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bowtie (1.2.2+dfsg-4) unstable; urgency=medium
[ Andreas Tille ]
* spelling
* Upload to unstable
[ Dylan Aïssi ]
* Update metadata: Add bio.tools ref
[ Alexandre Mestiashvili ]
* Add patch fixing FTBFS, thanks to ch4rr0 at github.com
Closes: #906341
* Check for DEB_BUILD_OPTIONS and nocheck
-- Alexandre Mestiashvili <mestia@debian.org> Wed, 05 Sep 2018 14:34:56 +0000
bowtie (1.2.2+dfsg-3) unstable; urgency=medium
* Fix watch file to not detect beta versions
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.1.4
-- Andreas Tille <tille@debian.org> Wed, 23 May 2018 17:59:29 +0200
bowtie (1.2.2+dfsg-2) unstable; urgency=medium
* Update d/tests/run-unit-test
- export BOWTIE_INDEXES, Closes: #888844
- enable test for example9
* Bump Standards-Version to 4.1.3 (No changes needed),
set debhelper & d/compat to version 11
-- Alexandre Mestiashvili <alex@biotec.tu-dresden.de> Wed, 31 Jan 2018 14:04:41 +0100
bowtie (1.2.2+dfsg-1) unstable; urgency=medium
* New upstream version 1.2.2~beta+dfsg
* Refresh patches
* New upstream version 1.2.2+dfsg
* Refresh patches
* Bump Standards-Version to 4.1.2
* Update copyright, note license change to Artistic License 2.0
-- Alexandre Mestiashvili <alex@biotec.tu-dresden.de> Sat, 16 Dec 2017 19:17:18 +0100
bowtie (1.2.1.1+dfsg-1) unstable; urgency=medium
[ Andreas Tille ]
* New upstream version
* Moved packaging from SVN to Git
* debhelper 10
* Simplified d/watch
* Build-Depends: zlib1g-dev
[ Steffen Moeller ]
* debian/upstream/metadata:
- Completed references to registries
- yamllint cleanliness
[ Alexandre Mestiashvili ]
* Update d/copyright:
- use https for Format field
- link to versioned license
- add .cvsignore to Files-Excluded list
- add myself to debian/* section
* Add myself to uploaders, bump Standards-Version
* Rearrange patch headers (cme fix dpkg), update spelling.patch
* Re-introduce no_hash_style_both_for_mips.patch fixing build on mips64el
Closes: #864448
* Update d/rules:
- drop get-orig-source target
- hardcode binary package name instead of using dpkg-parsechangelog
* Disable unit tests for example6 and example9 as the output is different
compared to older bowtie versions
* Override lintian's warnings for binaries used with wrapper scripts
-- Alexandre Mestiashvili <alex@biotec.tu-dresden.de> Thu, 19 Oct 2017 20:35:11 +0200
bowtie (1.2.0+dfsg-1) unstable; urgency=medium
* New upstream version.
- Threading with tbb
- queue-based lock rather than spin/heavyweight lock
- reduced thread synchronization
* Added 'dfsg' to version because of removed seqan source tree
* debian/upstream/metadata: Added RRID reference
* debian/watch: Adjusted for new distribution via github
* Team upload provided by new aspiring Debian Med member,
sponsored by <moeller>
-- Stephan Struckmann <stephan.struckmann@gmail.com> Thu, 08 Jun 2017 15:24:17 +0200
bowtie (1.1.2-6) unstable; urgency=medium
* Enable build on all 64bit architectures (thanks for the patch to James
Cowgill <jcowgill@debian.org>)
Closes: #840775
-- Andreas Tille <tille@debian.org> Fri, 14 Oct 2016 20:53:17 +0200
bowtie (1.1.2-5) unstable; urgency=medium
* Team upload.
* Make build reproducible again.
- Remove build directory from recorded CFLAGS.
-- Sascha Steinbiss <satta@debian.org> Wed, 07 Sep 2016 10:13:36 +0000
bowtie (1.1.2-4) unstable; urgency=medium
* Team upload.
* Make build reproducible.
- Use fixed build hostname and compiler version.
* Fix autopkgtest by adjusting directory.
* Enable full hardening.
* Bump Standards-Version.
* Use secure Vcs-Browser.
-- Sascha Steinbiss <sascha@steinbiss.name> Wed, 25 May 2016 22:25:27 +0000
bowtie (1.1.2-3) unstable; urgency=medium
* Enable building arch independent packages separately
Closes: #806220
* Fix clean target
-- Andreas Tille <tille@debian.org> Wed, 25 Nov 2015 22:38:02 +0100
bowtie (1.1.2-2) unstable; urgency=medium
* Enable building on arm64 (Thanks for the patch to Edmund Grimley Evans)
Closes: #800548
* Remove inactive Uploader
* Fix spelling
-- Andreas Tille <tille@debian.org> Thu, 01 Oct 2015 09:47:23 +0200
bowtie (1.1.2-1) unstable; urgency=medium
* New upstream version
* remove strange byte-compyled Python code bowtie-buildc (no idea how and
why it was created)
* Enabling ppc64el on Makefile and debian/control (Thanks for the patch to
Fernando Seiti Furusato <ferseiti@br.ibm.com>)
Closes: #788537
-- Andreas Tille <tille@debian.org> Sun, 05 Jul 2015 21:24:20 +0200
bowtie (1.1.1-2) unstable; urgency=high
* Team upload.
* Install missing commands. Closes: #776881.
-- Charles Plessy <plessy@debian.org> Tue, 03 Feb 2015 10:44:39 +0900
bowtie (1.1.1-1) unstable; urgency=medium
* New upstream release
* cme fix dpkg-control
* Another patch to build with SeqAn 1.4 (Thanks to Gert Wollny)
* Add Depends: python (also Build-Depends since it is used in tests)
-- Andreas Tille <tille@debian.org> Thu, 02 Oct 2014 14:32:50 +0200
bowtie (1.0.1-3) unstable; urgency=medium
* Drop all architectures except amd64 since there was no success
in trying to port the code to other architectures. The portability
patch introduced in the last revision was droped again
* debian/copyright: Drop unneeded copyright statements about code that
was removed from upstream source
-- Andreas Tille <tille@debian.org> Mon, 15 Sep 2014 11:00:25 +0200
bowtie (1.0.1-2) unstable; urgency=medium
* Do not use copy of outdated gcc header file which destroys portability
to other architectures
Closes: #756780
* Add README.Debian informing users about the fact that we ignore copy
of cpuid.h
* Add unit tests for build time and autopkgtest
* Add debian/README.test to explain how to test the package
Attention: Please take notice of /usr/share/bowtie/README.Debian about
"Test suite for bowtie created and potential issue with sorting"
-- Andreas Tille <tille@debian.org> Wed, 03 Sep 2014 09:50:22 +0200
bowtie (1.0.1-1) unstable; urgency=medium
* New upstream version (adapted patches)
* drop debian/get-orig-source but rather remove the SeqAn-1.1 code
copy via Files-Excluded
* debian/control: Priority: optional
-- Andreas Tille <tille@debian.org> Wed, 30 Jul 2014 13:38:25 +0200
bowtie (1.0.0-6) unstable; urgency=low
* debian/patches/seqan-popcount.patch: New patch. (Closes: #733398)
* Version 1.4 of seqan-dev is required now.
* Standards-Version: 3.9.5 (no changes needed).
* Updated Vcs-Svn and Vcs-Browse fields as per Debian-Med policy.
-- Ognyan Kulev <ogi@debian.org> Sat, 08 Mar 2014 15:13:16 +0200
bowtie (1.0.0-5) unstable; urgency=low
* Fixed (hopefully) FTBFS by using override_dh_fixperms-indep target
instead of override_dh_fixperms in debian/rules.
-- Ognyan Kulev <ogi@debian.org> Thu, 30 May 2013 09:41:25 +0300
bowtie (1.0.0-4) unstable; urgency=low
* Lintian fixes:
- Removed DM-Upload-Allowed field.
- Standards Version 3.9.4 (no changes needed).
- Remove execute bits on some files in bowtie-examples.
* Don't compress *.ebwt index files in bowtie-examples package.
* Package description now starts with a capital letter.
-- Ognyan Kulev <ogi@debian.org> Wed, 29 May 2013 22:53:13 +0300
bowtie (1.0.0-3) unstable; urgency=low
* New patch no_hash_style_both_for_mips.patch.
This fixes build errors on mips and mipsel.
-- Ognyan Kulev <ogi@debian.org> Wed, 24 Apr 2013 15:15:37 +0300
bowtie (1.0.0-2) unstable; urgency=low
* Requires version 1.3 of SeqAn.
* Updated README.source about using Debian's SeqAn library.
* Removed machine_bits_detection.patch and added disable_bits_flag.patch.
-- Ognyan Kulev <ogi@debian.org> Wed, 24 Apr 2013 10:49:47 +0300
bowtie (1.0.0-1) unstable; urgency=low
* New upstream version. (Closes: #705616)
* Refreshed patches: use_debian_seqan.patch, use-dpkg-buildflags.patch.
* Removed patch gcc-4.7.patch (fixed upstream).
* New patch machine_bits_detection.patch.
* Added build dependancy on seqan-dev.
* Activated use_debian_seqan.patch and added the following patches:
- seqan-fix-setBegin-call.patch
- seqan-rename-ChunkPool.patch
- seqan-rename-fill-to-resize.patch
* Added myself to Uploaders control field.
-- Ognyan Kulev <ogi@debian.org> Tue, 23 Apr 2013 16:43:49 +0300
bowtie (0.12.7-3) unstable; urgency=low
* debian/patches/use-dpkg-buildflags.patch: Regard LDFLAGS/CPPFLAGS
hardening flags (thanks for the patch to Simon Ruderich
<simon@ruderich.org>)
Closes: #670230
-- Andreas Tille <tille@debian.org> Tue, 24 Apr 2012 13:21:32 +0200
bowtie (0.12.7-2) unstable; urgency=low
* Do not give a pointer to non existing info pages in manpages
* debian/control:
- fixed Vcs fields
- Standards-Version: 3.9.3 (no changes needed)
* debian/upstream: Add citation information
* debian/rules: calculate pkg name instead of setting it
* debian/copyright: DEP5 verified using
cme fix dpkg-copyright
* debian/patches/gcc-4.7.patch: function "reverseInPlace" is declared after
the function is used
Thanks to Rodolfo García Peñas <kix@kix.es> and
gregor herrmann <gregoa@debian.org>
Closes: #667120
* debhelper 9 (control+compat)
Hardening flags were explicitly tested but not enforced in debian/rules
-- Andreas Tille <tille@debian.org> Sun, 22 Apr 2012 21:09:05 +0200
bowtie (0.12.7-1) unstable; urgency=low
* Initial release (Closes: #604940)
-- Andreas Tille <tille@debian.org> Wed, 02 Feb 2011 13:47:12 +0100
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