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set-scale utility #228

Merged
merged 40 commits into from
Sep 26, 2024
Merged

set-scale utility #228

merged 40 commits into from
Sep 26, 2024

Commits on Jul 2, 2024

  1. add update_scale_metadata.py

    @aaronalvarezcz
    aaronalvarezcz committed Jul 2, 2024
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  2. add update-scale-metadata command to cli

    @aaronalvarezcz
    aaronalvarezcz committed Jul 2, 2024
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  3. add zyx flags for update-scale-metadata utility

    @aaronalvarezcz
    aaronalvarezcz committed Jul 2, 2024
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  4. add handling of missing zyx cli flags for update-scale-metadata

    @aaronalvarezcz
    aaronalvarezcz committed Jul 2, 2024
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  5. update order of params in update_scale_metadata to be passed as z, y, x

    @aaronalvarezcz
    aaronalvarezcz committed Jul 2, 2024
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Commits on Jul 9, 2024

  1. Merge branch 'main' into update-scale-metadata-util

    @talonchandler
    talonchandler authored Jul 9, 2024
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  2. black

    @talonchandler
    talonchandler committed Jul 9, 2024
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  3. isort

    @talonchandler
    talonchandler committed Jul 9, 2024
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  4. flake8

    @talonchandler
    talonchandler committed Jul 9, 2024
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Commits on Sep 17, 2024

  1. Merge branch 'main' into update-scale-metadata-util

    @talonchandler
    talonchandler committed Sep 17, 2024
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  2. update to iohub.ngff.models

    @talonchandler
    talonchandler committed Sep 17, 2024
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  3. move parsing utilities to iohub

    @talonchandler
    talonchandler committed Sep 17, 2024
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  4. move update_scale_metadata inside cli folder

    @talonchandler
    talonchandler committed Sep 17, 2024
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  5. typo

    @talonchandler
    talonchandler committed Sep 17, 2024
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  6. update import for refactor

    @talonchandler
    talonchandler committed Sep 17, 2024
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  7. require -z, -y, -x flags

    @talonchandler
    talonchandler committed Sep 17, 2024
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  8. simplify interface and print statements

    @talonchandler
    talonchandler committed Sep 17, 2024
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  9. clean up print statement

    @talonchandler
    talonchandler committed Sep 17, 2024
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  10. update the last three dimensions for OME compatibility

    @talonchandler
    talonchandler committed Sep 17, 2024
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  11. fix tests

    @talonchandler
    talonchandler committed Sep 17, 2024
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  12. fix test

    @talonchandler
    talonchandler committed Sep 17, 2024
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Commits on Sep 18, 2024

  1. helper functions for axis names

    @talonchandler
    talonchandler committed Sep 18, 2024
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  2. set_scale API

    @talonchandler
    talonchandler committed Sep 18, 2024
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  3. consolidate and clean CLI

    @talonchandler
    talonchandler committed Sep 18, 2024
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  4. test get_axis_index

    @talonchandler
    talonchandler committed Sep 18, 2024
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  5. test_set_scale

    @talonchandler
    talonchandler committed Sep 18, 2024
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  6. case insensitive axis name

    @talonchandler
    talonchandler committed Sep 18, 2024
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  7. tests don't overwrite data

    @talonchandler
    talonchandler committed Sep 18, 2024
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Commits on Sep 19, 2024

  1. save old metadata in a namespace

    @talonchandler
    talonchandler committed Sep 19, 2024
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  2. test multiple inputs to cli

    @talonchandler
    talonchandler committed Sep 19, 2024
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  3. handle empty current_transforms

    @talonchandler
    talonchandler committed Sep 19, 2024
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  4. improved empty handling

    @talonchandler
    talonchandler committed Sep 19, 2024
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Commits on Sep 25, 2024

  1. unit test CLI plate expansion into positions

    @talonchandler
    talonchandler committed Sep 25, 2024
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  2. cleanup test

    @talonchandler
    talonchandler committed Sep 25, 2024
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  3. test OptionEatAll

    @talonchandler
    talonchandler committed Sep 25, 2024
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  4. stronger plate-expansion test

    @talonchandler
    talonchandler committed Sep 25, 2024
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Commits on Sep 26, 2024

  1. fix bug when scale transform does not exist

    @ieivanov
    ieivanov committed Sep 26, 2024
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  2. create "iohub" dict if it doesn't exist, and update it

    @talonchandler
    talonchandler committed Sep 26, 2024
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  3. test old_* metadata

    @talonchandler
    talonchandler committed Sep 26, 2024
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  4. rename old_x to prior_x_scale

    @ieivanov
    ieivanov committed Sep 26, 2024
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