KeyError: <cwl_utils.parser.cwl_v1_2.CommandInputEnumSchema object at 0x10aa191e0> ?

[jjkoehorst]

After changing the expression steps to command line steps I have the following:

runcrate convert -o ROC PROV on the PROV folder attached

/Volumes/Git/m-unlock/cwl/tests/PROV: sha256 manifest lists snapshot/concatenate.cwl multiple times with the same value
/Volumes/Git/m-unlock/cwl/tests/PROV: sha512 manifest lists snapshot/concatenate.cwl multiple times with the same value
/Volumes/Git/m-unlock/cwl/tests/PROV: sha1 manifest lists snapshot/concatenate.cwl multiple times with the same value

Traceback (most recent call last):
  File "/Users/jasperk/mambaforge/bin/runcrate", line 8, in <module>
    sys.exit(cli())
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/click/core.py", line 1130, in __call__
    return self.main(*args, **kwargs)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/click/core.py", line 1055, in main
    rv = self.invoke(ctx)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/click/core.py", line 1657, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/click/core.py", line 1404, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/click/core.py", line 760, in invoke
    return __callback(*args, **kwargs)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/cli.py", line 68, in convert
    crate = builder.build()
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 266, in build
    self.add_workflow(crate)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 322, in add_workflow
    self.add_step(crate, workflow, s)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 334, in add_step
    tool = self.add_tool(crate, workflow, cwl_step.run)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 373, in add_tool
    tool["input"] = self.add_params(crate, cwl_tool.inputs)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 387, in add_params
    properties = properties_from_cwl_param(cwl_p)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 81, in properties_from_cwl_param
    additional_type = "Collection" if cwl_p.secondaryFiles else convert_cwl_type(cwl_p.type)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 65, in convert_cwl_type
    s = set(convert_cwl_type(_) for _ in cwl_type)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 65, in <genexpr>
    s = set(convert_cwl_type(_) for _ in cwl_type)
  File "/Users/jasperk/mambaforge/lib/python3.10/site-packages/runcrate/convert.py", line 73, in convert_cwl_type
    return CWL_TYPE_MAP[cwl_type.items]

PROV.zip