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Added multiple sequencing methods #47

Merged
merged 19 commits into from
Jul 19, 2024
Merged

Added multiple sequencing methods #47

merged 19 commits into from
Jul 19, 2024

Commits on Jul 8, 2024

  1. almost there; everything working except multisample input

    @RobJY
    RobJY committed Jul 8, 2024
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Commits on Jul 9, 2024

  1. works, but needs clean-up

    @RobJY
    RobJY committed Jul 9, 2024
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  2. clean-up

    @RobJY
    RobJY committed Jul 9, 2024
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  3. added multiple segmentation test

    @RobJY
    RobJY committed Jul 9, 2024
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  4. set segmentation default to mesmer to pass test suite

    @RobJY
    RobJY committed Jul 9, 2024
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Commits on Jul 18, 2024

  1. added infrastructure for cellpose models

    @RobJY
    RobJY committed Jul 18, 2024
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  2. fixed lint error; added cellpose_model param to config

    @RobJY
    RobJY committed Jul 18, 2024
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  3. typo fix

    @RobJY
    RobJY committed Jul 18, 2024
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  4. added regex for segmentation input as suggested in PR

    @RobJY
    RobJY committed Jul 18, 2024
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  5. added fix for non-root container user from PR suggestion

    @RobJY
    RobJY committed Jul 18, 2024
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  6. removed segmentation condition and replaced with ext.when as suggeste… 

    …d in PR
    @RobJY
    RobJY committed Jul 18, 2024
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  7. added named vars in mutiMaps as suggested in PR

    @RobJY
    RobJY committed Jul 18, 2024
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  8. cleaned-up adding segmenter to meta

    @RobJY
    RobJY committed Jul 18, 2024
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  9. cleaned up MCQUANT workflow command with the \suggestion from the PR

    @RobJY
    RobJY committed Jul 18, 2024
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  10. forgot to add cellpose.diff when I made the patch

    @RobJY
    RobJY committed Jul 18, 2024
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  11. ran prettier to fix formatting

    @RobJY
    RobJY committed Jul 18, 2024
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  12. fixed duplicate ch_versions

    @RobJY
    RobJY committed Jul 18, 2024
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  13. cleaned up segmentation commands from suggestion in PR

    @RobJY
    RobJY committed Jul 18, 2024
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  14. changed cellpose test to not use predefined model

    @RobJY
    RobJY committed Jul 18, 2024
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