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Add feature extractors#49

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EzicStar merged 16 commits intoKatherLab:mainfrom
EzicStar:dev/add-extractors
Mar 17, 2025
Merged

Add feature extractors#49
EzicStar merged 16 commits intoKatherLab:mainfrom
EzicStar:dev/add-extractors

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@EzicStar
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add 6 new feature extractors:

  • UNI2
  • chief_ctranspath
  • conch v1.5
  • gigapath
  • h_optimus_0
  • h_optimus_1

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@georg-wolflein georg-wolflein left a comment

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Great work! I left a few comments for you to address, most of them minor.

Please also make sure that the workflow runs pass by fixing the formatting issues and tests. I can support you if you need help with this.

Tip: you can make sure that the unit tests pass in advance of submitting your PRs by running uv run pytest. This will allow you to catch bugs quickly; for example I found the UNI2 vs UNI_2 bug by looking at the failed tests:)

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LGTM!
The only failing test is for TITAN due to the missing HF_TOKEN. Feel free to merge nonetheless (we will fix this later).

@georg-wolflein georg-wolflein mentioned this pull request Mar 16, 2025
@EzicStar EzicStar merged commit 1585b83 into KatherLab:main Mar 17, 2025
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3 participants