Background synthesis loaded by explicit progressive-disclosure metadata.

Purpose

Inherit open entries rather than re-deriving them, close the ones this brief's input, output, and label decisions settle, and append interface obligations the narrative never settles — an output the source names but never specifies, a parameter stated only qualitatively, a collection shape the prose doesn't determine.

Verify

Promote after a worked run shows entries this Mold appends or resolves are consumed downstream without re-derivation.

Background synthesis loaded by explicit progressive-disclosure metadata.

Purpose

Choose stable workflow input/output labels and promoted checkpoint outputs that future tests can address.

Trigger

When deciding labels, public outputs, checkpoint outputs, or fixture-compatible collection inputs.

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.

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.