bioperl (1.7.8-1) unstable; urgency=medium * Team Upload. * New upstream version 1.7.8 * Remove d/p/FTlineParsingHickups.patch: merged upstream * Bump debhelper-compat version to 13 * Declare compliance with policy 4.5.1 * Add d/salsa-ci.yml -- Nilesh Patra Sun, 15 Aug 2021 18:26:03 +0530 bioperl (1.7.7-2) unstable; urgency=medium * Prepared patch to parse current feature table layout * d/control: updated standard to 4.5, added R-R-R: no -- Steffen Moeller Wed, 28 Oct 2020 18:49:40 +0100 bioperl (1.7.7-1) unstable; urgency=medium * Team upload. * New upstream release. -- Michael R. Crusoe Sat, 14 Dec 2019 22:48:17 +0100 bioperl (1.7.6-3) unstable; urgency=medium * Team upload. * Really fix the breaks+replaces for libbio-perl-run-perl (Closes: #921495) -- Michael R. Crusoe Thu, 28 Nov 2019 13:06:59 +0100 bioperl (1.7.6-2) unstable; urgency=medium * Team upload. * Add breaks: roary <= 3.12.0+dfsg-2 -- Michael R. Crusoe Wed, 27 Nov 2019 11:48:16 +0100 bioperl (1.7.6-1) unstable; urgency=medium * Team upload. * Fix autopkgtests: Don't run the `use.t` autopkgtest, there is no longer a Bio::Perl module scripts/ → bin/ No Build.PL anymore, skip it * Add missing colon in closes line. * Set fields Upstream-Name, Upstream-Contact in debian/copyright. * Set upstream metadata fields: Repository-Browse. * Remove obsolete fields Name, Contact from debian/upstream/metadata. * New upstream release. * No longer conflicts with libbio-perl-run-perl (Closes: #921495) * Fixed some spelling typos -- Michael R. Crusoe Tue, 26 Nov 2019 11:22:39 +0100 bioperl (1.7.5-1) unstable; urgency=medium * New upstream version * Packaged with routine-update script * debhelper-compat 12 * Standards-Version: 4.4.0 -- Steffen Moeller Sat, 27 Jul 2019 17:55:00 +0200 bioperl (1.7.4-1) unstable; urgency=medium * New upstream version * Drop broken uversionmangle from watch file * debhelper 12 * Standards-Version: 4.3.0 * Build-Depends: libyaml-perl, libtest-requiresinternet-perl * Drop manual renaming and permission fixes which are not needed any more * More fixes to Perl path in examples -- Andreas Tille Tue, 05 Feb 2019 22:17:53 +0100 bioperl (1.7.2-3) unstable; urgency=medium * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * Remove trailing whitespace in debian/changelog * Remove trailing whitespace in debian/copyright * Remove trailing whitespace in debian/rules * Fix Perl interpreter path * Fix URL for source download -- Andreas Tille Sun, 28 Oct 2018 00:46:56 +0200 bioperl (1.7.2-2) unstable; urgency=medium * Team upload [ gregor herrmann ] * Fix autopkgtests. The smoke tests need a `perl Build.PL' beforehand. And we need some additional files for some tests. (Closes: #871727) * debian/control: move libmodule-build-perl to Build-Depends from Build- Depends-Indep. It is needed during clean. [ Andreas Tille ] * Standards-Version: 4.1.2 * Secure URI in watch file -- gregor herrmann Wed, 13 Dec 2017 21:59:15 +0100 bioperl (1.7.2-1) unstable; urgency=medium * New upstream version * Standards-Version: 4.1.1 -- Andreas Tille Sun, 03 Dec 2017 18:55:57 +0100 bioperl (1.7.1-3) unstable; urgency=medium * Team upload [ Carnë Draug ] * Declare missing dependency on libtest-most-perl used by Bio::Root::Test [ Andreas Tille ] * Build-Depends: rename Closes: #873745 * Standards-Version: 4.1.0 (no changes needed) -- Carnë Draug Wed, 30 Aug 2017 14:56:14 +0100 bioperl (1.7.1-2) unstable; urgency=medium [ gregor herrmann ] * Add debian/tests/pkg-perl/use-name to fix an autopkgtest failure * Add t/Perl.t and t/Species.t to debian/tests/pkg-perl/smoke-skip -- Andreas Tille Sun, 15 Jan 2017 08:50:21 +0100 bioperl (1.7.1-1) unstable; urgency=medium [ Charles Plessy ] * New upstream release. Closes: #846579 * debian/patches deleted (applied upstream). * debian/docs: correct name of README file. * debian/control: Use secure VCS browser URL. [ Andreas Tille ] * d/watch: uversionmangle to get proper version number * debhelper 10 -- Andreas Tille Mon, 05 Dec 2016 22:05:08 +0100 bioperl (1.6.924-5) unstable; urgency=medium * Testsuite: autopkgtest-pkg-perl * Move packaging from SVN to Git -- Andreas Tille Wed, 29 Jun 2016 09:20:14 +0200 bioperl (1.6.924-4) unstable; urgency=medium * cme fix dpkg-control (Needed several manual postprocessing since cme has the habit to move comments to the end of a section) * Fix FTBFS with Perl 5.24 by applying upstream patch Closes: #825429 * Remove unused paragraph in d/copyright -- Andreas Tille Sun, 05 Jun 2016 08:50:03 +0200 bioperl (1.6.924-3) unstable; urgency=medium * Fix FTBFS with perl 5.22 Closes: #796259 * Standards-Version: 3.9.6 -- Andreas Tille Thu, 20 Aug 2015 23:11:32 +0200 bioperl (1.6.924-2) unstable; urgency=medium * d/control: add perl-modules for perl 5.22 transition (Closes: #790305). -- Olivier Sallou Mon, 29 Jun 2015 09:05:22 +0200 bioperl (1.6.924-1) unstable; urgency=medium * New upstream release. -- Charles Plessy Sun, 13 Jul 2014 19:16:01 +0900 bioperl (1.6.923-1) unstable; urgency=medium * New upstream release. * Does not need non-free libmath-random-perl anymore. * Build-depend on libmodule-build-perl (>= 0.420000). Despite Lintian's warning that it is useless, the package does not build without. * Conforms to Policy version 3.9.5. -- Charles Plessy Sat, 18 Jan 2014 11:41:11 +0900 bioperl (1.6.922-1) unstable; urgency=low * New upstream release. * Replaces and Breaks grinder (<< 0.5.3-3~) because of overlaping contents. Closes: #722910 * Stop Replacing and Breaking bioperl ( << 1.6.9 ): not needed anymore. -- Charles Plessy Sun, 22 Sep 2013 13:39:48 +0900 bioperl (1.6.920-1) unstable; urgency=low * New upstream release (Closes: #720776) * Adjusted Depends and Recommends (4 additions). * Removed patch ‘fix_berkeleydb3_temp_file_creation’ applied upstream. * Use canonical VCS URLs. -- Charles Plessy Sun, 08 Sep 2013 20:56:00 +0900 bioperl (1.6.901-4) unstable; urgency=low * debian/upstream: Add additional citation data [ Olivier Sallou ] * add missing dependency * Switch to standards 3.9.4 -- Andreas Tille Tue, 08 May 2012 23:06:09 +0200 bioperl (1.6.901-3) unstable; urgency=low * Team upload. [ Olivier Sallou ] + add patch fix_berkeleydb3_temp_file_creation (Closes: #661793). Fixed upstream for next release. * debian/control: update Standards version * debian/copyright: update Format to latest officiel URL v1.0 * debian/patches/fix_examples_perl_location: fix wrong perl location * debian/rules: fix file access rights in dh_install -- Olivier Sallou Fri, 02 Mar 2012 11:10:36 +0100 bioperl (1.6.901-2) unstable; urgency=low [ Luca Capello ] * debian/control: + add Recommends: to some libraries already in libbio-perl-perl's for binaries showing help output (Closes: #650412). * debian/README.Debian: + new file with a more detailed explanation about the above. [ Andreas Tille ] * debian/source/format: 3.0 (quilt) * Added myself to Uploaders -- Andreas Tille Wed, 14 Dec 2011 09:11:41 +0100 bioperl (1.6.901-1) unstable; urgency=low * New upstream release. * Point debian/watch to search.cpan.org. * Build using dh and overrides: - Use Debhelper 8 (debian/rules, debian/control). - Simplified debian/rules. * Split into libbio-perl-perl, as discussed with the Debian Perl team. (debian/control, debian/bioperl.install, debian libbio-perl-perl.install) * debian/control: - Incremented Standards-Version to reflect conformance with Policy 3.9.2. No other changes needed. - Vcs-Browser URL made redirectable to viewvc. - Removed useless ‘svn’ in the Vcs-Svn URL. -- Charles Plessy Fri, 17 Jun 2011 13:51:18 +0900 bioperl (1.6.1-2) unstable; urgency=low * Removed bibliographic information from the long description (debian/control). * Incremented Standards-Version to reflect conformance with Policy 3.8.4 (debian/control, no changes needed). * Build-depends on libxml-sax-expatxs-perl to avoid downloading DTDs during the tests and therefore fail when network is not available (debian/control, Closes: #562442). * Depend on the ${misc:Depends} substvar (debian/control). -- Charles Plessy Fri, 26 Feb 2010 23:52:23 +0900 bioperl (1.6.1-1) unstable; urgency=low * New upstream release with new features and many corrections in the test suite (Closes: #533976). * debian/rules: trigger network tests with DEB_MAINTAINER_MODE. * debian/control: - Build-depend on perl-modules >= 5.10.1 to have ExtUtils::Manifest 1.52 or higher, and on libtest-pod-perl. - Added liblist-moreutils-perl, libspreadsheet-writeexcel-perl, libsvg-perl, and libxml-simple-perl, libdbd-pg-perl, libdbd-mysql-perl, libdbd-sqlite3-perl to build and package dependencies (needed by some components of Bioperl, and therefore for the tests). -- Charles Plessy Wed, 30 Sep 2009 18:56:42 +0900 bioperl (1.6.0-3) unstable; urgency=low [ David Paleino ] * Removed myself from Uploaders [ Charles Plessy ] * debian/control: - Added libdata-stag-perl in bioperl’s Depends field, since it is required in Build.PL. - Added libxml-simple-perl in bioperl’s Recommends and Build-Depends fields, since they are listed in DEPENDENCIES. - Incremented Standards-Version to reflect conformance with Policy 3.8.3 (no changes needed). * Collected some informations in debian/upstream-metadata.yaml. -- Charles Plessy Fri, 18 Sep 2009 20:23:51 +0900 bioperl (1.6.0-2) unstable; urgency=low * Removed patch system (not used): - removed instructions in debian/rules; - removed quilt from Build-Depends in debian/control. * Re-enabled tests: - uncommented test command in debian/rules; - uncommented previously missing build-dependencies in debian/control. - Re-enabled tests and uncommented build-dependencies accordingly. * Removed libmodule-build-perl and libtest-harness-perl from Build-Depends-Indep (provided by perl-modules). * Better cleaning of empty directories using find -type d -empty -delete instead of rmdir in debian/rules (LP: #324001). -- Charles Plessy Tue, 10 Mar 2009 07:19:11 +0100 bioperl (1.6.0-1) experimental; urgency=low [ Charles Plessy ] * debian/control - Updated dependencies according to the new upstream release. - Added the CPAN dependencies of BioPerl to Build-Depends-Indep in order to run the tests at build time. - Added bioperl-run to the recommended packages. - Updated my email address. - Uses Debhelper 7 (debian/compat modified accordingly). * debian/patches: removed as not needed (no downloads by default). * debian/rules: - Uses Build.PL instead of Makefile.PL. - Tests disabled for the experimental upload: not all dependencies are available yet. * debian/README.{Debian,source}: removed as not needed anymore * debian/watch: BioPerl is now mixed case. [ David Paleino ] * New upstream stable release: - fixes Bio::AlignIO::next_aln bug (Closes: #266921). - New modules, deprecated modules,… please consult Upstream documents in /usr/share/doc/bioperl. * debian/control: - fields values rewrapped to easily spot diffs in commit mails - dropped B-D-I versioning on perl, since Etch already has a greater version - Standards-Version bumped to 3.8.0 (no changes needed). -- Charles Plessy Mon, 26 Jan 2009 12:58:28 +0900 bioperl (1.5.2.102-3) unstable; urgency=low * debian/control: - Removed MIA Matt Hope (dopey) from the Uploaders field. Thank you for your work, Matt. I hope you are doing well. - Downgraded some recommended package to the 'Suggests' priority, according to the following discussion on Upstream's mail list. http://bioperl.org/pipermail/bioperl-l/2008-March/027379.html (Closes: #448890) * debian/copyright converted to machine-readable format. -- Charles Plessy Tue, 18 Mar 2008 14:44:57 +0900 bioperl (1.5.2.102-2) unstable; urgency=low [ Steffen Moeller ] * Added reference to libsvg-graph-perl (Closes: #342475). [ Nelson A. de Oliveira ] * debian/control: - Removed the XS- prefix from Vcs-Browser and Vcs-Svn - Moved debhelper and quilt from Build-Depends-Indep to Build-Depends * Updated debian/copyright [ David Paleino ] * debian/control: - updated Recommends (libpostscript-textblock-perl won't exist - the package will be named libpostscript-perl) - fields wrapped at around 80 columns - added myself to Uploaders - added libio-string-perl to Build-Depends-Indep (Closes: #453923) - fixed Vcs-* fields - removed XS- from DM-Upload-Allowed * debian/changelog: - fixing incorrect first line (leading tab) * debian/rules updated * debian/dirs removed (passing arguments to dh_installdirs directly) -- David Paleino Wed, 06 Feb 2008 12:01:15 +0100 bioperl (1.5.2.102-1) unstable; urgency=low * Developer release. * Upgraded source package to debhelper 5 and standards-version 3.7.2. * Added libmodule-build-perl and libtest-harness-perl to build-depends-indep. * Disabled automatic CPAN download. * Using quilt instead of .diff.gz to manage modifications. * Updated Recommends list for the binary package. * Moved the "production-quality" scripts to /usr/bin/. * New maintainer: Debian-Med packaging team mailing list. * New uploaders: Charles Plessy and Steffen Moeller. * Updated Depends, Recommends and Suggests. * Imported in Debian-Med's SVN repository on Alioth. * Executing the regression tests during package building. * Moved the Homepage: field out from the package's description. * Updated watch file. -- Charles Plessy Fri, 21 Sep 2007 22:52:22 +0900 bioperl (1.4-1) unstable; urgency=low * New upstream release * Examples and working code are installed by default to usr/bin, this has been moved to usr/share/doc/bioperl/bin -- Matt Hope Sun, 18 Apr 2004 14:24:11 +1000 bioperl (1.2.1-2) unstable; urgency=low * Updated dependencies to libgd-gd2-perl (Closes: Bug#192210) * Same maintainer, different email address -- Matt Hope Mon, 30 Jun 2003 23:40:59 +1000 bioperl (1.2.1-1) unstable; urgency=low * New upstream release * Added more Depends/Recommends. * Added Depend: libio-string-perl (Closes: Bug#188395) -- Matt Hope Sat, 3 May 2003 01:21:54 +1000 bioperl (1.2-1) unstable; urgency=low * New upstream release -- Matt Hope Fri, 25 Apr 2003 12:30:10 +1000 bioperl (1.0.2-1) unstable; urgency=low * *Another* new upstream release. -- Matt Hope Wed, 17 Jul 2002 09:58:09 +1000 bioperl (1.0.1-1) unstable; urgency=low * New upstream release -- Matt Hope Sat, 29 Jun 2002 22:35:08 +1000 bioperl (1.0-1) unstable; urgency=low * New upstream release -- Matt Hope Wed, 20 Mar 2002 01:16:30 +1100 bioperl (0.7.2-1) unstable; urgency=low * New upstream release. * Adopted by new maintainer; closes: #100208 * Fixed lintian errors. -- Matt Hope Thu, 22 Nov 2001 19:31:26 +1100 bioperl (0.7.1-1) unstable; urgency=low * Maintainer set to Debian QA Group . * New upstream release. -- Adrian Bunk Fri, 24 Aug 2001 20:47:57 +0200 bioperl (0.7.0-1) unstable; urgency=low * New upstream release; closes: #44245 -- Dr. Guenter Bechly Sat, 5 May 2001 18:35:44 +0200 bioperl (0.05.1-3) unstable; urgency=low * Fixed compliance with perl policy; closes: #95880, #95418 -- Dr. Guenter Bechly Tue, 1 May 2001 08:13:09 +0200 bioperl (0.05.1-2) unstable; urgency=low * Adopted by new maintainer; closes: #92806 * Updated to latest standards version and added Build-Depends (changed control, copyright, dirs, docs, and rules); closes: #70154, #91121, #91397 * Fixed some lintian errors in rules. * Moved package to section non-free/science, because it is a tool that is exclusively useful for molecular biologists. -- Dr. Guenter Bechly Fri, 20 Apr 2001 19:48:05 +0200 bioperl (0.05.1-1) unstable; urgency=low * Complies with the new Perl policy. Closes: #40564 * New upstream release -- Stephane Bortzmeyer Wed, 7 Jul 1999 14:49:16 +0200 bioperl (0.05-1) unstable; urgency=low * Initial Release. -- Stephane Bortzmeyer Wed, 19 May 1999 11:35:30 +0200