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Bump supported pyfastx versions #1335

Merged
merged 3 commits into from
Nov 7, 2023
Merged

Bump supported pyfastx versions #1335

merged 3 commits into from
Nov 7, 2023

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victorlin
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@victorlin victorlin commented Nov 7, 2023

Description of proposed changes

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@victorlin victorlin self-assigned this Nov 7, 2023
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@victorlin victorlin marked this pull request as draft November 7, 2023 00:19
The motivation is that version 0.9.0 added support for Python 3.10 and
3.11¹, which we want to support for Augur.

However, 0.9.0 also introduced a bug that prevented access by sequence
ID. This was fixed in version 1.0.0.²

Looking at the rest of the changelog, I don't see any other breaking
changes through the current version (2.0.1), at least for Augur's use
case. Assuming this will hold true for other 2.x versions, allow both
major versions 1 and 2.

¹ https://github.com/lmdu/pyfastx/blob/ee7303d1402d5f83db1a6ec74b5140b912ae75bb/docs/changelog.rst
² lmdu/pyfastx#62
As noted in the resolved TODO.
@victorlin victorlin changed the title Bump pyfastx to 0.9.* Bump supported pyfastx versions Nov 7, 2023
@victorlin victorlin marked this pull request as ready for review November 7, 2023 19:12
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codecov bot commented Nov 7, 2023

Codecov Report

All modified and coverable lines are covered by tests ✅

Files Coverage Δ
augur/io/metadata.py 95.20% <100.00%> (+0.05%) ⬆️

📢 Thoughts on this report? Let us know!

@victorlin victorlin merged commit e1b414a into master Nov 7, 2023
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@victorlin victorlin deleted the victorlin/bump-pyfastx branch November 7, 2023 21:04
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Can't install with Python ~3.11~ 3.12 on Conda
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