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(fix): write out full PCA results when not run before neighbors #3079

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merged 7 commits into from
Jun 3, 2024

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@ilan-gold ilan-gold commented May 28, 2024

I think this is a better fix since we were already writing out X_pca. The tests seem to pass and pca should be idempotent so this really shouldn't break anything (hopefully).

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codecov bot commented May 28, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 75.86%. Comparing base (874d99b) to head (26173ed).
Report is 45 commits behind head on main.

Additional details and impacted files
@@           Coverage Diff           @@
##             main    #3079   +/-   ##
=======================================
  Coverage   75.85%   75.86%           
=======================================
  Files         110      110           
  Lines       12531    12532    +1     
=======================================
+ Hits         9506     9507    +1     
  Misses       3025     3025           
Files with missing lines Coverage Δ
scanpy/tools/_utils.py 70.00% <100.00%> (+0.37%) ⬆️

@ilan-gold ilan-gold requested a review from flying-sheep May 29, 2024 07:23
@ilan-gold ilan-gold self-assigned this May 29, 2024
@flying-sheep flying-sheep enabled auto-merge (squash) May 31, 2024 14:47
@flying-sheep flying-sheep disabled auto-merge June 3, 2024 10:17
@flying-sheep flying-sheep merged commit 3d03f2e into main Jun 3, 2024
12 of 14 checks passed
@flying-sheep flying-sheep deleted the ig/neighbors_write_pca branch June 3, 2024 10:17
flying-sheep added a commit that referenced this pull request Jun 3, 2024
flying-sheep pushed a commit that referenced this pull request Jun 17, 2024
@scverse scverse deleted a comment from lumberbot-app bot Jun 17, 2024
flying-sheep added a commit that referenced this pull request Jun 17, 2024
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AttributeError: 'Ingest' object has no attribute '_pca_use_hvg'
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