debian/0000755000000000000000000000000012162071015007161 5ustar debian/source/0000755000000000000000000000000012162071015010461 5ustar debian/source/format0000644000000000000000000000001412162071015011667 0ustar 3.0 (quilt) debian/watch0000644000000000000000000000012412162071015010207 0ustar version=3 http://alioth.debian.org/frs/?group_id=30954 .*/pymvpa_([\d\.]+)\.tar\.gz debian/patches/0000755000000000000000000000000012162071015010610 5ustar debian/patches/series0000644000000000000000000000034012162071015012022 0ustar changeset_4be557bb1eb31576555ada8943f2aad6e7e3e54c.diff changeset_7bf401c28a238e57769dd70b5c95587175bac8ce.diff changeset_87b628ec2a8912aec15a278c7b9563f6a13b569d.diff changeset_fc4b20124c3914ec21cfbfc19db1db0932975a57.diff debian/patches/changeset_7bf401c28a238e57769dd70b5c95587175bac8ce.diff0000644000000000000000000000113212162071015021063 0ustar From: Yaroslav Halchenko Subject: BF(TST): minor incompatibility with numpy 1.7 -- change of exception from RuntimeError to ValueError for R/O assignments --- a/mvpa/tests/test_neighbor.py +++ b/mvpa/tests/test_neighbor.py @@ -58,7 +58,7 @@ class MetricTests(unittest.TestCase): metric.elementsize[1] = 1 self.fail( msg="We should not be able to reassign parts of elementsize") - except RuntimeError: + except (ValueError, RuntimeError): pass self.failUnless((metric.getNeighbors([2, 2], 2.6) == debian/patches/changeset_4be557bb1eb31576555ada8943f2aad6e7e3e54c.diff0000644000000000000000000000135212162071015021267 0ustar From: Felix Geyer Subject: BF: compare floating arrays with almost_equal. Closes #713056 --- a/mvpa/tests/test_transformers.py +++ b/mvpa/tests/test_transformers.py @@ -10,6 +10,7 @@ import unittest import numpy as N +from numpy.testing import assert_array_almost_equal from mvpa.base import externals @@ -77,7 +78,7 @@ class TransformerTests(unittest.TestCase for axis in [None, 0, 1, 2]: oversum = OverAxis(N.sum, axis=axis)(data) sum_ = N.sum(data, axis=axis) - self.failUnless(N.all(sum_ == oversum)) + assert_array_almost_equal(sum_, oversum) # Transformer which doesn't modify dimensionality of the data data = data.reshape((6, -1)) debian/patches/changeset_fc4b20124c3914ec21cfbfc19db1db0932975a57.diff0000644000000000000000000000227412162071015021171 0ustar From: Yaroslav Halchenko Subject: BF: use inheritance_diagram provided by sphinx on recent sphinx. Closes: #706534 --- a/doc/conf.py +++ b/doc/conf.py @@ -11,6 +11,8 @@ # All configuration values have a default value; values that are commented out # serve to show the default value. +from distutils.version import LooseVersion + import sys, os, re import numpy as N import mvpa @@ -21,6 +23,8 @@ try: except: pass +import sphinx + ################################################## # Config settings are at the bottom of the file! # ################################################## @@ -270,8 +274,12 @@ sys.path.append(os.path.abspath('sphinxe # Add any Sphinx extension module names here, as strings. They can be extensions # coming with Sphinx (named 'sphinx.ext.*') or your custom ones. + +# Use shipped inheritance_diagram on older sphinx'es +id_space = "sphinx.ext." if LooseVersion(sphinx.__version__) >= '1.1.3' else "" + extensions = ['sphinx.ext.autodoc', - 'inheritance_diagram'] + id_space + 'inheritance_diagram'] # Add any paths that contain templates here, relative to this directory. templates_path = ['_templates'] debian/patches/changeset_87b628ec2a8912aec15a278c7b9563f6a13b569d.diff0000644000000000000000000000171312162071015021063 0ustar From: Yaroslav Halchenko Subject: BF: numpy 1.7 -- np.where indexes might be read-only, thus operate on a copy then --- a/mvpa/featsel/base.py +++ b/mvpa/featsel/base.py @@ -10,6 +10,8 @@ __docformat__ = 'restructuredtext' +import numpy as np + from mvpa.featsel.helpers import FractionTailSelector from mvpa.misc.state import StateVariable, ClassWithCollections @@ -137,7 +139,12 @@ class SensitivityBasedFeatureSelection(F results = (wdataset, wtestdataset) # WARNING: THIS MUST BE THE LAST THING TO DO ON selected_ids - selected_ids.sort() + if not selected_ids.flags.writeable: + # With numpy 1.7 sometimes it returns R/O arrays... not clear yet why. + # Dirty fix: work on a copy + selected_ids = np.sort(selected_ids) + else: + selected_ids.sort() self.selected_ids = selected_ids # dataset with selected features is returned debian/changelog0000644000000000000000000002423212162071015011036 0ustar pymvpa (0.4.8-3) unstable; urgency=low [ Felix Geyer ] * patches/changeset_4be557bb1eb31576555ada8943f2aad6e7e3e54c.diff do not rely on identical FP results in a testOverAxis (Closes: #713056) [ Yaroslav Halchenko ] * patches/changeset_87b628ec2a8912aec15a278c7b9563f6a13b569d.diff numpy 1.7 -- np.where indexes might be read-only, thus operate on a copy * patches/changeset_fc4b20124c3914ec21cfbfc19db1db0932975a57.diff use inheritance_diagram provided by sphinx on recent sphinx. Closes: #706534 -- Yaroslav Halchenko Mon, 24 Jun 2013 12:20:49 -0400 pymvpa (0.4.8-2) unstable; urgency=low [ Andreas Tille ] * debian/upstream: - Use UTF-8 string in "Author" field because BibTeX is also UTF-8 aware but tasks pages rendering is not TeX-syntax enabled - add eprint [ Yaroslav Halchenko ] * debian/patches/changeset_7bf401c28a238e57769dd70b5c95587175bac8ce.diff - numpy 1.7.x compatibility in tests -- Yaroslav Halchenko Fri, 07 Jun 2013 09:15:19 -0400 pymvpa (0.4.8-1) unstable; urgency=low * Upstream bugfix release: - Fixes compatibility with libsvm 3.10 and shogun >= 1.0 (Closes: #655643) (Thanks Jakub Wilk for report and Colin Watson for the tentative patch) * Bump Standards-Version to 3.9.3 -- no changes are due * Removed not needed XS-DM-Upload-Allowed * Removed shogun-python-modular from Build-Depends due to its uninstallability * set -e for every loop to FTBFS upon errors (Closes: #655649) (Thanks Jakub again) * Added debian/upstream with a publication reference * Adjusted debian/copyright: DEP-5 compliance, removed bibtex reference * Added a call to dh_numpy (where present) to provide numpy-abi depends -- Yaroslav Halchenko Mon, 23 Apr 2012 23:19:48 -0400 pymvpa (0.4.7-2) unstable; urgency=low * Few fixes absorbed from upstream: - [d16ca22] BF: compatible with libsvm 3.10 -- assure present stab for svm_destroy_model - [9d1dc0c] RF: use build_ext --inplace instead of adhoc symlinking of extensions - [ec89d77] BF: omitting stuck ncf distribution in scipy 0.9.0 -- Yaroslav Halchenko Tue, 12 Apr 2011 20:12:01 -0400 pymvpa (0.4.7-1) unstable; urgency=low * Upstream bugfix release: NIfTI scaling issue -- Yaroslav Halchenko Mon, 07 Mar 2011 14:01:35 -0500 pymvpa (0.4.6-1) unstable; urgency=low * Upstream bugfix release: - Compatible with libsvm 3.0 (Closes: #608844) * Exclude objects.inv from being compressed (Closes: #608765) -- Yaroslav Halchenko Tue, 01 Feb 2011 13:34:24 -0500 pymvpa (0.4.5-1) experimental; urgency=low * Upstream bugfix release -- just few bugfixes since 0.4.5~dev23-2 * Bump Standards-Version to 3.9.1 -- no changes are due * Adjusted debian/copyright to comply with rev135 of DEP5 * Switched to 3.0 (quilt) source format (no patches are needed ATM) -- Yaroslav Halchenko Mon, 27 Sep 2010 12:38:28 -0400 pymvpa (0.4.5~dev23-2) unstable; urgency=low * Build-Depend on python-numpy providing numpy-ext (Closes: #589587). Thanks Jakub Wilk for keeping us in a good shape ;) * Updated years for the copyrights for upstream and packaging parts * Bump Standards-Version to 3.9.0: - include entire text of BSD-3 for shipped (but not used) libsvm -- Yaroslav Halchenko Mon, 26 Jul 2010 23:40:39 -0400 pymvpa (0.4.5~dev23-1) unstable; urgency=low * New upstream pre-release snapshot. Includes few enhancements and fixes: - Compatible with libsvm >= 2.91 (Closes: #583018) - No string exceptions raised - Setting of shrinking parameter in sg.svm interface - Deducing number of SVs for SVR (libsvm) - Correction of significance in the tails of non-parametric tests * debian/control - Moving under umbrella of NeuroDebian Team -- Yaroslav Halchenko Mon, 07 Jun 2010 12:08:57 -0400 pymvpa (0.4.4-1) unstable; urgency=low * New upstream release. * Dropping building of entire doc collection -- from now only HTML versions of documents gets shipped within -doc. That lightens -doc package and quickens package building (unneeded build-depends got dropped: texlive, texlive-latex-extra) * Adding shogun-python-modular into Build-Depends since it is needed for documentation inheritance_diagram extension. * Bump Standards-Version to 3.8.4 -- no changes necessary. * Updated suggests for new naming of openopt package, fixed spelling error in short description of -doc package. * Dropped patching of upstream Makefile to don't build 3rd party code, now control is done via variable PYMVPA_NO_3RD. -- Yaroslav Halchenko Mon, 01 Feb 2010 20:51:42 -0500 pymvpa (0.4.3-2) unstable; urgency=low [ Sandro Tosi ] * Drop Python 2.4; thanks to Luca Falavigna for the report and to Jakub Wilk for the patch (Closes: #562482) - debian/control + bump b-d on python-all-dev to '>= 2.5' + drop python-ctypes + drop explicit Depends on python: we use ${python:Depends} - debian/pyversions + bump it to '+2.5-' [ Yaroslav Halchenko ] * debian/control - Thanks Sandro Tosi for NMU attempt to fix #560606. - Build-Conflict on python-epydoc=3.0.1-4: this version works incorrectly with python-docutils 0.6 (thanks to Lucas Nussbaum for the report). Also Build-Depends on python-docutils (<< 0.6) | python-docutils (>= 0.6-3~) which would assure that we still can build on lenny or with fresh docutils which pull in fresh epydoc (thanks to Jakub Wilk for suggestion). Those 2 steps fix the FTBFS (Closes: #560606) - Added python-mvpa-doc to suggests. * Cherry pick 2 commits from maint/0.4 branch to be compatible with recent versions of shogun-python-modular present in sid/squeeze. -- Yaroslav Halchenko Tue, 12 Jan 2010 17:55:55 -0500 pymvpa (0.4.3-1) unstable; urgency=low * New upstream release. * Bump Standards-Version to 3.8.3 -- no changes necessary. * Maintainer field points to ExpPsy Maintainers now. * Recommend python-reportlab. * Added python-nose, python-nifti, python-lxml to Build-depends. -- Yaroslav Halchenko Fri, 04 Sep 2009 16:18:54 -0400 pymvpa (0.4.2-1) unstable; urgency=low [ Michael Hanke ] * New upstream release. * Removing the circular dependency between python-mvpa and python-mvpa-lib (Closes: #519129). * Improve long description of python-mvpa-lib and turn it into complete sentences, as recommended by the developers reference 6.2.3 (Closes: #521332). * Bump Standards-Version to 3.8.1 -- no changes necessary. * Added dependency on python to the python-mvpa package to satisfy lintian. * Added rsync as build-dependency, which is required for building the docs. * The package now honors 'nodoc' in DEB_BUILD_OPTIONS. This is intended to help backporting to releases with insufficient python-sphinx versions. * Added 'graphviz' as a build-dependency (necessary for Sphinx' inheritance graphs). [ Yaroslav Halchenko ] * Compatible with cdbs >= 0.4.54 (use of DEB_PYTHON_MODULE_PACKAGES) and recent pysupport (>=0.9). * Run unittests for each supported python version during build. -- Michael Hanke Mon, 25 May 2009 11:21:39 +0200 pymvpa (0.4.1-1) unstable; urgency=low [ Michael Hanke ] * New upstream release. * Added missing ${misc:Depends} to debian/control. * The package now honors 'nocheck' in DEB_BUILD_OPTIONS. * Speed-up of package build process by preventing the docs from being built twice. * Added 'DM-Upload-Allowed: yes' to enable DM upload. * Install new manpages and add build-dep. to help2man. * Updated debian/copyright. * Imported various bugfixes from the upstream VCS that were pushed into the 0.4 maintenance branch since the release of 0.4.1. [ Yaroslav Halchenko ] * Adjusted long descriptions. * Split libraries (low-level SMLR implementation and LIBSVM custom Python bindings) into a separate python-mvpa-lib package. That allows python-mvpa package to become architecture independent. -- Michael Hanke Sat, 21 Feb 2009 14:07:55 +0100 pymvpa (0.4.0-1) unstable; urgency=low * New upstream release. * Running a subset of the unittests during package build (only tests not requiring a huge amount of cpu-time or memory. -- Michael Hanke Wed, 19 Nov 2008 03:30:53 +0100 pymvpa (0.3.1-1) unstable; urgency=low * New upstream release. * Added dependency to ctypes for python 2.4. -- Michael Hanke Sun, 14 Sep 2008 13:53:31 +0200 pymvpa (0.3.0-1) unstable; urgency=low * New upstream release. * Added python-pywt as recommended package. * Using jquery.js from corresponding Debian package. -- Michael Hanke Sun, 17 Aug 2008 20:56:26 +0200 pymvpa (0.2.2-1) unstable; urgency=low * New upstream maintenance release (missed 0.2.1). This release contains a minimal copy of LIBSVM. The Debian package does not build it, but makes use of the corresponding Debian package. * Shrink Debian diff and move the enabling of LIBSVM into debian/rules. * Convert debian/copyright into machine readable format. * Bump Standards-Version to 3.8.0 -- no changes necessary. * Adjusted list of recommended and suggested packages to the new capabilities of PyMVPA, i.e. add SciPy, MDP, Shogun and Matplotlib. -- Michael Hanke Thu, 03 Jul 2008 10:04:40 +0200 pymvpa (0.2.0-1) unstable; urgency=low * New upstream release. * Added build-dependency to python-ctypes for a new classifier extension. * Added watch file. * Move from python-docutils to python-sphinx for building the package docs. * Disable libsvm setting check and add setup.cfg to permanently enable building the libsvm wrapper for Debian. -- Michael Hanke Thu, 29 May 2008 08:13:14 +0200 pymvpa (0.1.0-1) unstable; urgency=low * Initial release (Closes: #466556). -- Michael Hanke Tue, 19 Feb 2008 16:10:05 +0100 debian/pyversions0000644000000000000000000000000512162071015011320 0ustar 2.5- debian/copyright0000644000000000000000000000771512162071015011126 0ustar Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0 Upstream-Name: PyMVPA Upstream-Contact: pkg-exppsy-pymvpa@lists.alioth.debian.org Source: http://github.com/PyMVPA/PyMVPA Files: * Copyright: 2006-2012, Michael Hanke 2007-2012, Yaroslav Halchenko 2007-2009, Per B. Sederberg 2008, Emanuele Olivetti License: Expat Files: debian/* Copyright: Copyright 2006-2010, Michael Hanke Yaroslav Halchenko License: Expat Files: 3rd/libsvm/* Copyright: 2000-2007, Chih-Chung Chang and Chih-Jen Lin License: BSD-3 The source tarball contains a partial copy of the LIBSVM package. However, the corresponding library is available from the libsvm source package (or rather the binary packages it builds). Therefore this code is not used and the respective packages are used as dependencies. This copy of the libsvm code is, however, left in place, as it does not hurt and does not justify repackaging of the upstream sources. . All rights reserved. . 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. Neither name of copyright holders nor the names of its 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 REGENTS 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. Files: tools/pdfbook.c Copyright: Tigran Aivazian Jaap Eldering Roman Buchert Pierre Francois License: GPL-2 On Debian GNU/Linux systems, the complete text of the GPL-2 License can be found in `/usr/share/common-licenses/GPL-2'. License: Expat 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. debian/python-mvpa.manpages0000644000000000000000000000001412162071015013153 0ustar build/man/* debian/python-mvpa-doc.dirs0000644000000000000000000000001612162071015013066 0ustar usr/share/bib debian/python-mvpa-doc.links0000644000000000000000000000024412162071015013250 0ustar usr/share/javascript/jquery/jquery.js usr/share/doc/python-mvpa-doc/html/_static/jquery.js usr/share/pyshared/mvpa/data usr/share/doc/python-mvpa-doc/examples/data debian/rules0000755000000000000000000000546612162071015010254 0ustar #!/usr/bin/make -f # -*- mode: makefile; coding: utf-8 -*- include /usr/share/cdbs/1/rules/debhelper.mk DEB_PYTHON_SYSTEM = pysupport # for earlier cdbs versions DEB_PYTHON_MODULE_PACKAGE = python-mvpa # for cdbs >= 0.4.54 DEB_PYTHON_MODULE_PACKAGES = python-mvpa python-mvpa-lib include /usr/share/cdbs/1/class/python-distutils.mk # enable the LIBSVM wrapper and disable building provided copy export PYMVPA_NO_3RD=1 DEB_PYTHON_BUILD_ARGS += --with-libsvm DEB_PYTHON_INSTALL_ARGS_ALL += --with-libsvm doc: doc-stamp doc-stamp: ifeq (,$(filter nodoc,$(DEB_BUILD_OPTIONS))) $(MAKE) manpages apidoc htmldoc touch $@ endif clean:: $(MAKE) distclean # run at install otherwise at build it tends to do them twice for some # reason install/python-mvpa:: ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS))) set -e; for buildver in $(cdbs_python_build_versions); do \ echo "I: Running PyMVPA unittests using python$$buildver"; \ cd $(CURDIR) && cd $(DEB_SRCDIR)/build/lib.*-$$buildver && \ ln -s $(CURDIR)/mvpa/data mvpa/ && \ MVPA_TESTS_LOWMEM=yes MVPA_TESTS_QUICK=yes MVPA_TESTS_LABILE=no PYTHONPATH=. \ $(call cdbs_python_binary,python$$buildver) mvpa/tests/main.py && \ rm mvpa/data; \ done endif [ -x /usr/bin/dh_numpy ] && dh_numpy || : build/python-mvpa-doc:: doc # use jquery from Debian package # symlinked by debhelper install/python-mvpa-doc:: -rm build/html/_static/jquery.js install -m 644 ./doc/misc/references.bib debian/python-mvpa-doc/usr/share/bib/pymvpa.bib install/python-mvpa-lib:: # move libraries into the python-mvpa-lib package set -e; for lib in $$(find debian/python-mvpa/usr -name '*.so'); do \ sdir=$$(dirname $$lib) ; \ tdir=debian/python-mvpa-lib/$${sdir#*python-mvpa/} ; \ mkdir -p $$tdir ; \ echo "Moving '$$lib' into '$$tdir'." ; \ mv $$lib $$tdir ; \ done # we need to move libraries away first, hence dependence on -lib # Also without this step, movemodules from pysupport would not # move arch-indep part of the module under pyshared install/python-mvpa:: install/python-mvpa-lib binary-install/python-mvpa-lib:: # assure that there is no mvpa module itself # actually remove everything under ../share/.. since that is provided # by python-mvpa. That prevents e.g. duplicate egg-info files. # rm -rf debian/python-mvpa-lib/usr/share/python-support/python-mvpa-lib/* # install directly into package directory (despite multiple packages) DEB_DESTDIR = $(CURDIR)/debian/python-mvpa # immediately useable documentation # and exemplar data (they are small excerpts anyways) DEB_COMPRESS_EXCLUDE := .py .pdf .html .css .jpg .txt .js .json .rtc .par .bin objects.inv # -doc package contents ifeq (,$(filter nodoc,$(DEB_BUILD_OPTIONS))) DEB_INSTALL_DOCS_python-mvpa-doc := build/html DEB_INSTALL_EXAMPLES_python-mvpa-doc := doc/examples/* endif DEB_INSTALL_DOCS += debian/upstream debian/upstream0000644000000000000000000000076412162071015010753 0ustar Name: pymvpa Reference: - Author: Michael Hanke and Yaroslav O. Halchenko and Per B. Sederberg and Stephen José Hanson and James V. Haxby and Stefan Pollmann Title: 'PyMVPA: A Python toolbox for multivariate pattern analysis of fMRI data' Journal: Neuroinformatics Volume: 7 Number: 1 Pages: 37--53 Year: 2009 URL: http://dx.doi.org/10.1007/s12021-008-9041-y DOI: 10.1007/s12021-008-9041-y PMID: 19184561 eprint: http://haxbylab.dartmouth.edu/publications/HHS+09a.pdf debian/gbp.conf0000644000000000000000000000132712162071015010603 0ustar [DEFAULT] # the default build command: builder = debuild -i'\.(git\.*|gbp.conf|gitignore)' # the default clean command: cleaner = fakeroot debian/rules clean # the default branch for upstream sources: upstream-branch = master # the default branch for the debian patch: debian-branch = dist/debian/proper/sid # the default tag formats used: upstream-tag = upstream/%(version)s debian-tag = debian/%(version)s # Options only affecting git-buildpackage [git-buildpackage] # ignore some any non-gitted files ignore-new = True #upstream-branch = dfsgclean # uncomment this to automatically GPG sign tags sign-tags = True # use this for more svn-buildpackage like bahaviour: export-dir = ../build-area/ tarball-dir = ../tarballs/ debian/pycompat0000644000000000000000000000000212162071015010730 0ustar 2 debian/TODO0000644000000000000000000000002712162071015007650 0ustar Nothing at the moment. debian/control0000644000000000000000000000504312162071015010566 0ustar Source: pymvpa Section: python Priority: optional Maintainer: NeuroDebian Team Uploaders: Michael Hanke , Yaroslav Halchenko Build-Depends: cdbs, debhelper (>= 5.0.38), swig, python-all-dev (>= 2.5), python-support (>= 0.6), python-numpy, libsvm-dev (>= 2.84.0), python-epydoc (>> 2.99), python-docutils (<< 0.6) | python-docutils (>= 0.6-3~), python-sphinx, help2man, rsync, graphviz, python-lxml, python-nifti, python-nose Build-Conflicts: python-epydoc (= 3.0.1-3) Standards-Version: 3.9.3 Homepage: http://www.pymvpa.org Vcs-Browser: http://git.debian.org/?p=pkg-exppsy/pymvpa.git Vcs-Git: git://git.debian.org/git/pkg-exppsy/pymvpa.git Package: python-mvpa Architecture: all Depends: ${misc:Depends}, ${python:Depends}, python-numpy, python-mvpa-lib(>= ${source:Version}) Provides: ${python:Provides} XB-Python-Version: ${python:Versions} Recommends: python-nifti, python-psyco, python-mdp, python-scipy, shogun-python-modular, python-pywt, python-matplotlib, python-reportlab Suggests: fslview, fsl, python-nose, python-lxml, python-openopt, python-rpy, python-mvpa-doc Description: multivariate pattern analysis with Python PyMVPA eases pattern classification analyses of large datasets, with an accent on neuroimaging. It provides high-level abstraction of typical processing steps (e.g. data preparation, classification, feature selection, generalization testing), a number of implementations of some popular algorithms (e.g. kNN, GNB, Ridge Regressions, Sparse Multinomial Logistic Regression), and bindings to external machine learning libraries (libsvm, shogun). . While it is not limited to neuroimaging data (e.g. fMRI, or EEG) it is eminently suited for such datasets. Package: python-mvpa-doc Architecture: all Section: doc Depends: ${misc:Depends}, libjs-jquery Suggests: python-mvpa Description: documentation and examples for PyMVPA PyMVPA documentation in various formats (HTML, TXT) including * User manual * Developer guidelines * API documentation * BibTeX references file . Additionally, all example scripts shipped with the PyMVPA sources are included. Package: python-mvpa-lib Architecture: any Depends: ${misc:Depends}, ${shlibs:Depends}, ${python:Depends}, python-numpy Provides: ${python:Provides} XB-Python-Version: ${python:Versions} Description: low-level implementations and bindings for PyMVPA This is an add-on package for the PyMVPA framework. It provides a low-level implementation of an SMLR classifier and custom Python bindings for the LIBSVM library. debian/compat0000644000000000000000000000000212162071015010357 0ustar 5