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Dev/main #138

Merged
merged 31 commits into from
Feb 22, 2024
Merged

Dev/main #138

merged 31 commits into from
Feb 22, 2024

Commits on Feb 16, 2024

  1. overhaul options

    @pattonw
    pattonw committed Feb 16, 2024
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  2. Merge branch 'dev/main' into options-overhaul

    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  3. fix: ⚡️ Pass compute context as part of options, and pass options fil… 

    …e path as environment variable.
    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  4. fix: 💩 making options/config serializable

    @neptunes5thmoon
    neptunes5thmoon committed Feb 16, 2024
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  5. Merge branch '57-parallel-blockwise-processing' of github.com:janelia… 

    …-cellmap/dacapo into 57-parallel-blockwise-processing
    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  6. Remove unused code in options.py

    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  7. 🎨 Format Python code with psf/black

    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  8. Dev/main (#132)

    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  9. Merge branch '57-parallel-blockwise-processing' into actions/black

    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  10. Format Python code with psf/black push (#131) 

    There appear to be some python formatting errors in
41b5d7c. This pull request
uses the [psf/black](https://github.com/psf/black) formatter to fix
these issues.
    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  11. Merge branch '57-parallel-blockwise-processing' of github.com:janelia… 

    …-cellmap/dacapo into 57-parallel-blockwise-processing
    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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  12. fix: 🧪 Fix test_apply

    @rhoadesScholar
    rhoadesScholar committed Feb 16, 2024
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Commits on Feb 19, 2024

  1. fix: 🧪 Working on tests. All "components" are passing.

    @rhoadesScholar
    rhoadesScholar committed Feb 19, 2024
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  2. fix: ✅ Testing train passes. 

    Fixed by 1) removing testing validation from tests of training, and 2) fixing the dummy trainer so that it moves arrays to the proper devices during training.
    @rhoadesScholar
    rhoadesScholar committed Feb 19, 2024
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  3. fix: 🐛 Fixed test_options for no_config 

    Made sure there wasn't any config file present to be read.
    @rhoadesScholar
    rhoadesScholar committed Feb 19, 2024
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  4. fix: 🚧 Work to fix test_predict.

    @rhoadesScholar
    rhoadesScholar committed Feb 19, 2024
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Commits on Feb 20, 2024

  1. fix: 🚧 Some cleanup, but still failing test_predict.

    @rhoadesScholar
    rhoadesScholar committed Feb 20, 2024
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  2. fix: 🚧 Debug predict_worker.py 

    predict_worker.py works outside of pytest context.
    @rhoadesScholar
    rhoadesScholar committed Feb 20, 2024
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  3. Remove commented out code for daisy case in predict_worker.py

    @rhoadesScholar
    rhoadesScholar committed Feb 20, 2024
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Commits on Feb 21, 2024

  1. fix: 🐛 Passed test_predict.py 

    also updated daisy dependency, and added "all" option for installing optional dependencies
    @rhoadesScholar
    rhoadesScholar committed Feb 21, 2024
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  2. fix: 🧪 Fix imports. test_apply.py passes

    @rhoadesScholar
    rhoadesScholar committed Feb 21, 2024
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  3. fix: 🐛 Fix abstract ConfigStore to allow MongoConfigStore definition.

    @rhoadesScholar
    rhoadesScholar committed Feb 21, 2024
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Commits on Feb 22, 2024

  1. fix: 🚧 Extend prediction output declaration, refactor, debug tests, a… 

    …nd debug validate.
    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  2. chore: 🧑‍💻 Clean imports. 

    WIP pytests hanging, then passing after keyboardinterupt.
    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  3. Merge branch 'dev/main' into dev/tests

    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  4. Revert "Docstrings"

    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  5. Revert "Docstrings" (#137) 

    Reverts #109

Fix ChatGPT errors before merging.
    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  6. Merge branch 'dev/main' into dev/tests

    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  7. Merge branch 'dev/tests' of github.com:janelia-cellmap/dacapo into de… 

    …v/tests
    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  8. chore: 🔥 Cleaning

    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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  9. Dev/tests (#134) 

    tests still need debug :/
    @rhoadesScholar
    rhoadesScholar committed Feb 22, 2024
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