libbio-samtools-perl (1.43-3) unstable; urgency=medium * Team upload [ gregor herrmann ] * debian/control: update Build-Depends for cross builds. * debian/watch: use uscan version 4. [ Andreas Tille ] * Remove deprecated fields from upstream metadata * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) -- Andreas Tille Sun, 07 Jun 2020 09:23:40 +0200 libbio-samtools-perl (1.43-2) unstable; urgency=medium * Team upload. [ gregor herrmann ] * debian/copyright: change Copyright-Format 1.0 URL to HTTPS. * Remove Nathan Handler from Uploaders. Thanks for your work! [ Salvatore Bonaccorso ] * Update Vcs-* headers for switch to salsa.debian.org [ gregor herrmann ] * debian/*: update URLs from {search,www}.cpan.org to MetaCPAN. [ Laurent Baillet ] * fix lintian file-contains-trailing-whitespace warning [ Andreas Tille ] * debhelper 12 * Standards-Version: 4.3.0 * Remove trailing whitespace in debian/copyright * Lintian-override for script-with-language-extension since this is agreement in Debian Med team -- Andreas Tille Tue, 05 Feb 2019 11:59:42 +0100 libbio-samtools-perl (1.43-1) unstable; urgency=medium [ Charles Plessy ] dd47de5 Imported Upstream version 1.43 [ gregor herrmann ] * Rename autopkgtest configuration file(s) as per new pkg-perl- autopkgtest schema. * New upstream release. * Update years of upstream copyright and licensing terms. [ Salvatore Bonaccorso ] * debian/control: Use HTTPS transport protocol for Vcs-Git URI -- Charles Plessy Sun, 21 Feb 2016 13:52:00 +0900 libbio-samtools-perl (1.41-1) unstable; urgency=medium 0b7140a Imported Upstream version 1.41 -- Charles Plessy Thu, 18 Jun 2015 08:01:22 +0900 libbio-samtools-perl (1.39-2) unstable; urgency=medium * Team upload. [ gregor herrmann ] * Rename debian/upstream to debian/upstream/metadata. * Strip trailing slash from metacpan URLs. [ Salvatore Bonaccorso ] * Update Vcs-Browser URL to cgit web frontend [ gregor herrmann ] * Add build dependency on libmodule-build-perl. (Closes: #787670) * Declare compliance with Debian Policy 3.9.6. * Bump required debhelper version to 9.20120312~. * Mark package as autopkgtest-able. -- gregor herrmann Thu, 04 Jun 2015 11:42:42 +0200 libbio-samtools-perl (1.39-1) unstable; urgency=low cff6561 Imported Upstream version 1.39 -- Charles Plessy Sun, 29 Sep 2013 08:37:36 +0900 libbio-samtools-perl (1.38-1) unstable; urgency=low 715e2d1 Imported Upstream version 1.38 [ Salvatore Bonaccorso ] 6c4f50e Change search.cpan.org based URIs to metacpan.org based URIs [ Charles Plessy ] 9cf0347 Use Debhelper 9. c747b89 Moved README.Debian to README.test as it is all about tests. -- Charles Plessy Fri, 17 May 2013 12:38:01 +0900 libbio-samtools-perl (1.37-1) unstable; urgency=low 183cfbc Imported Upstream version 1.37 [ Nathan Handler ] d734fbe Email change: Nathan Handler -> nhandler@debian.org [ Charles Plessy ] c6aaf4a Conforms with Policy version 3.9.4. 7dd10a2 Normalised VCS URLs according to lintian. -- Charles Plessy Sun, 06 Jan 2013 09:04:28 +0900 libbio-samtools-perl (1.36-1) unstable; urgency=low [ Charles Plessy ] * [abf3eaa] Imported Upstream version 1.36 * [d30ef61] Normalised Debian copyright file with 'cme fix dpkg-copyright'. * [6f6c6f3] Summarised License of the whole package in the copyright file. * [d5182f1] Conforms to Debian Policy version 3.9.3. [ gregor herrmann ] * [c3db6d4] Update {versioned,alternative} (build) dependencies. -- Charles Plessy Sun, 09 Sep 2012 10:02:55 +0900 libbio-samtools-perl (1.33-1) unstable; urgency=low * [5fd8406] New upstream release 1.33 [ Nathan Handler ] * [4058f51] Add myself to Uploaders and debian/copyright * [01985a1] Remove version from perl Build-Depend. oldstable has 5.10 * [5b63fda] Don't Build-Depend on libmodule-build-perl (included in core since 5.10) * [af3530d] Remove version from libbio-perl-perl Build-Depend. Nothing older in archive * [d6d6dca] Don't Depend on perl, ${perl:Depends} will pull it in * [64ad8db] Turn short description into noun phrase based on abstract in upstream META.json [ Charles Plessy ] * [bb4b659] Renamed debian/upstream-metadata.yaml to debian/upstream. -- Charles Plessy Sun, 29 Jan 2012 14:38:27 +0900 libbio-samtools-perl (1.32-1) unstable; urgency=low [36ac64b] New upstream release. [dfb9312] Depend on BioPerl 1.6.901, following Upstream. -- Charles Plessy Wed, 23 Nov 2011 16:26:32 +0900 libbio-samtools-perl (1.31-1) unstable; urgency=low [abb8487] New upstream release 1.31 [e222e9f] New upstream release 1.30 [5d83169] Normalised debian/copyright by loading and saving it with config-edit. [de38fdb] Include 7 digits of the commit id in the changelog enty. -- Charles Plessy Tue, 01 Nov 2011 19:22:49 +0900 libbio-samtools-perl (1.29-1) unstable; urgency=low [ Charles Plessy ] * (Build)-Depend on libbio-perl-perl instead of bioperl (debian/control). [ Maximilian Gass ] * New upstream release * Switch to source format 3.0 (quilt) * Format Depends in debian/control * Remove debian/libbio-samtools-perl.docs to fix duplicate changelog * Update debian/copyright * Add copyright assignment to Charles Plessy for debian/* * Replace inline Artistic-2.0 with properly wrapped version from upstream's LICENSE file * Merge Comment into body of GPL-1+ * Remove unused Artistic License section -- Charles Plessy Tue, 28 Jun 2011 13:26:10 +0900 libbio-samtools-perl (1.28-2) unstable; urgency=low * libbam-dev’s bam.h file moved to ‘/usr/include/samtools’. - Build-depend on libbam-dev >= 0.1.16-1~ (debian/control). - Override dh_auto_configure to indicate path (debian/rules). - Use Debhelper 8 (debian/control, debian/compat). * Incremented Standards-Version to reflect conformance with Policy 3.9.2 (debian/control, no changes needed). * Validated debian/copyright with ‘config-edit -application dpkg-copyright’. -- Charles Plessy Fri, 20 May 2011 15:02:02 +0900 libbio-samtools-perl (1.28-1) unstable; urgency=low * New upstream release. -- Charles Plessy Mon, 04 Apr 2011 20:45:31 +0900 libbio-samtools-perl (1.27-1) unstable; urgency=low * Requires libbam 0.1.9 or superior (debian/control). * Conformance with Policy 3.9.1: - Point to GPL-1 instead of GPL in debian/copyright. - Incremented Standards-Version in debian/control. * Reformatted to debian/copyright DEP-5 format. -- Charles Plessy Tue, 08 Mar 2011 20:09:10 +0900 libbio-samtools-perl (1.20-1) unstable; urgency=low * New upstream release. * Incremented Standards-Version to reflect conformance with Policy 3.9.0 (debian/control, no changes needed). -- Charles Plessy Sat, 17 Jul 2010 10:44:34 +0900 libbio-samtools-perl (1.19-1) unstable; urgency=low * New upstream release. -- Charles Plessy Mon, 24 May 2010 16:25:08 +0900 libbio-samtools-perl (1.14-1) unstable; urgency=low * New upstream release with a new script, bamToGBrowse.pl. * Depend and Build-Depend on bioperl >= 1.6 (debian/control). * t/data/ex1.bam.bai and t/data/ex1.fa.fai are now part of the upstream source, so we do not delete them any more in the clean target of debian/rules. -- Charles Plessy Tue, 06 Apr 2010 13:41:17 +0900 libbio-samtools-perl (1.12-1) unstable; urgency=low * New upstream release. -- Charles Plessy Fri, 19 Mar 2010 22:46:54 +0900 libbio-samtools-perl (1.11-1) unstable; urgency=low * New upstream release. -- Charles Plessy Sat, 06 Mar 2010 20:29:02 +0900 libbio-samtools-perl (1.10-1) unstable; urgency=low * New Upstream version. * Incremented Standards-Version to reflect conformance with Policy 3.8.4 (debian/control, no changes needed). -- Charles Plessy Thu, 11 Feb 2010 23:21:58 +0900 libbio-samtools-perl (1.09-1) unstable; urgency=low * New Upstream Versions adding support for remote access to BAM databases on http/ftp servers. -- Charles Plessy Fri, 11 Dec 2009 22:53:34 +0900 libbio-samtools-perl (1.07-1) unstable; urgency=low * New upstream release. - IMPORTANT API CHANGE 1: The feature strand now returns +1 or -1 to indicate whether the query was reverse complemented in the SAM file. - IMPORTANT API CHANGE 2: The $feature->query object's dna() and seq() methods now return the sequence as it was read, rather than the reverse complemented version as represented in the SAM file. $feature->qseq() returns the reverse complemented version as before. * Removed mention that libbio-samtools-perl is built against a static library since it was agree with the release team that the package can enter in Testing. -- Charles Plessy Mon, 23 Nov 2009 17:20:21 +0900 libbio-samtools-perl (1.06-1) unstable; urgency=low * New Upstream Version (Bio::DB::Sam modified to work with GBrowse 1). * Added a few informations about upstream in debian/upstream-metadata.yaml. * Documented how I test the package in README.Debian. -- Charles Plessy Sun, 08 Nov 2009 11:43:43 +0900 libbio-samtools-perl (1.05-1) unstable; urgency=low * New upstream release. - Bio::DB::Sam->seq_id() method no longer lower-cases reference names. - Quashed enormous memory leak in the pileup() function. -- Charles Plessy Mon, 28 Sep 2009 12:58:26 +0900 libbio-samtools-perl (1.04-1) unstable; urgency=low * Initial Release (Closes: #543487). -- Charles Plessy Tue, 15 Sep 2009 18:55:53 +0900