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python-pysam (0.15.2+ds-2) unstable; urgency=medium
* Team upload.
* For the Tabix tests: test the index contents, not the compression scheme.
Closes: #919928, #920250
-- Michael R. Crusoe <michael.crusoe@gmail.com> Wed, 20 Feb 2019 02:45:47 -0800
python-pysam (0.15.2+ds-1) unstable; urgency=medium
* Team upload.
* New upstream version
* Standards-Version: 4.3.0, no changes needed
* added Py2 and Py3 versions of ${python:Provides}
* Fix lintian found spelling typos.
* debian/tests/control.autodep8 → debian/tests/control.
* remove errant log.txt from the packages.
-- Michael R. Crusoe <michael.crusoe@gmail.com> Thu, 17 Jan 2019 01:25:11 -0800
python-pysam (0.15.1+ds-1) unstable; urgency=medium
* Team upload.
* New upstream version.
- Removes autogenerated config.h - [many thanks!]
https://github.com/pysam-developers/pysam/issues/714
- Explicit compatibility with Python 3.7
* Removed patch skipping test that complained on missing file
-- Steffen Moeller <moeller@debian.org> Fri, 14 Sep 2018 10:44:51 +0200
python-pysam (0.15.0.1+ds-2) unstable; urgency=medium
* Remove ancient fields X-Python*-Version
* Adjust patches for build time test suite
* Standards-Version: 4.2.1
-- Andreas Tille <tille@debian.org> Wed, 12 Sep 2018 18:37:42 +0200
python-pysam (0.15.0.1+ds-1) experimental; urgency=medium
* Team upload.
[ Steffen Moeller ]
* New upstream version.
[ Afif Elghraoui ]
* New upstream version 0.14.1+ds
* Update patches
[ Andreas Tille ]
* Testsuite: autopkgtest-pkg-python
* Rename d/tests/control to d/tests/control.autodep8
* Standards-Version: 4.1.4
-- Steffen Moeller <moeller@debian.org> Sun, 29 Jul 2018 00:51:38 +0200
python-pysam (0.14+ds-2) unstable; urgency=medium
* Team upload
* Add Python 2.7 compatibility symlink for libchtslib.so (Closes: #890748)
* Update Vcs-* URIs for move to salsa.debian.org
* Remove trailing whitespace from debian/changelog
-- Graham Inggs <ginggs@debian.org> Mon, 19 Feb 2018 10:11:17 +0000
python-pysam (0.14+ds-1) unstable; urgency=medium
* New upstream version
* d/rules: Exclude tests using http access
* Bump versioned dependencies to samtools and related from 1.6 to 1.7
* cme fix dpkg-control
* debhelper 11
* do not remove samtools/tmp_file.h in clean target
* do not depend from non-existing data file in make test target
* Update d/copyright
* Update lintian overrides
-- Andreas Tille <tille@debian.org> Sat, 17 Feb 2018 21:45:07 +0100
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 <tille@debian.org> 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 <mattia@debian.org> 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 <mattia@debian.org> 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 <afif@debian.org> 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 <afif@debian.org> 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 <ginggs@debian.org> 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 <ginggs@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <afif@debian.org> 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 <afif@debian.org> 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 <afif@debian.org> 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 <afif@debian.org> 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 <afif@ghraoui.name> 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 <afif@ghraoui.name> 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 <afif@ghraoui.name> 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 <afif@ghraoui.name> 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 <plessy@debian.org> 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 <tille@debian.org> Wed, 19 Mar 2014 13:30:15 +0100
python-pysam (0.7.5-4) unstable; urgency=medium
* Fix autotest
Closes: #741274
-- Andreas Tille <tille@debian.org> 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 <tille@debian.org> 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 <piotr@debian.org> for the patch)
Closes: #739631
-- Andreas Tille <tille@debian.org> Thu, 20 Feb 2014 19:01:46 +0100
python-pysam (0.7.5-1) unstable; urgency=low
* Initial release (Closes: #738665)
-- Andreas Tille <tille@debian.org> Fri, 07 Feb 2014 18:29:40 +0100
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