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20 authors
  1. Sep 10, 2021
  3. Sep 06, 2021
  5. Sep 03, 2021
    • Marcel Loose's avatar
      Fix the mapping between CWL inputs, which are in JSON format, and Python... · 58bdbcf2
      Marcel Loose authored 
      Fix the mapping between CWL inputs, which are in JSON format, and Python types, for CWL steps that contain inline Python script.

The solution is to convert the CWL `$(inputs)` once to a Python `dict`, by using the `json.loads()` function, passing the `$(inputs)` as a raw Python string. Next, any input argument can be accessed as an entry in a Python `dict`.

Also, to avoid potential "Argument list too long" errors, all inline Python scripts that expand the `$(inputs)` argument are now automatically turned into a script *file*, instead of being passed as a (potentially huge) string on the command line.


Former-commit-id: 250aa9d1
      58bdbcf2
  7. Sep 02, 2021
  9. Aug 16, 2021
  11. Aug 04, 2021
  13. Jul 20, 2021
  15. Jul 15, 2021
  17. Jul 02, 2021
  19. May 28, 2021
  21. May 21, 2021
    • Marcel Loose's avatar
      Make all DockerRequirements hints · d2b891f9
      Marcel Loose authored and alex's avatar alex committed 
      A few CWL-files list the DockerRequirement under requirements,
instead of hints, which precludes running the workflow as
`cwltool --no-container`. This has been fixed.


Former-commit-id: 088e9c30
      d2b891f9
  23. Apr 14, 2021
  25. Mar 08, 2021
  27. Dec 03, 2020
  29. Nov 18, 2020
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