python-pysam (0.13.0+ds-1) unstable; urgency=medium * New upstream version * Bump versioned Build-Depends on libhts-dev, samtools and bcftools to 1.6 * Exclude tests accessing remote http sites * Lintian-override for false positive * Remove unused paragraphs from d/copyright -- Andreas Tille Thu, 14 Dec 2017 16:36:43 +0100 python-pysam (0.12.0.1+ds-4) unstable; urgency=medium * Team upload. * Revert "Skip tests on ppc64el to avoid build-dep on bcftools currently uninstallable". It seems to be installable now, and anyway now that the python3 transition is done we should fix it properly anyway. * d/control: + Bump the libhts-dev buil-dep to 1.5-3, to make sure we gain appropriate versioned symbols and therefore an appropriate versioned dependency on libhts2. Closes: #879867 + Bump Standards-Version to 4.1.1. -- Mattia Rizzolo Fri, 10 Nov 2017 12:56:10 +0100 python-pysam (0.12.0.1+ds-3) unstable; urgency=medium * Team upload. * Support DEB_BUILD_OPTIONS=nocheck. * Skip tests on ppc64el to avoid build-dep on bcftools which is currently uninstallable. Hopefully this will help unstuck the current python3 transition. -- Mattia Rizzolo Tue, 24 Oct 2017 18:54:29 +0200 python-pysam (0.12.0.1+ds-2) unstable; urgency=low * Update autopkgtest for new test suite driver -- Afif Elghraoui Fri, 06 Oct 2017 23:38:45 -0400 python-pysam (0.12.0.1+ds-1) unstable; urgency=medium [ Andreas Tille ] * Drop patch applied upstream * Standards-Version: 4.1.0 (no changes needed) * Apply upstream patch to fix test suite * Use pytest instead of nosetest [ Afif Elghraoui ] * New upstream version Closes: #871083, #834856 * Bump htslib suite minimum versions * Use Build Profiles to mark build-dependencies needed only for tests * Temporarily skip a failing test (reported upstream) [ Steffen Moeller ] * created debian/upstream/metadata: references to registries -- Afif Elghraoui Sun, 01 Oct 2017 12:30:30 -0400 python-pysam (0.11.2.2+ds-3) unstable; urgency=medium * Team upload * Link with -Wl,--as-needed and avoid another Python 2.7 compatibility symlink for libchtslib.so -- Graham Inggs Tue, 01 Aug 2017 14:15:58 +0200 python-pysam (0.11.2.2+ds-2) unstable; urgency=medium * Team upload * Mark debian/python-pysam.links executable for dh-exec * Drop exclude_test_tyring_to_access_remote_ftpserver.patch, fixed upstream * Drop pysam_stdout_linkage.patch, not needed since compatibility symlinks were added -- Graham Inggs Mon, 31 Jul 2017 14:05:22 +0200 python-pysam (0.11.2.2+ds-1) unstable; urgency=medium [ Afif Elghraoui ] * Imported Upstream version 0.11.2.2+ds * Update patches [ Andreas Tille ] * Apply patches suggested by Steve Langasek (thanks for this Steve) Closes: #867017, LP: #1701268 * debhelper 10 * Standards-Version: 4.0.0 (no changes needed) * Add some symlinks to run autopkgtests correctly -- Andreas Tille Sat, 29 Jul 2017 09:03:05 +0200 python-pysam (0.10.0+ds-2) unstable; urgency=medium * d/rules: - Add some files that need to be removed after running tests - Remove other autogenerated files to build twice in a row * Exclude test tyring to access remote ftpserver Closes: #861496 -- Andreas Tille Thu, 04 May 2017 15:06:21 +0200 python-pysam (0.10.0+ds-1) unstable; urgency=medium [ Afif Elghraoui ] * New upstream release * Update patches [ Andreas Tille ] * d/rules: Remove redundant get-orig-source target * hardening=+all * Fix lintian overrides [ Afif Elghraoui ] * Do not use internal htslib -- Afif Elghraoui Thu, 26 Jan 2017 04:36:11 -0800 python-pysam (0.9.1.4+ds-1) unstable; urgency=medium * Imported Upstream version 0.9.1.4+ds * Drop patch applied upstream * Drop unused lintian overrides * Fix spelling issues -- Afif Elghraoui Sat, 23 Jul 2016 18:47:31 -0700 python-pysam (0.9.1+ds-1) unstable; urgency=medium * Imported Upstream version 0.9.1+ds * Force at least matching versions of the samtools suite * Bump Standards-Version to 3.9.8 * Globally use C.UTF-8 locale * Update patch for external htslib * Refresh patch * Drop obsolete patches * Fix handling of configuration headers generated at build time * Rely more on pybuild for build-time tests and respect exit code * Fix autopkgtests -- Afif Elghraoui Sun, 19 Jun 2016 18:43:53 -0700 python-pysam (0.9.0+ds-1) unstable; urgency=medium * Add filenamemangle to d/watch and space out content * Imported Upstream version 0.9.0+ds (Closes: #814765) * Bump htslib and samtools minimum versions * Update policy statndards-version to 3.9.7 * Use encrypted protocols for Vcs URLs in d/control * Use readthedocs page as pysam's homepage * Update packaging for external htslib link * Refresh patches * Delete obsolete patch -- Afif Elghraoui Wed, 09 Mar 2016 23:43:59 -0800 python-pysam (0.8.4+ds-1) unstable; urgency=medium * Add version constraints to build-dependencies. * Drop ds suffix versioning. * Imported Upstream version 0.8.4+ds * Remove patches applied upstream * Refresh existing patches * Refine d/rules * Set Vcs-Browser to point to cgit rather than gitweb * Reduce dependencies in autopktest dependencies * Replace patch for network-dependent tests * Add new lintian overrides -- Afif Elghraoui Fri, 13 Nov 2015 22:15:14 -0800 python-pysam (0.8.3+ds1-3) unstable; urgency=medium * Backport upstream commit 6efb22b to permit building with Cython 0.23.x (Closes: 800794) * Revise lintian overrides. -- Afif Elghraoui Tue, 06 Oct 2015 00:57:19 -0700 python-pysam (0.8.3+ds1-2) unstable; urgency=medium [ Afif Elghraoui ] * Improve python3 compatibility for upstream test sources * Refresh older patches * Fix autopkgtests * Fix error in sam_mpileup.patch * Remove unused lintian override [ Andreas Tille ] * Remove tests relying on online connection from test suite * For the moment do some dirty tricks in test run script * The automatic nosetest trigger does not work and this it is switched back to manual nosetests invocation -- Afif Elghraoui Fri, 24 Jul 2015 10:12:41 +0200 python-pysam (0.8.3+ds1-1) experimental; urgency=medium * Team upload. [ Jorge Soares ] * New upstream version * provide python3-pysam [ Charles Plessy ] * Requires Python 2.7 or higher. [ Andreas Tille ] * Link against htslib * d/watch: dversionmangle [ Afif Elghraoui ] * New upstream releases (Closes: #763218) * Remove unnecessary test-suite declaration in d/control * Remove nonexistent files from copyright explanations * Allow building of the package when non-ASCII characters are in the path * Add to package long description * Resolve lintian "duplicated-compressed-file" * Make package descriptions unique * Remove extra license definitions from d/copyright * Fix spelling errors in source distribution (forwarded upstream as well) * Add lintian overrides * Exclude bundled htslib convenience-copy * Provide get-orig-source rule * Support building with missing htslib directory * Add dependency on cython for autopkgtests to provide pyximport * Revamp debian/copyright -- Afif Elghraoui Thu, 25 Jun 2015 10:44:30 +0200 python-pysam (0.7.7-1) unstable; urgency=medium * New upstream releases. * Upstream source code moved to GitHub. * Watch the Python Package Index since there are no relevant tags on GitHub. * Added a git-buildpackage configuration file to mark its usage. * Build-depend samtools (>= 0.1.19); this is needed for the regression tests in Wheezy. * debian/patches/offline-tests.patch: correction from a later release. -- Charles Plessy Sat, 19 Apr 2014 14:17:42 +0900 python-pysam (0.7.5-5) unstable; urgency=medium * Add make to autopkgtest dependencies Closes: #741274 -- Andreas Tille Wed, 19 Mar 2014 13:30:15 +0100 python-pysam (0.7.5-4) unstable; urgency=medium * Fix autotest Closes: #741274 -- Andreas Tille Tue, 11 Mar 2014 20:08:15 +0100 python-pysam (0.7.5-3) unstable; urgency=medium * Do not install tests in world writable dir Closes: #739575 -- Andreas Tille Sat, 01 Mar 2014 23:40:21 +0100 python-pysam (0.7.5-2) unstable; urgency=medium * debian/rules: Set PYTHONPATH correctly using dh_python (thanks to Piotr Ożarowski for the patch) Closes: #739631 -- Andreas Tille Thu, 20 Feb 2014 19:01:46 +0100 python-pysam (0.7.5-1) unstable; urgency=low * Initial release (Closes: #738665) -- Andreas Tille Fri, 07 Feb 2014 18:29:40 +0100