bwa (0.7.17-3) unstable; urgency=medium
* Team upload.
[ Dylan Aïssi ]
* Add patch from upstream to fix CVE-2019-10269.
(Closes: #926014)
[ Jelmer Vernooij ]
* Trim trailing whitespace.
-- Dylan Aïssi <daissi@debian.org> Sat, 30 Mar 2019 15:18:23 +0100
bwa (0.7.17-2) unstable; urgency=medium
* debhelper 11
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.2.1
* Secure URI in copyright format
* Fix wrong-path-for-interpreter
-- Andreas Tille <tille@debian.org> Fri, 19 Oct 2018 15:05:09 +0200
bwa (0.7.17-1) unstable; urgency=medium
* debian/upstream/metadata: RRID -> SciCrunch
[ Pointed out by John Marshall ]
* debian/patches/series:
- check_for_nan.patch superseded by upstream's
bcb475cd033b3641d2de19ad6fb70da7bdd54f77
- commenting issue behind fix_heap_block_overrun is analysed in
https://github.com/lh3/bwa/issues/146
[ Andreas Tille ]
* debhelper 10
* Standards-Version: 4.1.1
-- Andreas Tille <tille@debian.org> Mon, 13 Nov 2017 15:33:11 +0100
bwa (0.7.16-1) unstable; urgency=medium
* Team upload.
* debian/control: Policy bump tp 4.1.0
* debian/upstream/metadata: Add references to registries.
-- Steffen Moeller <moeller@debian.org> Mon, 07 Aug 2017 16:50:42 +0200
bwa (0.7.15-5) unstable; urgency=medium
* Team upload.
[Nadiya Sitdykova]
* Add patch to fix heap block overrun
* Add patch with workaround for incorrect implicit type casting
(resolves upstream issue #108)
* Remove patch with workaround for issue #108
* Add patch that checks computed avg and std for nan
(straitforward fix for upstream issue #108)
Closes: #853859
* Add patch that fixes printing of unsigned counts
[Steffen Moeller]
* debian/upstream/metadata: Added bio.tools entry
-- Nadiya Sitdykova <rovenskasa@gmail.com> Fri, 30 Jun 2017 17:37:35 -0400
bwa (0.7.15-4) UNRELEASED; urgency=medium
* Debugging (see deactivated patch debian/patches/debug.patch that tries
to track down upstream issue #108)
==> Any help would be welcome!
* debian/upstream/metadata: Added RRID and SEQwiki entries (Steffen Moeller)
-- Andreas Tille <tille@debian.org> Thu, 16 Mar 2017 09:12:09 +0100
bwa (0.7.15-3) unstable; urgency=medium
* bwa/kseq.h is used by SeqLib so include this into libbwa-dev package
-- Andreas Tille <tille@debian.org> Fri, 27 Jan 2017 14:51:16 +0100
bwa (0.7.15-2) unstable; urgency=medium
* Team upload
* Added testsuite
* debian/examples directory added
-- Canberk Koç <canberkkoc@gmail.com> Sun, 26 Jun 2016 01:00:42 +0200
bwa (0.7.15-1) unstable; urgency=medium
* New upstream version
* cme fix dpkg-control
* better hardening
-- Andreas Tille <tille@debian.org> Fri, 03 Jun 2016 17:53:03 +0200
bwa (0.7.13-1) unstable; urgency=medium
* New upstream version
* cme fix dpkg-control
-- Andreas Tille <tille@debian.org> Mon, 14 Mar 2016 13:44:35 +0100
bwa (0.7.12-5) unstable; urgency=medium
* Make a libbwa-dev package for `salmon`.
-- Michael R. Crusoe <crusoe@ucdavis.edu> Sun, 27 Sep 2015 17:16:04 -0700
bwa (0.7.12-4) unstable; urgency=medium
* Check exact number of arguments of bwtupdate
Closes: #715703
* Fix minor spelling issue
-- Andreas Tille <tille@debian.org> Sun, 12 Jul 2015 15:04:54 +0200
bwa (0.7.12-3) unstable; urgency=medium
* Enable building on freebsd
-- Andreas Tille <tille@debian.org> Fri, 10 Jul 2015 18:24:53 +0200
bwa (0.7.12-2) unstable; urgency=medium
* Upload to Unstable.
* Install bash completion script in /usr/share/bash-completion/completions.
* Also distribute README-alt.md.
* Watch GitHub instead of SourceForge.
-- Charles Plessy <plessy@debian.org> Sat, 04 Jul 2015 13:00:50 +0900
bwa (0.7.12-1) experimental; urgency=medium
* New upstream version
* simplified watch file
* cme fix dpkg-control
-- Andreas Tille <tille@debian.org> Tue, 27 Jan 2015 08:46:44 +0100
bwa (0.7.10-1) unstable; urgency=medium
* New upstream version
-- Andreas Tille <tille@debian.org> Thu, 14 Aug 2014 18:31:43 +0200
bwa (0.7.9a-1) unstable; urgency=medium
* New upstream version
* debian/copyright: Add Upstream-Contact
* debian/rules: Install NEWS.md as upstream changelog
-- Andreas Tille <tille@debian.org> Fri, 06 Jun 2014 21:54:29 +0200
bwa (0.7.8-1) unstable; urgency=medium
* New upstream version
-- Andreas Tille <tille@debian.org> Sun, 13 Apr 2014 08:53:07 +0200
bwa (0.7.7-1) unstable; urgency=medium
* New upstream version
* Move debian/upstream to debian/upstream/metadata
-- Andreas Tille <tille@debian.org> Tue, 18 Mar 2014 13:45:44 +0100
bwa (0.7.6a-1) unstable; urgency=medium
* New upstream version
* cme fix dpkg-control
-- Andreas Tille <tille@debian.org> Fri, 21 Feb 2014 12:32:04 +0100
bwa (0.7.5a-2) unstable; urgency=low
* Fixed FTBFS: SSE2 is required so require amd64-based architecture for
now. (9284b99)
* Updated Vcs-* fields. (521828c)
* New package description taken from homepage. (0ad135b)
* Standards-Version: 3.9.4 (3ce8e1a)
-- Ognyan Kulev <ogi@debian.org> Tue, 04 Jun 2013 21:51:41 +0300
bwa (0.7.5a-1) unstable; urgency=low
[ Charles Plessy ]
- Imported Upstream version 0.7.0 (947c814)
- solid2fastq.pl was removed upstream. (4d08b81)
- Bash completion. (ad07300)
- Updated list of BWA's commands. (c330e89)
[ Ognyan Kulev ]
- Imported upstream version 0.7.5a (ec16902, Closes: #710682)
- README is renamed to README.md by upstream. (f42f5c0)
- Standards-Version: 3.9.4 (no changes needed)
- Removed DM-Upload-Allowed field. (78af085)
- Added myself as uploader. (86455dc)
-- Ognyan Kulev <ogi@debian.org> Tue, 04 Jun 2013 08:51:31 +0300
bwa (0.6.2-1) unstable; urgency=low
[ Carlos Borroto ]
* New upstream release
[ Andreas Tille ]
* debian/control:
- versioned Build-Depends debhelper >= 9
- Standards-Version: 3.9.3 (no changes needed)
- Add Carlos Borroto as uploader to make sure a package
with his changes is not considered as NMU
* debian/docs: Add NEWS.Debian
* debian/watch: Use SF redirector as suggested by lintian
-- Andreas Tille <tille@debian.org> Tue, 26 Jun 2012 09:20:46 +0200
bwa (0.6.1-1) unstable; urgency=low
[b794564] New upstream release.
[fc9894b] Pass -D_NO_SSE2 everywhere except on amd64 (Closes: #648803).
[52312b6] Corrected changelog: 0.6.0-1 was actually uploaded to unstable.
-- Charles Plessy <plessy@debian.org> Wed, 30 Nov 2011 19:36:04 +0900
bwa (0.6.0-1) unstable; urgency=low
[9ce640c] New upstream release (not to use in a production pipeline).
[e641dd6] Corrected the name of the file downloaded by uscan.
[4ada685] Pass Dpkg build flags to the compiler through Debhelper 9. Thanks, Niels Thykier!
-- Charles Plessy <plessy@debian.org> Mon, 14 Nov 2011 19:28:44 +0900
bwa (0.5.10-1) unstable; urgency=low
[a01f6ca] New upstream release.
[6d7bc7f] Conforms with Debian Policy version 3.9.2.
[125c73d] Corrected Vcs-Git URL.
[37f43c9] Normalised machine-readable copyright file with config-edit.
[4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
[b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
-- Charles Plessy <plessy@debian.org> Mon, 14 Nov 2011 13:12:50 +0900
bwa (0.5.9-2) unstable; urgency=low
* Watchfile should not regard rc releases.
* Drop cdbs in favour of dh
-- Andreas Tille <tille@debian.org> Fri, 11 Mar 2011 22:49:07 +0100
bwa (0.5.9-1) unstable; urgency=low
* New usptream release
- Upstream moved to GitHub (debian/upstream-metadata.yaml).
- Checked copyright; one file was removed (debian/copyright).
* Migrated the Debian source package to Git (debian/control).
* Use Debhelper 8 (debian/control, debian/compat).
-- Charles Plessy <plessy@debian.org> Tue, 08 Feb 2011 16:11:12 +0900
bwa (0.5.8c-1) unstable; urgency=low
* Bug fix release, reverting the scoring system back to the one used in
0.5.7. 0.5.8a/b may produce a CIGAR like 10M2I10M4D2M which should not
happen in principle. Such wrong cigars also incur errors in indel calling
when samtools is in use (Closes: #601568).
* Incremented Standards-Version to reflect conformance with Policy 3.9.1
(debian/control, no changes needed).
* debian/copyright updated and reformatted.
-- Charles Plessy <plessy@debian.org> Wed, 27 Oct 2010 21:14:34 +0900
bwa (0.5.8a-1) unstable; urgency=low
* New upstream release.
* Use the more convenient viewsvn as VCS-Broswer (debian/control).
* Incremented Standards-Version to reflect conformance with
Policy 3.9.0 (debian/control, no changes needed).
-- Charles Plessy <plessy@debian.org> Wed, 30 Jun 2010 10:44:30 +0900
bwa (0.5.7-1) unstable; urgency=low
* New upstream release.
-- Charles Plessy <plessy@debian.org> Tue, 02 Mar 2010 23:33:06 +0900
bwa (0.5.6-1) unstable; urgency=low
* New upstream release.
* Incremented Standards-Version to reflect conformance with
Policy 3.8.4 (debian/control).
-- Charles Plessy <plessy@debian.org> Wed, 17 Feb 2010 12:48:57 +0900
bwa (0.5.5-1) unstable; urgency=low
* New upstream release.
* Using Dpkg source format version ‘3.0 (quilt)’ (debian/source/format).
-- Charles Plessy <plessy@debian.org> Wed, 11 Nov 2009 23:05:19 +0900
bwa (0.5.4-1) unstable; urgency=low
* New upstream release, see ‘/usr/share/doc/bwa/NEWS.gz’.
* Refreshed debian/copyright.
* Reflected the rename of dBWT-Sw to BWA-SW in the package's description
(debian/control).
-- Charles Plessy <plessy@debian.org> Mon, 19 Oct 2009 13:59:42 +0900
bwa (0.5.3-1) unstable; urgency=low
* Initial release (Closes: #548719)
-- Charles Plessy <plessy@debian.org> Thu, 08 Oct 2009 19:20:41 +0900