Synthesize a Galaxy workflow test plan from a free-form summary and the Galaxy design briefs.
Directory Mold with only index.md frontmatter.
source-specific fields are coherent.
Abstract oracle: fixture-independent property checks any run must satisfy.
eval.md declares properties and check type.
eval.md ↗Concrete cases: fixtures bound to expected values, run against the eval properties.
scenarios.md declares cases bound to fixtures.
scenarios.md ↗7 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.
Structured contract copied for validation or lookup.
Structured contract copied for validation or lookup.
Background synthesis loaded by explicit progressive-disclosure metadata.
Background synthesis loaded by explicit progressive-disclosure metadata.
Background synthesis loaded by explicit progressive-disclosure metadata.
Background synthesis loaded by explicit progressive-disclosure metadata.
Background synthesis loaded by explicit progressive-disclosure metadata.
Reviewable Galaxy workflow test plan (see [[galaxy-workflow-test-plan]]): synthesized test cases with job inputs, expected outputs, assertion intent, fixture provenance, label assumptions, unresolved mappings, and omissions.
Free-form source summary from [[summarize-paper]] or [[interview-to-freeform-summary]]; carries methods, sample data, parameters, and expected outputs that seed test intent.
Galaxy interface brief from [[freeform-summary-to-galaxy-interface]] that pins workflow inputs, outputs, and labels the plan binds assertions to.
Galaxy data-flow brief from [[freeform-summary-to-galaxy-data-flow]] that pins abstract operations and collection choices the plan must respect.
Structural diff guidance from [[compare-against-iwc-exemplar]]; steers the plan toward IWC-aligned testable checkpoints and fixture shapes.
Cleaned gxformat2 view of the nearest IWC exemplar from [[compare-against-iwc-exemplar]]; pattern-match its labels, collection identifiers, and tested checkpoints. Absent when no nearest exemplar was found.
Synthesize a Galaxy workflow test plan from a free-form source summary and the Galaxy interface and data-flow briefs. The output is a reviewable handoff conforming to galaxy-workflow-test-plan, not a concrete tests-format file: it records test cases, job inputs, expected outputs, assertion intent, fixture provenance, label assumptions, unresolved mappings, and intentional omissions so implement-galaxy-workflow-test can author the final Galaxy test artifact.
This is the structural difference from nextflow-test-to-galaxy-test-plan and cwl-test-to-galaxy-test-plan. Those Molds translate existing upstream test evidence — nf-test snapshots, CWL job files and expected outputs — into a Galaxy plan. A free-form source has no upstream test fixtures to convert, so this Mold synthesizes the plan from workflow intent and scenario-level expected outputs: the methods, sample data, parameters, and “expected results” recorded in the free-form summary, plus the testable structure the interface/data-flow briefs and the nearest IWC exemplar imply.
Set the plan’s source.derived_from to intent (not test-evidence) and each synthesized assertion’s evidence to intent; most synthesized assertions are confidence: medium or low. Where the summary does carry a concrete expected value (a known count, a named output token, a published figure), record it as expected_value and raise the confidence.
This Mold consumes the template-era briefs, not the concrete workflow draft or the resolved test-data refs — those exist in the harness run-state by the time the plan is authored, but they are reconciled downstream rather than here. So:
label_status to assumed (or unresolved when even the brief is silent) and the plan’s workflow.label_source to interface-brief. implement-galaxy-workflow-test reconciles these against the real draft labels and the workflow-label cross-check.storage: unresolved and location: null when the free-form summary names test data only by description; capture what is known (a dataset name, an accession, a Zenodo DOI, a rough size) in fixture.provenance so test-data resolution and the implement Mold can act on it. Use iwc-test-data-conventions for the storage classes and the remote-URL-first convention.When a binding or fixture cannot be settled from the briefs, add an unresolved[] entry (with blocking: true when the final test cannot be authored without it) rather than inventing a label or a URL.
For each expected output the briefs expose, pick the assertion family by output type per planemo-asserts-idioms and a defensible tolerance. When the only exposed output is weakly assertable (a stochastic plot, an opaque binary), consult galaxy-workflow-testability-design: prefer recording assertion intent against a stronger promoted checkpoint, and when you settle for a weak check, record the weaker outputs in omissions[] with a rationale rather than asserting around them. Check each shortcut against iwc-shortcuts-anti-patterns so an existence-only or size-only intent is a deliberate choice.
Keep the plan addressable by stable labels and artifacts (planemo-workflow-test-architecture) so the downstream test, run, and debug Molds can connect assertions back to invocations and outputs.