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cwl v1.3.0-dev1 native loop support #1779

Merged
merged 27 commits into from
Jul 17, 2024
Merged

cwl v1.3.0-dev1 native loop support #1779

merged 27 commits into from
Jul 17, 2024
+12,842 −346

Commits on Jul 15, 2024

  1. Added loop support

    @GlassOfWhiskey @mr-c
    GlassOfWhiskey authored and mr-c committed Jul 15, 2024
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  2. include v1.3.0-dev1 schema; adjust updater

    @mr-c
    mr-c committed Jul 15, 2024
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  3. impossible to have non-dict hints, reqs, or steps here 

    schema-salad catches that before the updater runs
    @mr-c
    mr-c committed Jul 15, 2024
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  4. Migrate from loopSource to outputSource

    @GlassOfWhiskey @mr-c
    GlassOfWhiskey authored and mr-c committed Jul 15, 2024
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  5. Updated cwl-v1.3 files

    @GlassOfWhiskey @mr-c
    GlassOfWhiskey authored and mr-c committed Jul 15, 2024
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  6. Removed walrus operator for compatibility

    @GlassOfWhiskey @mr-c
    GlassOfWhiskey authored and mr-c committed Jul 15, 2024
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  7. Solving mypy complaints

    @GlassOfWhiskey @mr-c
    GlassOfWhiskey authored and mr-c committed Jul 15, 2024
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  8. Fix update

    @tetron @mr-c
    tetron authored and mr-c committed Jul 15, 2024
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  9. Merged cwl-v1.3 into cwltool

    @mr-c
    Iacopo Colonnelli authored and mr-c committed Jul 15, 2024
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  10. pytest: list errored/failed tests

    @mr-c
    mr-c committed Jul 15, 2024
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  11. increase minimum version of schema-salad

    @mr-c
    mr-c committed Jul 15, 2024
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Commits on Jul 16, 2024

  1. Added additional loop tests

    @tetron
    tetron committed Jul 16, 2024
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  2. Fix format

    @tetron
    tetron committed Jul 16, 2024
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  3. Fix more lint issues

    @tetron
    tetron committed Jul 16, 2024
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  4. Add loop tests using 1.3.0-dev1 syntax 

    Keep the cwltool:Loop tests as "loop_ext"
    @tetron
    tetron committed Jul 16, 2024
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  5. Try excluding 3.0.1 pydot release

    @tetron
    tetron committed Jul 16, 2024
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  6. Not compatible with pydot 3

    @tetron
    tetron committed Jul 16, 2024
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  7. Re-add tests for Loop extension

    @tetron
    tetron committed Jul 16, 2024
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  8. Need to include loop-ext in manifest

    @tetron
    tetron committed Jul 16, 2024
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  9. Add another test to improve coverage

    @tetron
    tetron committed Jul 16, 2024
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  10. Run format again

    @tetron
    tetron committed Jul 16, 2024
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  11. Should import errors from cwl_util so they are caught properly

    @tetron
    tetron committed Jul 16, 2024
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  12. Explicitly reexport WorkflowException

    @tetron
    tetron committed Jul 16, 2024
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  13. Disable flake8 error about unused symbol in errors.py 

    I can't mark the individual line because the formatter insists on
reformatting the line in a way that flake8 no longer recognizes the
annotation.
    @tetron
    tetron committed Jul 16, 2024
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  14. Lint fix

    @tetron
    tetron committed Jul 16, 2024
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Commits on Jul 17, 2024

  1. ignore some untested lines

    @mr-c
    mr-c committed Jul 17, 2024
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  2. Merge branch 'main' into cwl-v1.3

    @tetron
    tetron committed Jul 17, 2024
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