samtools-legacy (0.1.19-2) unstable; urgency=medium 1bb181e Build libbam-dev from version 0.1.19 in a “legacy” source package. -- Charles Plessy Tue, 16 Sep 2014 20:03:23 +0900 samtools (0.1.19-1) unstable; urgency=low cb9bd50 Imported https://github.com/samtools/samtools/archive/0.1.19.tar.gz 1e6d442 new tools ace2sam, bamcheck, plot-bamcheck, r2plot.lua, vcfutils.lua. 2f2d5c5 debian/copyright: collapsed copyright notices from main holders. e194f9e Removed fix_float_tag.patch, corrected upstream. 9c0e543 Refreshed patches. 3e7e0ec Renamed no-pileup-tests.patch fix_example_makefile.patch. 8d8550e example/Makefile: pass -lpthread when compiling calDepth. fc32243 harden by concatenating Debian's LDFLAGS and CPPFLAGS in CFLAGS. 6f75b48 debian/control: normalised with cme. e13bb5e debian/control: normalised VCS URLs. a1b1b00 debian/control: deleted DM-Upload-Allowed field. ddcd54e Use NEWS as upstream changelog. 81ad760 Conforms to Policy version 3.9.4. -- Charles Plessy Sat, 30 Mar 2013 17:31:47 +0900 samtools (0.1.18-4) unstable; urgency=low [Charles Plessy] * debian/copyright: Normalised with config-model * added bash completion * Build-depend on Debhelper 9 * Pass build flaggs set by dpkg-buildflags via Debhelper * Moved DOI and PubMed to the Reference namespace * Do not compress the example binary alignment file * Mention ‘SAMtools’ in libbam-dev's description [Andreas Tille] * debian/upstream: replaced BibTeX entry [Dominique Belhachemi] * added patch to fix float tag bug (upstream bug 71) -- Dominique Belhachemi Fri, 21 Dec 2012 12:09:18 -0500 samtools (0.1.18-3) unstable; urgency=low * upload 0.1.18-2 closed the wrong bug, correction: * added patch to fix segfault in mpileup (Closes: #653042) * added patch to fix coverage cap (Closes: #671524) -- Dominique Belhachemi Fri, 27 Jul 2012 11:11:41 -0400 samtools (0.1.18-2) unstable; urgency=low * added patch to fix segfault in mpileup (Closes: #544976) * added patch to fix coverage cap (Closes: #671524) -- Dominique Belhachemi Thu, 26 Jul 2012 18:30:48 -0400 samtools (0.1.18-1) unstable; urgency=low [b990d9d3] New upstream release. [d59366b9] Updated copyright statements. [aa08abe5] Compress binary packages with xz. [9a36c994] Added a DEP 3 header to debian/patches/no-pileup-tests.patch. -- Charles Plessy Tue, 06 Sep 2011 16:52:04 +0900 samtools (0.1.17-1) unstable; urgency=low * New upstream release 0.1.17 (6 July, 2011). * bcftools.1 and samtools.1 merged (debian/rules, debian/samtools.manpages). * Patched the example makefile to not use samtools pileup, deprecated. (debian/control, debian/rules, debian/patches/series, debian/patches/no-pileup-tests.patch) -- Charles Plessy Mon, 11 Jul 2011 21:04:30 +0900 samtools (0.1.16-1) unstable; urgency=low * New upstream release, implementing SAM Spec v1.4. * Distribute sam.h and the other headers in /usr/include/samtools. Closes: #625622, #626044, LP: #690997. -- Charles Plessy Thu, 19 May 2011 13:24:25 +0900 samtools (0.1.15-1) unstable; urgency=low * New upstream release. * Incremented Standards-Version to reflect conformance with Policy 3.9.2 (debian/control, no changes needed). * debian/watch directly interrogates and downloads froms SourceForge. -- Charles Plessy Tue, 12 Apr 2011 19:44:41 +0900 samtools (0.1.14-1) unstable; urgency=low * New upstream release. -- Charles Plessy Tue, 29 Mar 2011 13:13:54 +0900 samtools (0.1.13-1) unstable; urgency=low * New upstream release: - backward incompatible with VCF/BCF generated by samtools older than r921 inclusive (0.1.12a is r862); - buildable with with ld --as-needed (Closes: #606004); - the helper tool bcf-fix.pl was removed. * Install the manual page of bcftools (debian/rules, debian/samtools.manpages). Closes: #616025. -- Charles Plessy Wed, 02 Mar 2011 13:54:34 +0900 samtools (0.1.12a-1) unstable; urgency=low * New upstream release. * Use bzip2 compression for the binary packages (debian/rules). * Incremented debhelper compatibility level to 8, in case ‘--‘ is not available in earlier versions (debian/compat, debian/control). -- Charles Plessy Fri, 03 Dec 2010 13:32:21 +0900 samtools (0.1.10-1) unstable; urgency=low * New upstream release. -- Charles Plessy Wed, 17 Nov 2010 20:32:40 +0900 samtools (0.1.9-1) unstable; urgency=low * New upstream release, and new program: bcftools. * debian/rules, debian/samtools.install: install bcftools, its manpage, and bcf-fix.pl and vcfutils.pl. * debian/samtools.examples, debian/rules: install and clean new examples. * Incremented Standards-Version to reflect conformance with Policy 3.9.1 (debian/control, no changes needed). * Updated and reformatted debian/copyright according to latest DEP-5 draft. -- Charles Plessy Mon, 01 Nov 2010 20:06:32 +0900 samtools (0.1.8-1) unstable; urgency=low * New upstream release. * Updated the VCS fields to the current Git repository (debian/control). * Install python scripts in usr/share/samtools, and suggest python (debian/samtools.install, debian/rules, debian/control). * Incremented Standards-Version to reflect conformance with Policy 3.9.0 (debian/control, no changes needed). * Added notes on how the package is tested (debian/README.Debian). -- Charles Plessy Wed, 14 Jul 2010 14:08:59 +0900 samtools (0.1.7a~dfsg-1) unstable; urgency=low * New upstream release: new script sam2vcf.pl, and many other changes. * Package converted to the format ‘3.0 (quilt)’ (debian/source/format). * Wrote a manual page for razip (debian/razip.1). * Better clean the example directory to make the source package buildable twice in a row (debian/rules). -- Charles Plessy Tue, 17 Nov 2009 21:38:24 +0900 samtools (0.1.6~dfsg-1) unstable; urgency=low * New upstream release. * Upstream sources repackaged to remove the win32 directory: - The removal was done with git-import-orig in a parallel Git repository, and the corresponding debian/gbp.conf file was added to this package. - Mangled the ~dfsg string of the Debian version in debian/watch. - Added a debian/README.source file and explanations in debian/copyright. -- Charles Plessy Mon, 14 Sep 2009 21:58:36 +0900 samtools (0.1.5c-2) unstable; urgency=low * Rebuilt with -fPIC (debian/rules, README.Debian). * Small corrections to the description from upstream (debian/changelog). * Incremented Standards-Version to reflect conformance with Policy 3.8.3 (no changes needed). -- Charles Plessy Thu, 03 Sep 2009 19:29:40 +0900 samtools (0.1.5c-1) unstable; urgency=low * Initial release (Closes: #540453) -- Charles Plessy Sun, 16 Aug 2009 14:38:20 +0900