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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
90 stars 25 forks source link

Remove `_soma_geometry` field #2935

Closed jp-dark closed 1 month ago

jp-dark commented 1 month ago

Remove _soma_geometry attribute from Visium spot point cloud. Add in attribute with spot diameter and metadata with spot radius.

codecov[bot] commented 1 month ago

Codecov Report

Attention: Patch coverage is 0% with 5 lines in your changes missing coverage. Please review.

Project coverage is 82.11%. Comparing base (521fad3) to head (135c6f2). Report is 1 commits behind head on spatial.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## spatial #2935 +/- ## =========================================== + Coverage 82.05% 82.11% +0.05% =========================================== Files 44 44 Lines 4592 4596 +4 =========================================== + Hits 3768 3774 +6 + Misses 824 822 -2 ``` | [Flag](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/2935/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/2935/flags?src=pr&el=flag&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | `82.11% <0.00%> (+0.05%)` | :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/2935/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/2935/components?src=pr&el=component&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | `82.11% <0.00%> (+0.05%)` | :arrow_up: | | [libtiledbsoma](https://app.codecov.io/gh/single-cell-data/TileDB-SOMA/pull/2935/components?src=pr&el=component&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=single-cell-data) | `∅ <ø> (∅)` | |