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czbiohub-sf / excellxgene

MIT License
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[BUG] #18

Closed lcdorman closed 1 year ago

lcdorman commented 2 years ago

Excellxgene (2.9.2) doesn't work with Anndata 0.8.0, only with 0.7. Are there plans to upgrade to Anndata 0.8.0? I'm getting incompatibility issues with scvi, scanpy, and anndata when I try to only use anndata 0.7.8 for all analyses.

jhkliu42 commented 2 years ago

I managed to fix this by installing excellxgene as normal and then manually updating anndata (pip install anndata==0.8.0). This resolved issues with loading .h5ad files that had anndata versioning errors.