[med-svn] [Git][med-team/bowtie2][master] 5 commits: New upstream version

[Steffen Möller (@moeller)]

Steffen Möller pushed to branch master at Debian Med / bowtie2


Commits:
9d8309b8 by Steffen Moeller at 2026-02-22T15:11:39+00:00
New upstream version

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ea626081 by Steffen Moeller at 2026-02-22T15:11:40+00:00
New upstream version 2.5.5
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737e3df9 by Steffen Moeller at 2026-02-22T15:12:04+00:00
Update upstream source from tag 'upstream/2.5.5'

Update to upstream version '2.5.5'
with Debian dir 8afaf582c63f7aaf78be2b11472e8aae96f6ef88
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4dfdc152 by Steffen Moeller at 2026-02-22T15:12:04+00:00
Standards-Version: 4.7.3 (routine-update)

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1f513ffe by Steffen Moeller at 2026-02-22T15:47:04+00:00
New upstream version 2.5.5.

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37 changed files:

- .github/workflows/random-tests.yml
- .github/workflows/simple-tests.yml
- BOWTIE2_VERSION
- CMakeLists.txt
- MANUAL
- MANUAL.markdown
- Makefile
- NEWS
- README.md
- aligner_seed.cpp
- aligner_seed.h
- aligner_seed2.h
- aligner_sw_driver.cpp
- aligner_sw_driver.h
- aln_sink.h
- bowtie2-build
- bowtie2-inspect
- bowtie_main.cpp
- bt2_search.cpp
- debian/changelog
- debian/control
- debian/patches/correct_64bit_test
- debian/patches/do-not-rebuild-during-test.patch
- debian/patches/hardening.patch
- debian/patches/no_sanity
- debian/patches/reproducible.patch
- debian/patches/skip_test_requiring_non-free_libmath-random-perl.patch
- debian/patches/use-source-date-epoch-in-Makefile.patch
- doc/manual.html
- doc/website/manual.ssi
- doc/website/recent_news.ssi
- doc/website/rhsidebar.ssi
- group_walk.h
- opts.h
- pat.cpp
- pat.h
- processor_support.h


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/bowtie2/-/compare/1e7e199d3541c5901090f713f0bd6e429f8d5f50...1f513ffee91623e4c8d221465f692d9e99753a0c

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View it on GitLab: https://salsa.debian.org/med-team/bowtie2/-/compare/1e7e199d3541c5901090f713f0bd6e429f8d5f50...1f513ffee91623e4c8d221465f692d9e99753a0c
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