Fix single CWL file parsing

[Boogie3D]

• The cwl_utils parser for some reason assigns slightly different step input ID values depending on whether the step is parsed from a separate CommandLineTool CWL file or directly from the run field in the Workflow CWL file steps section
  • e.g. separate file: file://foo/bar#iterations; inline run field: file://foo/bar#lulesh/iterations
• This caused a key lookup in the input-to-source map to fail, raising an exception
• Fixed by stripping the extraneous prefix (e.g. lulesh/) from the step input ID
• Fixed a related issue where the TASKS_NOJOB_GOLD tasks in test_parser.py had empty inputs lists, causing test_parse_workflow_no_job() to fail erroneously after the bug was fixed (it was passing before the fix)
  • The gold standard tasks had empty inputs lists because that's what the parser was returning, which is possibly another bug
  • It may need to be further investigated why the parser was returning tasks with empty inputs lists when parsing the cf.cwl test file rather than raising an exception like the lulesh-mpi workflow

This PR resolves #643

[rstyd]

I'll merge and close this. Thanks, Steven!