[med-svn] [Git][med-team/bowtie2][master] 7 commits: New upstream version 2.5.0

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / bowtie2


Commits:
ae6f1ec6 by Andreas Tille at 2022-11-04T19:56:13+01:00
New upstream version 2.5.0
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9dde5064 by Andreas Tille at 2022-11-04T19:56:13+01:00
routine-update: New upstream version

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9809cd92 by Andreas Tille at 2022-11-04T19:56:27+01:00
Update upstream source from tag 'upstream/2.5.0'

Update to upstream version '2.5.0'
with Debian dir d43192418f3164832e48405c9da89906f697677b
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72ee06d4 by Andreas Tille at 2022-11-04T19:56:27+01:00
routine-update: Standards-Version: 4.6.1

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e4f5b102 by Andreas Tille at 2022-11-04T19:56:33+01:00
Use secure URI in Homepage field.

Changes-By: lintian-brush
Fixes: lintian: homepage-field-uses-insecure-uri
See-also: https://lintian.debian.org/tags/homepage-field-uses-insecure-uri.html

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c9b4d7a6 by Andreas Tille at 2022-11-04T19:56:38+01:00
Set upstream metadata fields: Bug-Database.

Changes-By: lintian-brush

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f90758ae by Andreas Tille at 2022-11-04T20:15:46+01:00
Update patches

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18 changed files:

- + .github/workflows/random-tests.yml
- .github/workflows/bowtie2.yml → .github/workflows/simple-tests.yml
- .gitmodules
- BOWTIE2_VERSION
- MANUAL
- MANUAL.markdown
- Makefile
- NEWS
- README.md
- aligner_bt.cpp
- aligner_cache.h
- aligner_seed.cpp
- aligner_seed.h
- aligner_sw_driver.cpp
- aligner_swsse.cpp
- aligner_swsse.h
- aligner_swsse_ee_i16.cpp
- aligner_swsse_ee_u8.cpp


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/bowtie2/-/compare/18286445c6a460af79361adfdd6d8ad22811a15c...f90758ae2ac89e8a02573fac45062a524a5ea5c0

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View it on GitLab: https://salsa.debian.org/med-team/bowtie2/-/compare/18286445c6a460af79361adfdd6d8ad22811a15c...f90758ae2ac89e8a02573fac45062a524a5ea5c0
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