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Rename _feature_0 to _whole_cell and _feature_1 to _nuclear #786

Merged
merged 24 commits into from
Nov 11, 2022
Merged

Rename _feature_0 to _whole_cell and _feature_1 to _nuclear #786

merged 24 commits into from
Nov 11, 2022

Commits on Oct 21, 2022

  1. Initial commit of replacing _feature_0 with _whole_cell and _feature_… 

    …1 with _nuclear
    @alex-l-kong
    alex-l-kong committed Oct 21, 2022
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  2. Make sure dataset tests include _whole_cell and _nuclear

    @alex-l-kong
    alex-l-kong committed Oct 21, 2022
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  3. Update distance matrix column to be dist_whole_cell

    @alex-l-kong
    alex-l-kong committed Oct 21, 2022
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  4. Patch up marker quantification loading

    @alex-l-kong
    alex-l-kong committed Oct 21, 2022
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  5. Ensure channels for stitch_images test are being passed in correctly

    @alex-l-kong
    alex-l-kong committed Oct 21, 2022
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  6. Rename segmentation label saving to _whole_cell and _nuclear

    @alex-l-kong
    alex-l-kong committed Oct 21, 2022
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Commits on Oct 24, 2022

  1. Define both the whole cell and nuclear suffix renaming choices for cr… 

    …eate_deepcell_output
    @alex-l-kong
    alex-l-kong committed Oct 24, 2022
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Commits on Nov 8, 2022

  1. Merge branch 'main' of https://github.com/angelolab/ark-analysis into… 

    … feature_0_1
    @alex-l-kong
    alex-l-kong committed Nov 8, 2022
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  2. Change revision to match current PR on HuggingFace with new suffix names

    @alex-l-kong
    alex-l-kong committed Nov 8, 2022
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Commits on Nov 9, 2022

  1. Merge branch 'main' into feature_0_1

    @alex-l-kong
    alex-l-kong authored Nov 9, 2022
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  2. Patch up calc_dist_matrix suffix

    @alex-l-kong
    alex-l-kong committed Nov 9, 2022
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  3. PYCODESTYLE in data_utils.py

    @alex-l-kong
    alex-l-kong committed Nov 9, 2022
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  4. Patch up deepcell_utils

    @alex-l-kong
    alex-l-kong committed Nov 9, 2022
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  5. Use new HuggingFace commit hash without hidden old files

    @alex-l-kong
    alex-l-kong committed Nov 9, 2022
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  6. Merge branch 'main' into feature_0_1

    @alex-l-kong
    alex-l-kong authored Nov 9, 2022
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  7. Merge branch 'main' into feature_0_1

    @alex-l-kong
    alex-l-kong authored Nov 9, 2022
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  8. Change legacy example_dataset extensions to _whole_cell.tiff

    @alex-l-kong
    alex-l-kong committed Nov 9, 2022
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Commits on Nov 10, 2022

  1. Merge branch 'main' into feature_0_1

    @alex-l-kong
    alex-l-kong authored Nov 10, 2022
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  2. Make sure neighborhood mask uses _whole_cell.tiff

    @alex-l-kong
    alex-l-kong committed Nov 10, 2022
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  3. Update comment to _whole_cell.tiff too

    @alex-l-kong
    alex-l-kong committed Nov 10, 2022
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  4. Aesthetics

    @alex-l-kong
    alex-l-kong committed Nov 10, 2022
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  5. Patch _feature_0 to _whole_cell to pass neighborhood mask generation … 

    …test
    @alex-l-kong
    alex-l-kong committed Nov 10, 2022
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Commits on Nov 11, 2022

  1. Change suffix in the README

    @alex-l-kong
    alex-l-kong committed Nov 11, 2022
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  2. Refer to main branch for HuggingFace

    @alex-l-kong
    alex-l-kong committed Nov 11, 2022
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