[med-svn] [Git][med-team/augur][upstream] New upstream version 24.0.0

[Étienne Mollier (@emollier)]

Étienne Mollier pushed to branch upstream at Debian Med / augur


Commits:
4711f710 by Étienne Mollier at 2024-01-30T20:30:43+01:00
New upstream version 24.0.0
- - - - -


30 changed files:

- .github/workflows/ci.yaml
- .github/workflows/release.yaml
- .github/workflows/sync-redirects.yaml
- CHANGES.md
- + DEPRECATED.md
- augur/__init__.py
- augur/__version__.py
- augur/ancestral.py
- augur/data/lat_longs.tsv
- augur/export_v2.py
- augur/filter/include_exclude_rules.py
- augur/io/__init__.py
- + augur/io/strains.py
- augur/translate.py
- augur/utils.py
- docs/contribute/DEV_DOCS.md
- + docs/releases/DEPRECATED.md
- − docs/releases/breaking.md
- docs/releases/releases.rst
- + scripts/compare-json-vcf.py
- setup.py
- + tests/functional/ancestral/cram/ambiguous-positions.t
- + tests/functional/ancestral/cram/case-sensitive.t
- + tests/functional/ancestral/cram/general.t
- + tests/functional/ancestral/cram/infer-amino-acid-sequences-genes-file.t
- − tests/functional/ancestral/cram/infer-amino-acid-sequences-with-missing-arguments.t
- + tests/functional/ancestral/cram/invalid-args.t
- + tests/functional/ancestral/cram/vcf-multi-allele.t
- + tests/functional/ancestral/cram/vcf.t
- + tests/functional/ancestral/data/genes.txt


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/augur/-/commit/4711f710cdcf0a71c4a7ec0ac57a74c42bc08d27

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