Home Mold

freeform-summary-to-galaxy-interface

Map a free-form source summary into a Galaxy workflow interface design brief.

Mold health

ok
  • Source layout

    Directory Mold with only index.md frontmatter.

  • Axis fields

    source-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
source-specific
source
freeform
name
freeform-summary-to-galaxy-interface
contract

Reference Loading

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

Researchgalaxy-collection-semantics

Background synthesis loaded by explicit progressive-disclosure metadata.

Purpose
Choose Galaxy collection input shapes (File / list / paired / list:paired / record) from the source's per-sample, paired, grouped, or nested data descriptions.
Trigger
When the free-form summary describes paired reads, per-sample groups, nested or grouped inputs, or any input that should become a Galaxy dataset collection.
Researchgalaxy-sample-sheet-collections

Background synthesis loaded by explicit progressive-disclosure metadata.

Purpose
Pick the right sample_sheet variant and translate described per-sample column metadata into Galaxy column_definitions when the source describes sample-sheet-shaped inputs.
Trigger
When the free-form summary describes a sample sheet, a per-sample/per-record table, or any table mapping samples to files that should become a Galaxy collection or sample-sheet input.

Cast artifacts

How to install →

Artifact handoffs

/ pipeline contract

Produces

Consumes

freeform-summary-to-galaxy-interface

Read a free-form source summary and emit a reviewable Markdown interface brief for a Galaxy workflow. Capture workflow inputs, workflow outputs, labels, Galaxy collection shapes, checkpoint outputs worth exposing for tests, source-summary provenance, confidence, and open questions.

Free-form sources are narrative- or interview-derived and carry explicit uncertainty. Translate what the summary supports into interface decisions; carry unresolved interface choices forward as open questions rather than inventing precise inputs, outputs, or labels.

The output is not a gxformat2 skeleton and not a workflow schema. It is a design handoff consumed by freeform-summary-to-galaxy-data-flow, freeform-summary-to-galaxy-template, and later test-plan work.

Incoming References (4)