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Scenario 4

Analysis the representation of String, File, Directory and File array input parameter values AND ResourceRequirement in ro-crate-metadata.json.

Workflow graph

Workflow with 4 inputs of type string, File, File array, and Directory. 1 CommandLineTool has a ResourceRequirement (#L13).

  • Create workflow graph: cwltool --print-dot wf.cwl | dot -Tsvg > wf_graph.svg
  • Create CWLProv RO: cwltool --provenance ./ro wf.cwl wf_job.yml
  • Convert to ROCrate: runcrate convert ./ro --output ./rocrate

This produces a warning, but the RO-crate is still created:

Entity wf:main/date2_step_2 not found in Provenance<urn:uuid:a5d9245c-e21c-4898-9bf7-468e7092af1f from /Users/r.d.wit/Documents/GitHub/runcrate-analysis/scenario4_a/ro/metadata/provenance/primary.cwlprov.xml>

ResourceRequirement

  • ramMin: #L211
  • coresMin: not in ro-crate-metadata.json.

Representation of input parameter values

  • All inputs are mapped to their input parameters via exampleOfWork. (#L417, #L427, etc).
  • File: Listed in ro-crate-metadata.json as File.
  • String: Listed in ro-crate-metadata.json as Text.
  • Directory: Listed in ro-crate-metadata.json as Dataset and linked to the files it contains via hasPart.
  • File array: Listed in ro-crate-metadata.json as File, multipleValues=TRUE and linked to the files it contains via values.