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Merge pull request #341 from galaxyproject/update-workflow
casts: regenerate three skills against updated schemas
2 parents ae83dc4 + 5b407bb commit 2c7a04b

6 files changed

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‎casts/claude/skills/changeset-to-galaxy-test-plan/_provenance.json‎

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"path": "content/molds/changeset-to-galaxy-test-plan/index.md",
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"revision": 1,
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"content_hash": "8523a8cc48083cf6592561c3648d32ccb90c9a2f64f8dd11103a706f8e7e3f63",
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"commit": "6c76f40e203225bae1f8f917376141e06edcfd6a"
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"commit": "2e8ea5a6363235576bacfa5defd11492bbab6f94"
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},
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"cast_at": "2026-07-09T17:24:35.445Z",
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"cast_at": "2026-07-10T18:51:39.221Z",
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"refs": [
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{
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"kind": "research",
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"evidence": "cast-validated",
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"purpose": "Input contract: read the existing workflow's `tests[]` (the regression baseline) and its resolved input/output labels so baseline assertions bind to real labels.",
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"license": "MIT",
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"src_hash": "bc083ab266392f2c6659cfc78d74364fb5552a3d262c9f274bfb487857895ee3",
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"dst_hash": "bc083ab266392f2c6659cfc78d74364fb5552a3d262c9f274bfb487857895ee3",
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"src_hash": "eba7da0be524490192852b1eef112e1ab2323b21e7d738c9fe8aec602c41b63f",
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"dst_hash": "eba7da0be524490192852b1eef112e1ab2323b21e7d738c9fe8aec602c41b63f",
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"source": "deterministic"
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},
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{

‎casts/claude/skills/changeset-to-galaxy-test-plan/references/schemas/summary-galaxy-workflow.schema.json‎

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},
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"out": {
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"type": "array",
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"description": "Declared output names this step produces.",
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"description": "Declared outputs this step produces, each with any gxformat2 post-job actions preserved verbatim so a downstream change-set can address a hidden/renamed/tagged output.",
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"items": {
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"type": "string"
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"$ref": "#/$defs/StepOutput"
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}
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},
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"when": {
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}
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}
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},
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"StepOutput": {
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"type": "object",
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"additionalProperties": false,
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"required": [
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"id",
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"actions"
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],
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"properties": {
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"id": {
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"type": "string",
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"description": "Declared output name this step produces; the anchor edits and workflow outputs address."
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},
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"actions": {
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"type": [
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"object",
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"null"
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],
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"additionalProperties": true,
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"description": "Verbatim gxformat2 post-job actions on this output (e.g. hide, rename, add_tags, remove_tags, change_datatype, delete_intermediate), preserved uninterpreted like tool_state. Null when the output carries no actions."
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}
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}
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},
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"WorkflowGraph": {
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"type": "object",
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"additionalProperties": false,

‎casts/claude/skills/implement-galaxy-workflow-test/_provenance.json‎

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"path": "content/molds/implement-galaxy-workflow-test/index.md",
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"revision": 7,
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"content_hash": "7f68fe27b39a85abaf6c15f1647809b0d28c71753a7de463a52ffcd5e440f82a",
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"commit": "7e21e08dee76406496df85fe6d41e5096879f55d"
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"commit": "2e8ea5a6363235576bacfa5defd11492bbab6f94"
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},
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"cast_at": "2026-07-01T23:45:59.070Z",
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"cast_at": "2026-07-10T18:51:40.524Z",
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"refs": [
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{
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"kind": "cli-command",
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"purpose": "Input contract: read the schema-valid Galaxy test plan (job inputs, expected outputs, assertion intent, tolerances, label assumptions, unresolved mappings, omissions) and convert it into tests-format output, reconciling assumed labels and fixtures against the real draft.",
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"verification": "Consume a cast test plan from a *-test-to-galaxy-test-plan Mold and confirm tests-format output can be authored from it without re-reading the source summary.",
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"license": "MIT",
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"src_hash": "7bf899c777cb2757cbde359e86c481ef4b1a35b6a8270ed9f678c461226fd96b",
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"dst_hash": "7bf899c777cb2757cbde359e86c481ef4b1a35b6a8270ed9f678c461226fd96b",
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"src_hash": "7378ea527dd18279bd0c2426ed189cb2975dff7948ba1fc98796ac5bc9ce6bc0",
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"dst_hash": "7378ea527dd18279bd0c2426ed189cb2975dff7948ba1fc98796ac5bc9ce6bc0",
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"source": "deterministic"
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},
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{

‎casts/claude/skills/implement-galaxy-workflow-test/references/schemas/galaxy-workflow-test-plan.schema.json‎

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"$id": "https://galaxyproject.org/foundry/schemas/galaxy-workflow-test-plan.schema.json",
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"$comment": "Canonical source: packages/foundry/src/schemas/galaxy-workflow-test-plan/galaxy-workflow-test-plan.schema.json in galaxyproject/foundry. Mold frontmatter cites this schema via [[galaxy-workflow-test-plan]] wiki-links; the cast pipeline imports the `galaxyWorkflowTestPlanSchema` runtime export and serializes it into cast bundles. The on-disk artifact is YAML; validate it with `foundry validate-galaxy-workflow-test-plan`.",
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"title": "Galaxy Workflow Test Plan",
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"description": "Intermediate, reviewable Galaxy workflow test-plan handoff produced by a *-test-to-galaxy-test-plan Mold (nextflow, cwl, or freeform) and consumed by implement-galaxy-workflow-test. It preserves test intent, fixture provenance, assertion intent, tolerances, label assumptions, unresolved mappings, and intentional omissions before any concrete tests-format `*-tests.yml` is authored. It is NOT the final test artifact: assertion vocabulary is referenced by family name from the tests-format schema, not duplicated here.",
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"description": "Intermediate, reviewable Galaxy workflow test-plan handoff produced by a *-test-to-galaxy-test-plan Mold (nextflow, cwl, freeform, or galaxy) and consumed by implement-galaxy-workflow-test. It preserves test intent, fixture provenance, assertion intent, tolerances, label assumptions, unresolved mappings, and intentional omissions before any concrete tests-format `*-tests.yml` is authored. It is NOT the final test artifact: assertion vocabulary is referenced by family name from the tests-format schema, not duplicated here.",
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"type": "object",
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"additionalProperties": false,
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"required": [
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"enum": [
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"nextflow",
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"cwl",
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"freeform"
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"freeform",
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"galaxy"
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],
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"description": "Source family of the Galaxy-targeting translator that produced this plan."
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"description": "Source family of the Galaxy-targeting translator that produced this plan. galaxy denotes a Galaxy→Galaxy update plan carried forward from an existing Galaxy workflow's own tests (the changeset-to-galaxy-test-plan case)."
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},
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"name": {
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"type": "string",

‎casts/claude/skills/interview-to-galaxy-workflow-changeset/_provenance.json‎

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"path": "content/molds/interview-to-galaxy-workflow-changeset/index.md",
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"revision": 1,
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"content_hash": "3d6d8fc9dd09c98125a3ab4c0f7ae5972e85b5afc1707e2922c2e4132d2871a3",
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"commit": "e90a42769ba95218355e011fe62fb6daeaef28a7"
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"commit": "2e8ea5a6363235576bacfa5defd11492bbab6f94"
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},
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"cast_at": "2026-07-07T19:12:25.508Z",
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"cast_at": "2026-07-10T18:51:37.939Z",
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"refs": [
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{
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"kind": "research",
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"evidence": "cast-validated",
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"purpose": "Input contract: read the existing-workflow summary to anchor every change-set entry to a real step/input/output.",
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"license": "MIT",
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"src_hash": "bc083ab266392f2c6659cfc78d74364fb5552a3d262c9f274bfb487857895ee3",
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"dst_hash": "bc083ab266392f2c6659cfc78d74364fb5552a3d262c9f274bfb487857895ee3",
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"src_hash": "eba7da0be524490192852b1eef112e1ab2323b21e7d738c9fe8aec602c41b63f",
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"dst_hash": "eba7da0be524490192852b1eef112e1ab2323b21e7d738c9fe8aec602c41b63f",
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"source": "deterministic"
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}
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],

‎casts/claude/skills/interview-to-galaxy-workflow-changeset/references/schemas/summary-galaxy-workflow.schema.json‎

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},
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"out": {
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"type": "array",
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"description": "Declared output names this step produces.",
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"description": "Declared outputs this step produces, each with any gxformat2 post-job actions preserved verbatim so a downstream change-set can address a hidden/renamed/tagged output.",
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"items": {
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"type": "string"
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"$ref": "#/$defs/StepOutput"
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}
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},
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"when": {
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}
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}
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},
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"StepOutput": {
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"type": "object",
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"additionalProperties": false,
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"required": [
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"id",
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"actions"
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],
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"properties": {
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"id": {
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"type": "string",
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"description": "Declared output name this step produces; the anchor edits and workflow outputs address."
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},
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"actions": {
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"type": [
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"object",
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"null"
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],
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"additionalProperties": true,
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"description": "Verbatim gxformat2 post-job actions on this output (e.g. hide, rename, add_tags, remove_tags, change_datatype, delete_intermediate), preserved uninterpreted like tool_state. Null when the output carries no actions."
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}
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}
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},
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"WorkflowGraph": {
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"type": "object",
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"additionalProperties": false,

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