@galaxy-tool-util/connection-validation 1.13.1 → 1.15.0

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Files changed (7) hide show
  1. package/dist/connection-validator.d.ts.map +1 -1
  2. package/dist/connection-validator.js +23 -7
  3. package/dist/connection-validator.js.map +1 -1
  4. package/dist/graph-builder.d.ts.map +1 -1
  5. package/dist/graph-builder.js +21 -6
  6. package/dist/graph-builder.js.map +1 -1
  7. package/package.json +3 -3
package/dist/connection-validator.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"connection-validator.d.ts","sourceRoot":"","sources":["../src/connection-validator.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAmBH,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAC;AACtD,OAAO,KAAK,EAOV,iBAAiB,EACjB,wBAAwB,EACxB,aAAa,EACd,MAAM,YAAY,CAAC;AAEpB,wBAAgB,mBAAmB,CACjC,QAAQ,EAAE,OAAO,EACjB,WAAW,EAAE,WAAW,GACvB,wBAAwB,CAI1B;AAED,wBAAgB,uBAAuB,CACrC,KAAK,EAAE,aAAa,EACpB,eAAe,CAAC,EAAE,iBAAiB,GAClC,CAAC,wBAAwB,EAAE,iBAAiB,CAAC,CAgF/C"}
1
+ {"version":3,"file":"connection-validator.d.ts","sourceRoot":"","sources":["../src/connection-validator.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAmBH,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAC;AACtD,OAAO,KAAK,EAOV,iBAAiB,EACjB,wBAAwB,EACxB,aAAa,EACd,MAAM,YAAY,CAAC;AAEpB,wBAAgB,mBAAmB,CACjC,QAAQ,EAAE,OAAO,EACjB,WAAW,EAAE,WAAW,GACvB,wBAAwB,CAI1B;AAED,wBAAgB,uBAAuB,CACrC,KAAK,EAAE,aAAa,EACpB,eAAe,CAAC,EAAE,iBAAiB,GAClC,CAAC,wBAAwB,EAAE,iBAAiB,CAAC,CAsF/C"}
package/dist/connection-validator.js CHANGED
@@ -47,6 +47,7 @@ export function validateConnectionGraph(graph, seedOutputTypes) {
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  continue;
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  }
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  const mapOverContributions = [];
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+ let mapOverUnknown = false;
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  for (const [inputPath, refs] of Object.entries(step.connections)) {
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  for (const ref of refs) {
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  const connResult = _validateSingleConnection(ref.sourceStep, ref.outputName, stepId, inputPath, step.inputs[inputPath], resolvedOutputTypes);
@@ -54,20 +55,28 @@ export function validateConnectionGraph(graph, seedOutputTypes) {
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  if (connResult.status === "ok" && connResult.mapping) {
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  mapOverContributions.push(new CollectionTypeDescription(connResult.mapping));
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  }
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- else if (connResult.status === "ok" || connResult.status === "skip") {
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+ else if (connResult.status === "ok") {
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  mapOverContributions.push(null);
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  }
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+ else if (connResult.status === "skip") {
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+ mapOverUnknown = true;
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+ }
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  }
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  }
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  const stepMapOver = _resolveStepMapOver(mapOverContributions, stepResult);
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- if (stepMapOver) {
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- stepResult.mapOver = stepMapOver.collectionType;
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- }
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- if (step.stepType === "subworkflow" && step.innerGraph) {
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- _resolveSubworkflowOutputs(step, resolvedOutputTypes);
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+ if (mapOverUnknown) {
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+ _markOutputsUnknown(step, resolvedOutputTypes);
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  }
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  else {
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- _resolveOutputTypes(step, stepMapOver, resolvedOutputTypes);
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+ if (stepMapOver) {
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+ stepResult.mapOver = stepMapOver.collectionType;
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+ }
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+ if (step.stepType === "subworkflow" && step.innerGraph) {
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+ _resolveSubworkflowOutputs(step, resolvedOutputTypes);
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+ }
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+ else {
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+ _resolveOutputTypes(step, stepMapOver, resolvedOutputTypes);
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+ }
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  }
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  stepResults.push(stepResult);
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  }
@@ -78,6 +87,13 @@ export function validateConnectionGraph(graph, seedOutputTypes) {
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  };
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  return [result, resolvedOutputTypes];
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  }
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+ /** A skipped edge leaves map-over unknown, so every output could be any collection. */
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+ function _markOutputsUnknown(step, resolvedOutputTypes) {
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+ const outputs = resolvedOutputTypes[step.stepId];
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+ for (const outputName of [...Object.keys(outputs), ...Object.keys(step.subworkflowOutputMap)]) {
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+ outputs[outputName] = ANY_COLLECTION_TYPE_DESCRIPTION;
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+ }
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+ }
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  function _isValid(stepResults) {
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  for (const sr of stepResults) {
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  if (sr.errors.length > 0)
package/dist/connection-validator.js.map CHANGED
@@ -1 +1 @@
1
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  */
7
7
  import { normalizedNative } from "@galaxy-tool-util/schema";
8
8
  import { toNative } from "@galaxy-tool-util/schema";
9
+ import { RuleSet } from "@galaxy-tool-util/workflow-graph";
9
10
  import { ensureInlineResolver, resolveForStep } from "./inline-resolver.js";
10
11
  import { topsort } from "./topsort.js";
11
12
  const PARAMETER_INPUT_TYPES = new Set([
@@ -114,12 +115,7 @@ function _resolveToolStep(stepId, step, getToolInfo) {
114
115
  if (parsed) {
115
116
  inputs = _collectInputs(parsed.inputs, step.tool_state ?? {});
116
117
  outputs = _collectOutputs(parsed.outputs);
117
- // Python additionally calls _resolve_rules_collection_types here to
118
- // populate `collection_type` from a RuleSet mapping when the output
119
- // declares `collection_type_from_rules`. RuleSet (galaxy.util.rules_dsl)
120
- // is not yet ported — affected outputs stay unresolved (ANY) instead of
121
- // gaining a concrete type. Outputs without rules-driven types behave
122
- // identically to Python.
118
+ _resolveRulesCollectionTypes(outputs, step.tool_state ?? {});
123
119
  }
124
120
  if (step.when && "when" in connections) {
125
121
  inputs.when = { name: "when", statePath: "when", type: "boolean" };
@@ -352,6 +348,25 @@ function _collectOutputs(rawOutputs) {
352
348
  }
353
349
  return result;
354
350
  }
351
+ /** Set `collectionType` on `collection_type_from_rules` outputs from the step's rules mapping. */
352
+ function _resolveRulesCollectionTypes(outputs, toolState) {
353
+ for (const output of Object.values(outputs)) {
354
+ const rulesParam = output.collectionTypeFromRules;
355
+ if (!rulesParam || output.collectionType)
356
+ continue;
357
+ const rules = toolState[rulesParam];
358
+ if (!rules || typeof rules !== "object" || !("mapping" in rules))
359
+ continue;
360
+ try {
361
+ const collectionType = new RuleSet(rules).collectionType;
362
+ if (collectionType)
363
+ output.collectionType = collectionType;
364
+ }
365
+ catch {
366
+ // Malformed rules leave the output untyped, as in Python.
367
+ }
368
+ }
369
+ }
355
370
  function _topologicalSort(steps) {
356
371
  const allIds = new Set(Object.keys(steps));
357
372
  const pairs = [];
package/dist/graph-builder.js.map CHANGED
@@ -1 +1 @@
1
- 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package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@galaxy-tool-util/connection-validation",
3
- "version": "1.13.1",
3
+ "version": "1.15.0",
4
4
  "description": "Connection validator for Galaxy workflows — port of galaxy.tool_util.workflow_state.connection_validation",
5
5
  "type": "module",
6
6
  "sideEffects": false,
@@ -36,8 +36,8 @@
36
36
  "yaml": "^2.8.3"
37
37
  },
38
38
  "dependencies": {
39
- "@galaxy-tool-util/workflow-graph": "1.2.0",
40
- "@galaxy-tool-util/schema": "1.13.1"
39
+ "@galaxy-tool-util/schema": "1.15.0",
40
+ "@galaxy-tool-util/workflow-graph": "1.15.0"
41
41
  },
42
42
  "scripts": {
43
43
  "build": "tsc",