validate-galaxy-workflow

Run terminal gxwf validation on an assembled Galaxy workflow and classify workflow-level failures.

Mold health

Source layout
Directory Mold with only index.md frontmatter.
Axis fields
target-specific fields are coherent.
Eval plan
eval.md declares cases and check type.
Typed refs
3 typed references; 0 resolver issues.
On-demand triggers
All on-demand references describe triggers.
Evidence checks
Hypothesis references include verification.

axis: target-specific
target: galaxy
name: validate-galaxy-workflow

contract

Reference Loading

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

CLI Commandgxwf validate

Command reference. Usually cast to a sidecar and loaded only when invoked.

Runtime On Demand Sidecar Hypothesis

Purpose: Validate the assembled gxformat2 workflow before runtime testing.
Trigger: After all Galaxy steps and workflow tests have been assembled.
Verify: Run the cast skill on a complete IWC-derived workflow and confirm terminal validation findings are separated from runtime test failures.

Researchgalaxy-workflow-testability-design

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Classify validation or pre-test findings that indicate missing labels, omitted workflow outputs, or untestable checkpoint structure.
Trigger: When terminal validation passes but workflow-level outputs, labels, or collection shapes look likely to break future workflow tests.

Researchgalaxy-workflow-invocation-failure-reference

Background synthesis loaded by explicit progressive-disclosure metadata.

Runtime On Demand Verbatim Corpus Observed

Purpose: Keep static workflow validation findings distinct from Galaxy invocation/runtime failure surfaces.
Trigger: When a workflow passes gxwf validation but still has likely runtime risks around invocation scheduling, outputs, conditionals, or collection population.

Cast artifacts

Claude skillvalidate-galaxy-workflow— Run terminal gxwf validation on an assembled Galaxy workflow and classify workflow-level failures.

How to install →

validate-galaxy-workflow

Validate the assembled Galaxy workflow before runtime testing. The Mold owns the terminal validation pass: run gxwf validate, classify workflow-level diagnostics, and route failures back to the responsible authoring phase when possible.

This is separate from validate-galaxy-step because terminal validation no longer has only one fresh step in scope and should reason over cross-step workflow structure.

Incoming References (4)

CWL → GALAXYphase of pipeline— Path from a CWL Workflow to a Galaxy gxformat2 workflow. Lighter upstream extraction.
NEXTFLOW → GALAXYphase of pipeline— Direct path from a Nextflow pipeline to a Galaxy gxformat2 workflow.
PAPER → GALAXYphase of pipeline— Direct path from a paper to a Galaxy gxformat2 workflow. No CWL intermediate.
Galaxy workflow invocation failure referencerelated mold— Reference for Galaxy workflow invocation states, messages, failure reasons, and invocation API surfaces.