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 <nilesh@debian.org> 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 <moeller@debian.org> Wed, 28 Oct 2020 18:49:40 +0100
bioperl (1.7.7-1) unstable; urgency=medium
* Team upload.
* New upstream release.
-- Michael R. Crusoe <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <moeller@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <gregoa@debian.org> 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 <tille@debian.org> 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 <carandraug+dev@gmail.com> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <osallou@debian.org> Mon, 29 Jun 2015 09:05:22 +0200
bioperl (1.6.924-1) unstable; urgency=medium
* New upstream release.
-- Charles Plessy <plessy@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <tille@debian.org> 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 <osallou@debian.org> 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 <tille@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <plessy@debian.org> 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 <charles-debian-nospam@plessy.org> 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 <d.paleino@gmail.com> 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 <charles-debian-nospam@plessy.org> 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 <matth@bioinformatics.unsw.edu.au> 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 <matth@bioinformatics.unsw.edu.au> 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 <dopey@debian.org> Sat, 3 May 2003 01:21:54 +1000
bioperl (1.2-1) unstable; urgency=low
* New upstream release
-- Matt Hope <dopey@debian.org> Fri, 25 Apr 2003 12:30:10 +1000
bioperl (1.0.2-1) unstable; urgency=low
* *Another* new upstream release.
-- Matt Hope <dopey@debian.org> Wed, 17 Jul 2002 09:58:09 +1000
bioperl (1.0.1-1) unstable; urgency=low
* New upstream release
-- Matt Hope <dopey@debian.org> Sat, 29 Jun 2002 22:35:08 +1000
bioperl (1.0-1) unstable; urgency=low
* New upstream release
-- Matt Hope <dopey@debian.org> 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 <dopey@quickstix.com.au> Thu, 22 Nov 2001 19:31:26 +1100
bioperl (0.7.1-1) unstable; urgency=low
* Maintainer set to Debian QA Group <packages@qa.debian.org>.
* New upstream release.
-- Adrian Bunk <bunk@fs.tum.de> Fri, 24 Aug 2001 20:47:57 +0200
bioperl (0.7.0-1) unstable; urgency=low
* New upstream release; closes: #44245
-- Dr. Guenter Bechly <gbechly@debian.org> 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 <gbechly@debian.org> 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 <gbechly@debian.org> 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 <bortzmeyer@debian.org> Wed, 7 Jul 1999 14:49:16 +0200
bioperl (0.05-1) unstable; urgency=low
* Initial Release.
-- Stephane Bortzmeyer <bortzmeyer@debian.org> Wed, 19 May 1999 11:35:30 +0200