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single-cell-data / TileDB-SOMA

Python and R SOMA APIs using TileDB’s cloud-native format. Ideal for single-cell data at any scale.
https://tiledbsoma.readthedocs.io
MIT License
87 stars 25 forks source link

[python] `tiledbsoma.io.to_anndata` performance work #3126

Open bkmartinjr opened 4 days ago

bkmartinjr commented 4 days ago

DRAFT/WIP PR

Issue and/or context:

Changes:

Notes for Reviewer:

codecov[bot] commented 4 days ago

Codecov Report

Attention: Patch coverage is 84.00000% with 4 lines in your changes missing coverage. Please review.

Project coverage is 86.60%. Comparing base (3bc119e) to head (cd75559). Report is 1 commits behind head on main.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #3126 +/- ## ========================================== + Coverage 86.49% 86.60% +0.11% ========================================== Files 47 47 Lines 4924 4935 +11 ========================================== + Hits 4259 4274 +15 + Misses 665 661 -4 ``` | [Flag](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/3126/flags?src=pr&el=flags&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | Coverage Δ | | |---|---|---| | [python](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/3126/flags?src=pr&el=flag&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | `86.60% <84.00%> (+0.11%)` | :arrow_up: | Flags with carried forward coverage won't be shown. [Click here](https://docs.codecov.io/docs/carryforward-flags?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data#carryforward-flags-in-the-pull-request-comment) to find out more. | [Components](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/3126/components?src=pr&el=components&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | Coverage Δ | | |---|---|---| | [python_api](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/3126/components?src=pr&el=component&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | `86.60% <84.00%> (+0.11%)` | :arrow_up: | | [libtiledbsoma](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/3126/components?src=pr&el=component&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | `∅ <ø> (∅)` | |