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Tasks for CWLProv #807

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8 of 17 tasks
FarahZKhan opened this issue Jul 3, 2018 · 1 comment
Open
8 of 17 tasks

Tasks for CWLProv #807

FarahZKhan opened this issue Jul 3, 2018 · 1 comment
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@stain @mr-c @FarahZKhan
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enhancement TODO

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@FarahZKhan
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FarahZKhan commented Jul 3, 2018 •
edited by mr-c
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  • make diff_pylint_report is clean
  • Test with toil-cwl-runner, does this break anything?
  • move extra Python dependencies to an extra, add code to remind the user to install them if --provenance is called
  • @mr-c to review type hints
  • remove use of hasattr
  • add raw logs
  • test with aligner workflow
  • deal with directory structures
  • add annotations (EDAM if available) for input data artefact entity in provenance file
  • pylint mostly clean cwltool/provenance.py and tests/test_provenance.py
  • refactor out global relativised_input_object
  • resolve TODO and FIXME or move to issues or another document
  • make sure snapshot only contains definition and job files
  • in case of failure, generate provenance files anyway.
  • record docker container image id and labels
  • record kernel version
docker inspect --format='{{.Id }}' --type image microscaling/microscaling # Image sha256
docker inspect --format='{{ json .Config.Labels }}' --type image microscaling/microscaling
  • confirm --provenance & --cachedir coexistence
@mr-c
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mr-c commented Jul 23, 2022

see also ResearchObject/workflow-run-crate#24 (comment)

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