Structured contract copied for validation or lookup.
- Purpose
- Read process, channel, operator, and fixture structure while drafting CWL-facing abstract data flow.
nextflow-summary-to-cwl-data-flow
Translate a Nextflow summary into a CWL data-flow design brief.
Mold health
warn- Source layout
Directory Mold with only index.md frontmatter.
- Axis fields
source-specific fields are coherent.
- Eval plan
eval.md not written yet.
- Typed refs
1 typed reference; 0 resolver issues.
- On-demand triggers
All on-demand references describe triggers.
- Evidence checks
Hypothesis references include verification.
- axis
- source-specific
- source
- nextflow
- name
- nextflow-summary-to-cwl-data-flow
contract
Reference Loading
Typed Mold references describe what casting consumes and when the generated skill should load each artifact.
Artifact handoffs
/ pipeline contractProduces
-
Reviewable Markdown brief: abstract topology, scatter/gather choices, value transformations, unresolved CommandLineTool needs, confidence.
Consumes
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Structured Nextflow pipeline summary emitted by [[summarize-nextflow]]; consumed alongside the CWL interface brief.
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Preceding CWL interface brief from [[nextflow-summary-to-cwl-interface]] that pins inputs, outputs, and labels.
nextflow-summary-to-cwl-data-flow
Read a Nextflow summary plus the preceding CWL interface brief and emit a reviewable Markdown data-flow brief. Capture abstract operations, CWL scatter/gather choices, value transformations, unresolved CommandLineTool needs, confidence, and open questions.
The output is not a concrete CWL Workflow. summary-to-cwl-template turns this handoff and the interface brief into a skeleton.
Incoming References (3)
- summary-to-cwl-templaterelated note— CWL Workflow skeleton with per-step TODOs from source and design handoffs.
- NEXTFLOW → CWLphase of pipeline— Direct path from a Nextflow pipeline to a CWL Workflow + CommandLineTool set.
- Nextflow pipeline summaryrelated note— JSON Schema for the structured summary emitted by the summarize-nextflow Mold.