel.H5PY_ITEM_ROLE) if self.__isNXentry(left) and self.__isNXentry(right): less = self.childDatasetLessThan(left, right, "start_time") if less is not None: return less less = self.childDatasetLessThan(left, right, "end_time") if less is not None: return less left = self.sourceModel().data(sourceLeft, qt.Qt.DisplayRole) right = self.sourceModel().data(sourceRight, qt.Qt.DisplayRole) return self.nameLessThan(left, right) def __isNXentry(self, node): """Returns true if the node is an NXentry""" class_ = node.h5pyClass if class_ is None or not issubclass(node.h5pyClass, h5py.Group): return False nxClass = node.obj.attrs.get("NX_class", None) return nxClass == "NXentry" def getWordsAndNumbers(self, name): """ Returns a list of words and integers composing the name. An input `"aaa10bbb50.30"` will return `["aaa", 10, "bbb", 50, ".", 30]`. :param str name: A name :rtype: list """ words = self.__split.findall(name) result = [] for i in words: if i[0].isdigit(): i = int(i) result.append(i) return result def nameLessThan(self, left, right): """Returns True if the left string is less than the right string. Number composing the names are compared as integers, as result "name2" is smaller than "name10". :param str left: A string :param str right: A string :rtype: bool """ leftList = self.getWordsAndNumbers(left) rightList = self.getWordsAndNumbers(right) try: return leftList < rightList except TypeError: # Back to string comparison if list are not type consistent return left < right def childDatasetLessThan(self, left, right, childName): """ Reach the same children name of two items and compare their values. Returns True if the left one is smaller than the right one. :param Hdf5Item left: An item :param Hdf5Item right: An item :param str childName: Name of the children to search. Returns None if the children is not found. :rtype: bool """ try: left_time = left.obj[childName][()] right_time = right.obj[childName][()] if isinstance(left_time, numpy.ndarray): return left_time[0] < right_time[0] return left_time < right_time except KeyboardInterrupt: raise except Exception as e: _logger.debug("Exception occurred", exc_info=True) return None silx-0.6.1/silx/gui/hdf5/Hdf5TreeModel.py0000644023630100076410000005143113202530432020471 0ustar knobelusers00000000000000# coding: utf-8 # /*########################################################################## # # Copyright (c) 2016-2017 European Synchrotron Radiation Facility # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN # THE SOFTWARE. # # ###########################################################################*/ __authors__ = ["V. Valls"] __license__ = "MIT" __date__ = "22/09/2017" import os import logging from .. import qt from .. import icons from .Hdf5Node import Hdf5Node from .Hdf5Item import Hdf5Item from .Hdf5LoadingItem import Hdf5LoadingItem from . import _utils from ... import io as silx_io _logger = logging.getLogger(__name__) """Helpers to take care of None objects as signal parameters. PySide crash if a signal with a None parameter is emitted between threads. """ if qt.BINDING == 'PySide': class _NoneWraper(object): pass _NoneWraperInstance = _NoneWraper() def _wrapNone(x): """Wrap x if it is a None value, else returns x""" if x is None: return _NoneWraperInstance else: return x def _unwrapNone(x): """Unwrap x as a None if a None was stored by `wrapNone`, else returns x""" if x is _NoneWraperInstance: return None else: return x else: # Allow to fix None event params to avoid PySide crashes def _wrapNone(x): return x def _unwrapNone(x): return x def _createRootLabel(h5obj): """ Create label for the very first npde of the tree. :param h5obj: The h5py object to display in the GUI :type h5obj: h5py-like object :rtpye: str """ if silx_io.is_file(h5obj): label = os.path.basename(h5obj.filename) else: filename = os.path.basename(h5obj.file.filename) path = h5obj.name if path.startswith("/"): path = path[1:] label = "%s::%s" % (filename, path) return label class LoadingItemRunnable(qt.QRunnable): """Runner to process item loading from a file""" class __Signals(qt.QObject): """Signal holder""" itemReady = qt.Signal(object, object, object) runnerFinished = qt.Signal(object) def __init__(self, filename, item): """Constructor :param LoadingItemWorker worker: Object holding data and signals """ super(LoadingItemRunnable, self).__init__() self.filename = filename self.oldItem = item self.signals = self.__Signals() def setFile(self, filename, item): self.filenames.append((filename, item)) @property def itemReady(self): return self.signals.itemReady @property def runnerFinished(self): return self.signals.runnerFinished def __loadItemTree(self, oldItem, h5obj): """Create an item tree used by the GUI from an h5py object. :param Hdf5Node oldItem: The current item displayed the GUI :param h5py.File h5obj: The h5py object to display in the GUI :rtpye: Hdf5Node """ text = _createRootLabel(h5obj) item = Hdf5Item(text=text, obj=h5obj, parent=oldItem.parent, populateAll=True) return item @qt.Slot() def run(self): """Process the file loading. The worker is used as holder of the data and the signal. The result is sent as a signal. """ h5file = None try: h5file = silx_io.open(self.filename) newItem = self.__loadItemTree(self.oldItem, h5file) error = None except IOError as e: # Should be logged error = e newItem = None if h5file is not None: h5file.close() # Take care of None value in case of PySide newItem = _wrapNone(newItem) error = _wrapNone(error) self.itemReady.emit(self.oldItem, newItem, error) self.runnerFinished.emit(self) def autoDelete(self): return True class Hdf5TreeModel(qt.QAbstractItemModel): """Tree model storing a list of :class:`h5py.File` like objects. The main column display the :class:`h5py.File` list and there hierarchy. Other columns display information on node hierarchy. """ H5PY_ITEM_ROLE = qt.Qt.UserRole """Role to reach h5py item from an item index""" H5PY_OBJECT_ROLE = qt.Qt.UserRole + 1 """Role to reach h5py object from an item index""" USER_ROLE = qt.Qt.UserRole + 2 """Start of range of available user role for derivative models""" NAME_COLUMN = 0 """Column id containing HDF5 node names""" TYPE_COLUMN = 1 """Column id containing HDF5 dataset types""" SHAPE_COLUMN = 2 """Column id containing HDF5 dataset shapes""" VALUE_COLUMN = 3 """Column id containing HDF5 dataset values""" DESCRIPTION_COLUMN = 4 """Column id containing HDF5 node description/title/message""" NODE_COLUMN = 5 """Column id containing HDF5 node type""" LINK_COLUMN = 6 """Column id containing HDF5 link type""" COLUMN_IDS = [ NAME_COLUMN, TYPE_COLUMN, SHAPE_COLUMN, VALUE_COLUMN, DESCRIPTION_COLUMN, NODE_COLUMN, LINK_COLUMN, ] """List of logical columns available""" def __init__(self, parent=None): super(Hdf5TreeModel, self).__init__(parent) self.header_labels = [None] * len(self.COLUMN_IDS) self.header_labels[self.NAME_COLUMN] = 'Name' self.header_labels[self.TYPE_COLUMN] = 'Type' self.header_labels[self.SHAPE_COLUMN] = 'Shape' self.header_labels[self.VALUE_COLUMN] = 'Value' self.header_labels[self.DESCRIPTION_COLUMN] = 'Description' self.header_labels[self.NODE_COLUMN] = 'Node' self.header_labels[self.LINK_COLUMN] = 'Link' # Create items self.__root = Hdf5Node() self.__fileDropEnabled = True self.__fileMoveEnabled = True self.__animatedIcon = icons.getWaitIcon() self.__animatedIcon.iconChanged.connect(self.__updateLoadingItems) self.__runnerSet = set([]) # store used icons to avoid the cache to release it self.__icons = [] self.__icons.append(icons.getQIcon("item-none")) self.__icons.append(icons.getQIcon("item-0dim")) self.__icons.append(icons.getQIcon("item-1dim")) self.__icons.append(icons.getQIcon("item-2dim")) self.__icons.append(icons.getQIcon("item-3dim")) self.__icons.append(icons.getQIcon("item-ndim")) self.__openedFiles = [] """Store the list of files opened by the model itself.""" # FIXME: It should managed one by one by Hdf5Item itself def __del__(self): self._closeOpened() s = super(Hdf5TreeModel, self) if hasattr(s, "__del__"): # else it fail on Python 3 s.__del__() def _closeOpened(self): """Close files which was opened by this model. This function may be removed in the future. File are opened by the model when it was inserted using `insertFileAsync`, `insertFile`, `appendFile`.""" for h5file in self.__openedFiles: h5file.close() self.__openedFiles = [] def __updateLoadingItems(self, icon): for i in range(self.__root.childCount()): item = self.__root.child(i) if isinstance(item, Hdf5LoadingItem): index1 = self.index(i, 0, qt.QModelIndex()) index2 = self.index(i, self.columnCount() - 1, qt.QModelIndex()) self.dataChanged.emit(index1, index2) def __itemReady(self, oldItem, newItem, error): """Called at the end of a concurent file loading, when the loading item is ready. AN error is defined if an exception occured when loading the newItem . :param Hdf5Node oldItem: current displayed item :param Hdf5Node newItem: item loaded, or None if error is defined :param Exception error: An exception, or None if newItem is defined """ # Take care of None value in case of PySide newItem = _unwrapNone(newItem) error = _unwrapNone(error) row = self.__root.indexOfChild(oldItem) rootIndex = qt.QModelIndex() self.beginRemoveRows(rootIndex, row, row) self.__root.removeChildAtIndex(row) self.endRemoveRows() if newItem is not None: self.__openedFiles.append(newItem.obj) self.beginInsertRows(rootIndex, row, row) self.__root.insertChild(row, newItem) self.endInsertRows() # FIXME the error must be displayed def isFileDropEnabled(self): return self.__fileDropEnabled def setFileDropEnabled(self, enabled): self.__fileDropEnabled = enabled fileDropEnabled = qt.Property(bool, isFileDropEnabled, setFileDropEnabled) """Property to enable/disable file dropping in the model.""" def isFileMoveEnabled(self): return self.__fileMoveEnabled def setFileMoveEnabled(self, enabled): self.__fileMoveEnabled = enabled fileMoveEnabled = qt.Property(bool, isFileMoveEnabled, setFileMoveEnabled) """Property to enable/disable drag-and-drop of files to change the ordering in the model.""" def supportedDropActions(self): if self.__fileMoveEnabled or self.__fileDropEnabled: return qt.Qt.CopyAction | qt.Qt.MoveAction else: return 0 def mimeTypes(self): if self.__fileMoveEnabled: return [_utils.Hdf5NodeMimeData.MIME_TYPE] else: return [] def mimeData(self, indexes): """ Returns an object that contains serialized items of data corresponding to the list of indexes specified. :param list(qt.QModelIndex) indexes: List of indexes :rtype: qt.QMimeData """ if not self.__fileMoveEnabled or len(indexes) == 0: return None indexes = [i for i in indexes if i.column() == 0] if len(indexes) > 1: raise NotImplementedError("Drag of multi rows is not implemented") if len(indexes) == 0: raise NotImplementedError("Drag of cell is not implemented") node = self.nodeFromIndex(indexes[0]) mimeData = _utils.Hdf5NodeMimeData(node) return mimeData def flags(self, index): defaultFlags = qt.QAbstractItemModel.flags(self, index) if index.isValid(): node = self.nodeFromIndex(index) if self.__fileMoveEnabled and node.parent is self.__root: # that's a root return qt.Qt.ItemIsDragEnabled | defaultFlags return defaultFlags elif self.__fileDropEnabled or self.__fileMoveEnabled: return qt.Qt.ItemIsDropEnabled | defaultFlags else: return defaultFlags def dropMimeData(self, mimedata, action, row, column, parentIndex): if action == qt.Qt.IgnoreAction: return True if self.__fileMoveEnabled and mimedata.hasFormat(_utils.Hdf5NodeMimeData.MIME_TYPE): dragNode = mimedata.node() parentNode = self.nodeFromIndex(parentIndex) if parentNode is not dragNode.parent: return False if row == -1: # append to the parent row = parentNode.childCount() else: # insert at row pass dragNodeParent = dragNode.parent sourceRow = dragNodeParent.indexOfChild(dragNode) self.moveRow(parentIndex, sourceRow, parentIndex, row) return True if self.__fileDropEnabled and mimedata.hasFormat("text/uri-list"): parentNode = self.nodeFromIndex(parentIndex) if parentNode is not self.__root: while(parentNode is not self.__root): node = parentNode parentNode = node.parent row = parentNode.indexOfChild(node) else: if row == -1: row = self.__root.childCount() messages = [] for url in mimedata.urls(): try: self.insertFileAsync(url.toLocalFile(), row) row += 1 except IOError as e: messages.append(e.args[0]) if len(messages) > 0: title = "Error occurred when loading files" message = "%s: