[med-svn] [Git][med-team/python-biopython][master] 27 commits: d/watch: fix debian version mangling.

[Étienne Mollier (@emollier)]

Étienne Mollier pushed to branch master at Debian Med / python-biopython


Commits:
d38f43d9 by Étienne Mollier at 2024-09-14T11:47:11+02:00
d/watch: fix debian version mangling.

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4a5d63e7 by Étienne Mollier at 2024-09-14T11:48:16+02:00
New upstream version 1.84+dfsg
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a8887e24 by Étienne Mollier at 2024-09-14T11:58:00+02:00
Merge branch 'upstream'

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be0e1606 by Étienne Mollier at 2024-09-14T11:58:40+02:00
d/copyright: update copyright years.

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6248abec by Étienne Mollier at 2024-09-14T12:00:24+02:00
fix-use-of-unversioned-python.patch: delete: hunk removed upstream.

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2abaff1e by Étienne Mollier at 2024-09-14T12:02:26+02:00
reproduciblebuild.patch: delete: file disappeared upstream.

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5d729260 by Étienne Mollier at 2024-09-14T12:08:16+02:00
croak-on-muscle5.patch: refresh.

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711f1fbd by Étienne Mollier at 2024-09-14T12:08:37+02:00
muscle3.patch: unfuzz.

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09ca1331 by Étienne Mollier at 2024-09-14T12:10:56+02:00
seqxml-parser.patch: delete: issue fixed upstream.

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f4184228 by Étienne Mollier at 2024-09-14T12:11:14+02:00
skip-scipy-in-codonalign.patch: unfuzz.

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bafb48c7 by Étienne Mollier at 2024-09-14T14:51:35+02:00
d/rules: condensate dh_installdocs target to ease readability.

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c76a6578 by Étienne Mollier at 2024-09-14T14:53:51+02:00
d/rules: cleanup irrelevant comments and more readable dh_auto_test.

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462d9c90 by Étienne Mollier at 2024-09-14T15:02:06+02:00
d/t/run-unit-test: Tutorial.tex does not exist anymore.

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22b05914 by Étienne Mollier at 2024-09-14T15:02:53+02:00
d/t/run-unit-test: new PDB tests require compressed bcif files.

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86e7d8ee by Étienne Mollier at 2024-09-14T15:03:54+02:00
d/rules: replace distclean target by clean in Doc/.

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6f93fe90 by Étienne Mollier at 2024-09-14T16:06:26+02:00
d/control: documentation now depends on Sphinx and side modules.

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912fadc5 by Étienne Mollier at 2024-09-14T16:07:37+02:00
d/rules: explicitly make html documentation.

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331a327b by Étienne Mollier at 2024-09-14T16:08:28+02:00
Update changelog

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cb2f9540 by Étienne Mollier at 2024-09-14T16:14:48+02:00
Merge branch 'master' of salsa.debian.org:med-team/python-biopython

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13a67107 by Étienne Mollier at 2024-09-14T16:32:08+02:00
d/copyright: do not advertise LGPL since it is not in use.

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e1d188af by Étienne Mollier at 2024-09-14T22:26:25+02:00
d/rules: cleanup documentation from embeding and privacy breaches.

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3c64ce3c by Étienne Mollier at 2024-09-14T22:29:57+02:00
d/control: documentation depends on libjs-sphinx and libjs-jquery.

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1bd6829b by Étienne Mollier at 2024-09-14T22:31:15+02:00
d/python-biopython-doc.docs: install sphinx html artifacts.

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6136c968 by Étienne Mollier at 2024-09-14T22:31:54+02:00
d/python-biopython-doc.doc-base: update location of the Tutorial.

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43db061d by Étienne Mollier at 2024-09-14T22:33:13+02:00
d/python-biopython-doc.examples: new: install examples.

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49c55caf by Étienne Mollier at 2024-09-14T22:33:52+02:00
d/python-biopython-doc.lintian-overrides: flag another empty test file.

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b5f78be7 by Étienne Mollier at 2024-09-14T22:35:15+02:00
Ready for upload to experimental.

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30 changed files:

- .appveyor.yml
- .circleci/config.yml
- .circleci/requirements-sphinx.txt
- − .codecov.yml
- .flake8
- .github/deploy_docs.sh
- .github/workflows/ci.yml
- .gitignore
- .mypy.ini
- .pre-commit-config.yaml
- Bio/Affy/CelFile.py
- Bio/Align/AlignInfo.py
- Bio/Align/Applications/_ClustalOmega.py
- Bio/Align/Applications/_Clustalw.py
- Bio/Align/Applications/_Dialign.py
- Bio/Align/Applications/_MSAProbs.py
- Bio/Align/Applications/_Mafft.py
- Bio/Align/Applications/_Muscle.py
- Bio/Align/Applications/_Prank.py
- Bio/Align/Applications/_Probcons.py
- Bio/Align/Applications/_TCoffee.py
- Bio/Align/Applications/__init__.py
- Bio/Align/__init__.py
- + Bio/Align/_aligncore.c
- Bio/Align/_pairwisealigner.c
- Bio/Align/a2m.py
- Bio/Align/analysis.py
- Bio/Align/bed.py
- Bio/Align/bigbed.py
- Bio/Align/bigmaf.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/python-biopython/-/compare/89bbd0480907d88fa88c2b667f3dd6f0acb39528...b5f78be73878cd06d896f79922890708986be93d

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-biopython/-/compare/89bbd0480907d88fa88c2b667f3dd6f0acb39528...b5f78be73878cd06d896f79922890708986be93d
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