Home Mold

cwl-test-to-galaxy-test-plan

Translate CWL test fixtures into a Galaxy workflow test plan.

draft mold source/cwl

Related: galaxy-workflow-test-plan
summary-cwl
tests-format

Mold health

ok

Source layout
Directory Mold with only index.md frontmatter.
Axis fields
source-specific fields are coherent.
Eval plan
Abstract oracle: fixture-independent property checks any run must satisfy.

eval.md declares properties and check type.
eval.md ↗
Scenarios
Concrete cases: fixtures bound to expected values, run against the eval properties.

scenarios.md declares cases bound to fixtures.
scenarios.md ↗
Typed refs
8 typed references; 0 resolver issues.
On-demand triggers
All on-demand references describe triggers.
Evidence checks
Hypothesis references include verification.

axis: source-specific
source: cwl
name: cwl-test-to-galaxy-test-plan

contract

Reference Loading

Typed Mold references describe what casting consumes and when the generated skill should load each artifact.

Schemagalaxy-workflow-test-plan

Structured contract copied for validation or lookup.

Runtime Upfront Verbatim Hypothesis

Purpose: Output contract: the emitted plan conforms to [[galaxy-workflow-test-plan]]. Cast bundles the JSON Schema; validate with `foundry validate-galaxy-workflow-test-plan`.
Verify: Cast the skill on a CWL summary carrying tests and confirm the emitted YAML validates and downstream [[implement-galaxy-workflow-test]] consumes it.

Schemasummary-cwl

Structured contract copied for validation or lookup.

Runtime Upfront Verbatim Corpus Observed

Purpose: Read the CWL summary's test cases, job inputs, expected outputs, and assertion evidence.

Schematests-format

Structured contract copied for validation or lookup.

Runtime On Demand Verbatim Corpus Observed

Purpose: Use the Galaxy workflow tests schema as the assertion-family vocabulary when translating CWL test evidence into a Galaxy test plan.
Trigger: When mapping expected outputs, tolerances, or fixture assertions into Galaxy workflow-test assertion intent.

Researchiwc-test-data-conventions

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Emit Galaxy/IWC-style job input fixtures, remote locations, hashes, and collection input shapes.
Trigger: When writing job inputs or deciding whether fixtures belong in test-data, Zenodo, ENA/SRA, or CVMFS.

Researchplanemo-asserts-idioms

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Describe Galaxy workflow-test assertion intent and tolerances for translated expected outputs.
Trigger: When turning CWL expected outputs into Galaxy test-plan assertions.

Researchgalaxy-workflow-testability-design

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Choose which workflow outputs and promoted checkpoints make meaningful assertions.
Trigger: When deciding which outputs to assert and which labels the plan should bind to.

Researchiwc-shortcuts-anti-patterns

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Distinguish accepted IWC-style test shortcuts from assertion smells while translating tests.
Trigger: When deciding whether to use existence-only, size-only, image-dimension, or tolerant output checks.

Researchplanemo-workflow-test-architecture

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Keep the plan addressable by stable labels and artifacts Planemo can connect back to invocations, jobs, and outputs.
Trigger: When recording the labels and checkpoints the downstream test must address.

Artifact handoffs

/ pipeline contract

Produces

galaxy-test-plan yaml galaxy-test-plan.yml

Reviewable Galaxy workflow test plan (see [[galaxy-workflow-test-plan]]) derived from CWL test fixtures, job inputs, expected outputs, and assertion evidence.
schema

galaxy-workflow-test-plan

consumed by
- implement-galaxy-workflow-test

Consumes

summary-cwl

Structured CWL summary from [[summarize-cwl]]; carries test fixtures, job inputs, expected outputs.
produced by
- summarize-cwl

cwl-test-to-galaxy-test-plan

Translate CWL test fixtures, job inputs, expected outputs, and assertion evidence into a Galaxy workflow test plan. The output is a reviewable YAML handoff conforming to galaxy-workflow-test-plan, not a concrete tests-format file; implement-galaxy-workflow-test owns final YAML authoring and static validation. Because this plan is translated from real CWL test fixtures, set source.derived_from: test-evidence and prefer evidence: test-evidence on the assertions it carries.

Incoming References (4)

CWL → GALAXYphase of pipeline— Path from a CWL Workflow to a Galaxy gxformat2 workflow. Lighter upstream extraction.
Galaxy workflow test planrelated note— JSON Schema for the intermediate Galaxy workflow test-plan handoff produced by the test-plan Molds and consumed by implement-galaxy-workflow-test.
CWL workflow summaryrelated note— JSON Schema for the structured summary emitted by the summarize-cwl Mold.
Galaxy workflow test formatrelated note— JSON Schema for the planemo workflow test format (`<workflow>-tests.yml`), vendored from `@galaxy-tool-util/schema`.