debian/0000755000000000000000000000000012222335504007164 5ustar debian/watch0000644000000000000000000000007711777266373010246 0ustar version=3 ftp://rostlab.org/norsnet/norsnet-([0-9.]+)\.tar\.gz debian/rules0000755000000000000000000000053512152434302010245 0ustar #!/usr/bin/make -f # Uncomment this to turn on verbose mode. # DH_VERBOSE=1 .PHONY: override_dh_compress override_dh_compress: dh_compress -Xexamples/cad23.f -Xexamples/cad23-fil.rdbProf -Xexamples/cad23-fil.hssp -Xexamples/cad23.profbval %: dh $@ get-orig-source: mkdir -p ../tarballs uscan --verbose --force-download --destdir=../tarballs debian/changelog0000644000000000000000000000413612222335420011037 0ustar norsnet (1.0.17-1) unstable; urgency=low * New upstream release. * Upstream fixes "FTBFS: POD errors" (Closes: #724159). -- Laszlo Kajan Mon, 30 Sep 2013 19:51:06 +0200 norsnet (1.0.16-1) unstable; urgency=low [ Christian Mertes ] * Packaged for Debian (Closes: #681108) -- Laszlo Kajan Tue, 14 Aug 2012 13:44:17 +0200 norsnet (1.0.10) stable; urgency=low * warning when pp-popcon is not installed -- Laszlo Kajan Mon, 28 Feb 2011 18:08:50 +0100 norsnet (1.0.9) stable; urgency=low * bugzilla link corrected * pp-popularity-contest -- Laszlo Kajan Fri, 18 Feb 2011 16:56:41 +0100 norsnet (1.0.8) stable; urgency=low * createDataFile.pl too restrictive regexp bug fixed -- Laszlo Kajan Thu, 13 Jan 2011 15:10:44 +0100 norsnet (1.0.7-1) stable; urgency=low * New upstream release -- Laszlo Kajan Wed, 30 Jun 2010 13:29:07 +0200 norsnet (1.0.7) * Silence in non-debug mode - correctly this time -- Laszlo Kajan Wed, 30 Jun 2010 13:07:02 +0200 norsnet (1.0.6) * Silence in non-debug mode -- Laszlo Kajan Thu, 17 Jun 2010 20:32:58 +0200 norsnet (1.0.5) * Example without gzip * Output mode 1 documented -- Laszlo Kajan Thu, 17 Jun 2010 12:38:03 +0200 norsnet (1.0.4) * Fixed __pkgdatadir__ paths -- Laszlo Kajan Tue, 16 Mar 2010 17:55:41 +0100 norsnet (1.0.3) * Fixed version, this actually produces results * Now calls profnet_norsnet and not profnet_bval * Fixed mode 6 issue - there is only mode 1, 2 and 3 * Introduced automake + autoconf -- Laszlo Kajan Tue, 16 Mar 2010 17:55:41 +0100 norsnet (1.0.2) * Minor revision. -- Guy Yachdav Thu, 10 Dec 2009 22:57:15 +0100 norsnet (1.0.1) * Minor revision. -- Guy Yachdav Thu, 10 Dec 2009 22:40:15 +0100 norsnet (1.0.0) * Initial version. -- Guy Yachdav Thu, 10 Dec 2009 22:32:15 +0100 debian/upstream0000644000000000000000000000100011777534246010760 0ustar Name: norsnet Reference: - Author: Avner Schlessinger and Jinfeng Liu and Burkhard Rost Title: 'Natively unstructured loops differ from other loops.' Journal: PLoS Comput Biol. Volume: 3 Pages: e140 Year: 2007 URL: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.0030140 eprint: http://www.ploscompbiol.org/article/fetchObjectAttachment.action?uri=info%3Adoi%2F10.1371%2Fjournal.pcbi.0030140&representation=PDF PMID: 17658943 DOI: 10.1371/journal.pcbi.0030140 debian/control0000644000000000000000000000265212222335476010604 0ustar Source: norsnet Section: science Priority: extra Maintainer: Debian Med Packaging Team Uploaders: Christian Mertes , Laszlo Kajan Build-Depends: debhelper (>= 8) Standards-Version: 3.9.4 Homepage: https://www.rostlab.org/owiki/index.php/Norsnet Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/norsnet/trunk/ Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/norsnet/trunk/ Package: norsnet Architecture: all Depends: ${shlibs:Depends}, ${misc:Depends}, profnet-norsnet Recommends: blast2, librg-utils-perl, pp-popularity-contest, profphd, profbval Description: tool to identify unstructured loops in proteins NORSnet can distinguish between very long contiguous segments with non-regular secondary structure (NORS regions) and well-folded proteins. . NORSnet was trained on predicted information rather than on experimental data. This allows NORSnet to reach into regions in sequence space that are not covered by specialized disorder predictors. One disadvantage of this approach is that it is not optimal for the identification of the "average" disordered region. . NORSnet takes the following input, further described on norsnet(1): * a protein sequence in a FASTA file * secondary structure and solvent accessibility prediction by prof(1) * an HSSP file * flexible/rigid residues prediction by profbval(1) debian/compat0000644000000000000000000000000211777042242010372 0ustar 8 debian/README.source0000644000000000000000000000036311777601600011354 0ustar norsnet for Debian ================== Uncompressed examples --------------------- dh_compress excludes examples that appear on the man page. This is in order to allow the example to work as it is pasted on the command like from the man page. debian/copyright0000644000000000000000000000460312010456332011120 0ustar Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: norsnet Upstream-Contact: A. Schlessinger Source: ftp://rostlab.org/norsnet/ Files: examples/cad23-fil.rdbProf Copyright: Burkhard Rost, CUBIC NYC / LION Heidelberg License: GPL-2.0+ Comment: License is not indicated in this file, only copyright. Therefore the license here is that of the producing program 'profphd'. Files: debian/* Copyright: 2009 Guy Yachdav 2012 Laszlo Kajan 2012 Christian Mertes License: GPL-3+ Files: * Copyright: 2007 Avner Schlessinger 2007 Jinfeng Liu 2007 Burkhard Rost License: GPL-3+ License: GPL-2.0+ This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 2 of the License, or (at your option) any later version. . This package is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. . You should have received a copy of the GNU General Public License along with this program. If not, see . . On Debian systems, the complete text of the GNU General Public License version 2 can be found in "/usr/share/common-licenses/GPL-2". License: GPL-3+ This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version. . This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULA PURPOSE. See the GNU General Public License for mor details. . You should have received a copy of the GNU General Public License along with this package; if not, write to the Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA . On Debian systems, the full text of the GNU General Public License version 3 can be found in the file `/usr/share/common-licenses/GPL-3'. debian/source/0000755000000000000000000000000012222335503010463 5ustar debian/source/format0000644000000000000000000000001411777042242011702 0ustar 3.0 (quilt)