nextflow-summary-to-cwl-data-flow

Translate a Nextflow summary into a CWL data-flow design brief.

draft source/nextflow target/cwl

Related: summary-nextflow
nextflow-summary-to-cwl-interface

Mold health

warn

Source layout
Every file beside index.md is one the mold kind declares.
Axis fields
source-specific fields are coherent.
Eval plan
Abstract oracle: the properties any cast of this Mold must satisfy.

eval.md not written yet.
Scenarios
Concrete cases bound to fixtures, run against the eval properties.

scenarios.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 references describe what casting consumes, and when the generated skill should load each artifact.

Schema summary-nextflow

Structured contract copied for validation or lookup.

Runtime Upfront Verbatim Corpus Observed

Purpose: Read process, channel, operator, and fixture structure while drafting CWL-facing abstract data flow.

Cast artifacts

Claude skill nextflow-summary-to-cwl-data-flow — Translate a Nextflow summary into a CWL data-flow design brief.

How to install →

Artifact handoffs

/ pipeline contract

Produces

nextflow-cwl-data-flow markdown nextflow-cwl-data-flow.md

Reviewable Markdown brief: abstract topology, scatter/gather choices, value transformations, unresolved CommandLineTool needs, confidence.

Consumes

summary-nextflow

Structured Nextflow pipeline summary emitted by [[summarize-nextflow]]; consumed alongside the CWL interface brief.
produced by
- summarize-nextflow
nextflow-cwl-interface

Preceding CWL interface brief from [[nextflow-summary-to-cwl-interface]] that pins inputs, outputs, and labels.
produced by
- nextflow-summary-to-cwl-interface

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-template related note — CWL Workflow skeleton with per-step TODOs from source and design handoffs.
NEXTFLOW → CWL phase of pipeline — Direct path from a Nextflow pipeline to a CWL Workflow + CommandLineTool set.
Nextflow pipeline summary related note — JSON Schema for the structured summary emitted by the summarize-nextflow Mold.