CLI Reference

eoap-cwlwrap builds and writes a packed orchestrator workflow.

eoap-cwlwrap [OPTIONS]

Options

Option	Required	Description
--workflow	Yes	CWL workflow file or URL. Use <location>#<process-id> to select a process from a $graph.
--output	Yes	Output file path for the packed CWL document. Parent directories are created automatically.
--directory-stage-in	When needed	CWL stage-in file or URL for Directory-compatible inputs. Required when the application workflow has Directory inputs.
--file-stage-in	When needed	CWL stage-in file or URL for File-compatible inputs. Required when the application workflow has File inputs.
--directory-stage-out	When needed	CWL stage-out file or URL for Directory-compatible outputs. Required when the application workflow has Directory outputs.
--stage-out	When needed	Deprecated alias for --directory-stage-out.
--file-stage-out	When needed	CWL stage-out file or URL for File-compatible outputs. Required when the application workflow has File outputs.
--workflow-id	No	Deprecated. Use --workflow <location>#<process-id> instead.
--oci-hostname	For oci://	OCI registry hostname. Can also be set with OCI_HOSTNAME.
--oci-username	For oci://	OCI registry username. Can also be set with OCI_USERNAME.
--oci-password	For oci://	OCI registry password. Can also be set with OCI_PASSWORD.

Stage-in and stage-out options are conditional. The command inspects the selected workflow and requires only the component types needed to adapt its Directory and File inputs and outputs.

Process Selection

If --workflow points to a single CWL Process, the process id can be omitted:

eoap-cwlwrap \
  --workflow ./workflow.cwl \
  --directory-stage-out ./stage-out.cwl \
  --output ./wrapped.cwl

If the workflow document contains a $graph, include the id:

eoap-cwlwrap \
  --workflow ./workflow.cwl#water-bodies-detection \
  --directory-stage-out ./stage-out.cwl \
  --output ./wrapped.cwl

Process selection works for every CWL location option, not only --workflow. Append #<process-id> to --directory-stage-in, --file-stage-in, --directory-stage-out, --stage-out, or --file-stage-out when the corresponding document contains a $graph:

eoap-cwlwrap \
  --directory-stage-in ./components.cwl#directory-stage-in \
  --workflow ./workflow.cwl#water-bodies-detection \
  --directory-stage-out ./components.cwl#directory-stage-out \
  --output ./wrapped.cwl

Location Schemes

Locations can be local paths or URLs. The CLI configures loaders for:

Scheme	Use
local path	Read a CWL document from the local filesystem.
file://	Read a CWL document through a file URL.
http:// or https://	Read a CWL document from the web.
s3://	Read a CWL document from S3-compatible storage.
oci://	Read a CWL document from an OCI registry, using the OCI options or environment variables above when credentials are needed.