Find nearest IWC exemplar(s) and surface a structural diff against the upstream Galaxy design briefs to guide template authoring.
2 non-index Markdown files with frontmatter.
target-specific fields are coherent.
eval.md declares cases and check type.
4 typed references; 0 resolver issues.
All on-demand references describe triggers.
Hypothesis references include verification.
Typed Mold references describe what casting consumes and when the generated skill should load each artifact.
Command reference. Usually cast to a sidecar and loaded only when invoked.
Background synthesis loaded by explicit progressive-disclosure metadata.
Background synthesis loaded by explicit progressive-disclosure metadata.
Background synthesis loaded by explicit progressive-disclosure metadata.
Structural diff against the nearest IWC exemplar(s); guidance for the downstream *-summary-to-galaxy-template Mold before per-step authoring. Carries an inline, bounded gxformat2 excerpt of the nearest exemplar's relevant subgraph under a labeled section, cross-referencing the iwc-exemplar-gxformat2 sibling file.
Cleaned gxformat2 conversion (via [[convert]] --to format2 --compact) of the nearest IWC exemplar's relevant subgraph — the concrete idiom the downstream template draft pattern-matches against. Bounded to the relevant subgraph, not the whole workflow. Absent when no nearest exemplar is found.
Galaxy interface brief from [[nextflow-summary-to-galaxy-interface]] when running the NEXTFLOW → GALAXY pipeline.
Galaxy data-flow brief from [[nextflow-summary-to-galaxy-data-flow]] when running the NEXTFLOW → GALAXY pipeline.
Galaxy interface brief from [[cwl-summary-to-galaxy-interface]] when running the CWL → GALAXY pipeline.
Galaxy data-flow brief from [[cwl-summary-to-galaxy-data-flow]] when running the CWL → GALAXY pipeline.
Galaxy interface brief from [[freeform-summary-to-galaxy-interface]] when running the PAPER → GALAXY or INTERVIEW → GALAXY pipelines.
Galaxy data-flow brief from [[freeform-summary-to-galaxy-data-flow]] when running the PAPER → GALAXY or INTERVIEW → GALAXY pipelines.
Find the nearest IWC exemplar workflow(s) for the upstream Galaxy design briefs and emit a structural diff that guides the downstream *-summary-to-galaxy-template Mold before per-step authoring effort is spent.
This Mold is the corpus-first check in Galaxy-targeting pipelines. It runs after the source-specific interface and data-flow briefs and before the gxformat2 template Mold. Discovery, ranking, and comparison are one action — there is no separate retrieval Mold.
https://github.com/galaxyproject/iwc) to ~/.foundry/iwc.Domain comes first so a structurally similar workflow in the wrong science area does not become a misleading exemplar. Topology comes second because collection shape is one of the most important Galaxy-specific design decisions. Test style is useful after a workflow match, but should not drive initial retrieval. Briefs with no domain signal should not produce a high-confidence exemplar even if they share generic tools.
| Level | Meaning |
|---|---|
| High | Same domain/subdomain, same input topology, same primary tool families, same major DAG motifs, and matching test fixture shape. |
| Medium | Same domain and topology, but partial tool-family or output match. Useful exemplar, not canonical. |
| Low | Cross-domain structural match only. Useful for a pattern comparison, not a nearest domain exemplar. |
| No nearest exemplar | Candidate lacks domain or topology alignment, or only shares generic tools such as MultiQC. |
Each finding should name the authoring surface most likely to own the fix:
*-summary-to-galaxy-template Mold to apply.*-test-to-galaxy-test-plan or implement-galaxy-workflow-test.Do not block downstream authoring on low-confidence exemplar mismatches. Report them as review guidance for the template Mold and the user.
The schema tells the template Mold what is legal gxformat2; it does not show idiom. A real, domain-adjacent gxformat2 workflow is high-value signal for constructing the draft — input/collection shapes, map-over wiring, output promotion, post-job actions. Agents have seen far more legacy .ga JSON than gxformat2 YAML in training, so surface the converted view rather than leaving it as prose.
Once the nearest exemplar is chosen (High or Medium confidence):
--to format2 --compact).iwc-exemplar.gxwf.yml sibling artifact — the slice that matches the briefs’ structure, not the whole workflow.iwc-comparison-notes.md, and cite the abstract IWC workflow ID (e.g. transcriptomics/rnaseq-pe/rnaseq-pe) plus the step labels it covers. Cross-reference the sibling file for the fuller view.Keep it size-bounded — a whole large workflow is noise; the relevant subgraph is the signal. When the result is “no nearest exemplar,” emit neither the sibling file nor the excerpt. A Low-confidence cross-domain match may surface a short excerpt for pattern comparison but should be labeled as such, not as a domain exemplar.