diff -Nru kalign-2.03+20110620/debian/changelog kalign-2.03+20110620/debian/changelog --- kalign-2.03+20110620/debian/changelog 2012-04-30 23:38:40.000000000 +0000 +++ kalign-2.03+20110620/debian/changelog 2012-04-03 11:12:24.000000000 +0000 @@ -1,3 +1,23 @@ +kalign (1:2.03+20110620-2) unstable; urgency=low + + [ Charles Plessy ] + * renamed debian/upstream-metadata.yaml to debian/upstream + + [ Andreas Tille ] + * debian/upstream: + - Added another citation from tasks file + - Fixed Homepage + * debian/source/format: 3.0 (quilt) + * debian/watch: Fixed hint to download URL + * debian/control: + - Fixed Homepage + - Standards-Version: 3.9.3 (no changes needed) + * debian/copyright: Fixed DEP5 issues and verified using + cme fix dpkg-copyright + * debhelper 9 (control+compat) + + -- Andreas Tille Thu, 29 Mar 2012 15:28:43 +0200 + kalign (1:2.03+20110620-1) unstable; urgency=low * New upstream release. diff -Nru kalign-2.03+20110620/debian/compat kalign-2.03+20110620/debian/compat --- kalign-2.03+20110620/debian/compat 2012-04-30 23:38:40.000000000 +0000 +++ kalign-2.03+20110620/debian/compat 2012-04-03 11:12:28.000000000 +0000 @@ -1 +1 @@ -8 +9 diff -Nru kalign-2.03+20110620/debian/control kalign-2.03+20110620/debian/control --- kalign-2.03+20110620/debian/control 2012-04-30 23:38:40.000000000 +0000 +++ kalign-2.03+20110620/debian/control 2012-04-03 11:12:35.000000000 +0000 @@ -5,11 +5,11 @@ DM-Upload-Allowed: yes Uploaders: Charles Plessy , Andreas Tille -Build-Depends: debhelper (>= 8) -Standards-Version: 3.9.2 +Build-Depends: debhelper (>= 9) +Standards-Version: 3.9.3 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/kalign/trunk/ Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/kalign/trunk/ -Homepage: http://msa.cgb.ki.se +Homepage: http://msa.sbc.su.se/ Package: kalign Architecture: any diff -Nru kalign-2.03+20110620/debian/copyright kalign-2.03+20110620/debian/copyright --- kalign-2.03+20110620/debian/copyright 2012-04-30 23:38:40.000000000 +0000 +++ kalign-2.03+20110620/debian/copyright 2012-04-03 11:10:07.000000000 +0000 @@ -1,8 +1,24 @@ -Format: http://dep.debian.net/deps/dep5/ +Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: Kalign +Upstream-Contact: Oliver Frings Source: http://msa.cgb.ki.se/downloads/kalign/current.tar.gz -Files : * +Files: * Copyright: © 2004–2008 Timo Lassmann + © 2008-2011 Timo Lassmann , + Oliver Frings +License: GPL-2+ + +Files: debian/* +Copyright: © 2006–2011 Charles Plessy + © 2008 David Paleino + © 2008-2012 Andreas Tille +License: GPL-2+ + +Files: debian/kalign.1* +Copyright: © 2006–2009 Charles Plessy +License: GPL-2+ + License: GPL-2+ This package is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by @@ -17,29 +33,7 @@ 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 -Comment: On Debian systems, the complete text of the GNU General Public + . + On Debian systems, the complete text of the GNU General Public License version 2 can be found in ‘/usr/share/common-licenses/GPL-2’. -Files: COPYING -Copyright: © 1989, 1991 Free Software Foundation, Inc. -License: no-change - Everyone is permitted to copy and distribute verbatim copies - of this license document, but changing it is not allowed. - -Files: configure -Copyright: © 2003 Free Software Foundation, Inc. -License: unlimited-permission - This configure script is free software; the Free Software Foundation - gives unlimited permission to copy, distribute and modify it. - -Files: debian/* -Copyright: © 2006–2011 Charles Plessy - © 2008 David Paleino - © 2008 Andreas Tille -Licence: as-public-domain. - The packaging work is in the public domain unless stated otherwise. - -Files: debian/kalign.1* -Copyright: © 2006–2009 Charles Plessy -License: same-as-kalign. - (See above) diff -Nru kalign-2.03+20110620/debian/source/format kalign-2.03+20110620/debian/source/format --- kalign-2.03+20110620/debian/source/format 1970-01-01 00:00:00.000000000 +0000 +++ kalign-2.03+20110620/debian/source/format 2012-04-30 23:38:41.000000000 +0000 @@ -0,0 +1 @@ +3.0 (quilt) diff -Nru kalign-2.03+20110620/debian/upstream kalign-2.03+20110620/debian/upstream --- kalign-2.03+20110620/debian/upstream 1970-01-01 00:00:00.000000000 +0000 +++ kalign-2.03+20110620/debian/upstream 2012-04-03 11:00:28.000000000 +0000 @@ -0,0 +1,26 @@ +Contact: Timo Lassmann +Name: Kalign +Homepage: http://msa.sbc.su.se/ +Reference: + - Author: Lassmann, Timo and Frings, Oliver and Sonnhammer, Erik L. L. + Title: "Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features" + Journal: Nucl. Acids Res. + Volume: 37 + Number: 3 + Pages: 858-865 + Year: 2009 + DOI: 10.1093/nar/gkn1006 + PMID: 19103665 + URL: http://nar.oxfordjournals.org/cgi/content/abstract/37/3/858 + - Authors: Lassmann, Timo and Sonnhammer, Erik L. L. + Title: Kalign--an accurate and fast multiple sequence alignment algorithm + Journal: BMC Bioinformatics + Volume: 6 + Number: 1 + Pages: 298 + Year: 2005 + DOI: 10.1186/1471-2105-6-298 + PMID: 16343337 + URL: http://www.biomedcentral.com/1471-2105/6/298 + eprint: http://www.biomedcentral.com/content/pdf/1471-2105-6-298.pdf +Watch: NA diff -Nru kalign-2.03+20110620/debian/upstream-metadata.yaml kalign-2.03+20110620/debian/upstream-metadata.yaml --- kalign-2.03+20110620/debian/upstream-metadata.yaml 2012-04-30 23:38:40.000000000 +0000 +++ kalign-2.03+20110620/debian/upstream-metadata.yaml 1970-01-01 00:00:00.000000000 +0000 @@ -1,15 +0,0 @@ -Contact: Timo Lassmann -DOI: 10.1093/nar/gkn1006 -Name: Kalign -Homepage: http://msa.cgb.ki.se -PMID: 19103665 -Reference: - Author: Lassmann, Timo and Frings, Oliver and Sonnhammer, Erik L. L. - Journal: Nucl. Acids Res. - Number: 3 - Pages: 858-865 - Title: Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features - URL: http://nar.oxfordjournals.org/cgi/content/abstract/37/3/858 - Volume: 37 - Year: 2009 -Watch: NA diff -Nru kalign-2.03+20110620/debian/watch kalign-2.03+20110620/debian/watch --- kalign-2.03+20110620/debian/watch 2012-04-30 23:38:40.000000000 +0000 +++ kalign-2.03+20110620/debian/watch 2012-04-03 09:58:17.000000000 +0000 @@ -1,3 +1,3 @@ -# There is no more version number: http://msa.cgb.ki.se/downloads/kalign/current.tar.gz +# There is no more version number: http://msa.sbc.su.se/downloads/kalign/current.tar.gz #version=3 #http://msa.cgb.ki.se/downloads/ kalign-?(\d).(\d+).tgz