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[python] Temporarily pin to AnnData 0.9.* #1765

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johnkerl opened this issue Oct 9, 2023 · 1 comment
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[python] Temporarily pin to AnnData 0.9.* #1765

johnkerl opened this issue Oct 9, 2023 · 1 comment

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@johnkerl
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johnkerl commented Oct 9, 2023

As of Friday all Python CI is failing like this:
https://github.com/single-cell-data/TileDB-SOMA/actions/runs/6434852473/job/17474905281

E   ImportError: cannot import name 'SparseDataset' from 'anndata._core.sparse_dataset' (/opt/hostedtoolcache/Python/3.10.13/x64/lib/python3.10/site-packages/anndata/_core/sparse_dataset.py)

This is a nuanced issue with a nuanced solution in discussion between @nguyenv , @thetorpedodog , and myself.

It will be dealt with soon, however, to unblock CI and high-pri PRs over the next day or two I will temporarily pin to AnnData 0.9. This issue will be kept open for tracking until the issue is dealt with properly.

@johnkerl
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Closing in favor of #1785 for longer-term tracking

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