@nfdi4plants/arctrl 3.2.3 → 3.3.1

package/dist/ts/ts/CWL/ScalarQuoting.d.ts

@@ -0,0 +1,51 @@
+import { YamlNode, YamlScalar } from '../fable_modules/YAMLicious.2.0.0/Model.fs.js';
+import { Option } from '@fable-org/fable-library-ts/Option.ts';
+/**
+ * True when the loader of cwltool or a reader of YAML 1.1 reads the text, written as a plain scalar, as another type than
+ * a string, and the core schema reads it as a string. The loader types the markers, the numbers with underscores and the
+ * binary ints (see the description of the module). The words yes, no, on and off and the sexagesimal numbers are in the
+ * match for the readers of YAML 1.1, because the loader reads them as strings. The match is on the whole text and it is
+ * case-sensitive. A spelling that the loader recognizes but cannot construct, such as ._ and 0b_, counts too, because
+ * the loader fails on it.
+ */
+export declare function readsAsAnotherTypeThanCore(text: string): boolean;
+/**
+ * True when the text holds a NEL (U+0085), a line separator (U+2028) or a paragraph separator (U+2029). The loader of
+ * cwltool reads them as line breaks, in a plain scalar and in a block scalar, where they fold, vanish at the ends of
+ * the text or split it. The core schema of YAML 1.2.2 reads them as characters. A double-quoted scalar holds them as
+ * escapes.
+ */
+export declare function holdsLineBreakCharacter(text: string): boolean;
+/**
+ * True when a string needs double quotes to stay a string for the core schema or for the loader of cwltool.
+ */
+export declare function readsAsAnotherType(text: string): boolean;
+/**
+ * A plain scalar that a reader would take for another type than a string gets double quotes, so the text stays a
+ * string. A block scalar whose text holds a character that the loader reads as a line break gets double quotes too. It
+ * loses the layout of its lines, which only a block scalar has, and its header comment becomes the trailing comment of
+ * the quoted scalar. A scalar in any other style is a string already, and so is a scalar with an explicit tag.
+ */
+export declare function keepAsText(node: YamlNode): YamlNode;
+/**
+ * The scalar for a text of a document that stays a string, such as a key or an id.
+ */
+export declare function textNode(text: string): YamlNode;
+/**
+ * A scalar of a value that the document keeps as it was written, in the form that the writer spells. A plain scalar
+ * that the core schema reads as a string and that the loader of cwltool reads as another type gets double quotes. A
+ * plain float with a dot in front of its digits and an exponent without a sign gets a zero in front of the dot,
+ * because the loader reads it as a string. Every other scalar stays as it is, so the function is idempotent. The result
+ * is none for a scalar that stays as it is.
+ */
+export declare function tryNormalizeScalar(scalar: YamlScalar): Option<YamlScalar>;
+/**
+ * The scalar in the form that the writer spells (see tryNormalizeScalar).
+ */
+export declare function normalizeScalar(scalar: YamlScalar): YamlScalar;
+/**
+ * The tree with every scalar, key or value, in the form that the writer spells (see normalizeScalar). A node
+ * that needs no change stays the same object. The walk keeps its own stack, so a tree of any depth is safe.
+ */
+export declare function normalizeTree(root: YamlNode): YamlNode;
+//# sourceMappingURL=ScalarQuoting.d.ts.map

package/dist/ts/ts/CWL/ScalarQuoting.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"ScalarQuoting.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/CWL/ScalarQuoting.ts"],"names":[],"mappings":"AAKA,OAAO,EAA+G,QAAQ,EAAuB,UAAU,EAAwD,MAAM,+CAA+C,CAAC;AAG7Q,OAAO,EAAc,MAAM,EAAE,MAAM,uCAAuC,CAAC;AAwB3E;;;;;;;GAOG;AACH,wBAAgB,0BAA0B,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAOhE;AAED;;;;;GAKG;AACH,wBAAgB,uBAAuB,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAS7D;AAWD;;GAEG;AACH,wBAAgB,kBAAkB,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAOxD;AAED;;;;;GAKG;AACH,wBAAgB,UAAU,CAAC,IAAI,EAAE,QAAQ,GAAG,QAAQ,CAqDnD;AAED;;GAEG;AACH,wBAAgB,QAAQ,CAAC,IAAI,EAAE,MAAM,GAAG,QAAQ,CAE/C;AAED;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAAC,MAAM,EAAE,UAAU,GAAG,MAAM,CAAC,UAAU,CAAC,CAwCzE;AAED;;GAEG;AACH,wBAAgB,eAAe,CAAC,MAAM,EAAE,UAAU,GAAG,UAAU,CAE9D;AAoDD;;;GAGG;AACH,wBAAgB,aAAa,CAAC,IAAI,EAAE,QAAQ,GAAG,QAAQ,CAoDtD"}

package/dist/ts/ts/CWL/ScalarQuoting.js

@@ -0,0 +1,250 @@
+import { isMatch } from '../../node_modules/@fable-org/fable-library-ts/RegExp.js';
+import { getCharAtIndex, substring } from '../../node_modules/@fable-org/fable-library-ts/String.js';
+import { exists, toArray, delay, map, collect, append, singleton } from '../../node_modules/@fable-org/fable-library-ts/Seq.js';
+import { CoreSchema_resolvesToNonString, CoreSchema_resolveKind } from '../fable_modules/YAMLicious.2.0.0/CoreSchema.fs.js';
+import { YamlNode, YamlNodeKind_Scalar, YamlScalar, ScalarStyle, YamlNode_$reflection, YamlNodeKind_Sequence, Collection$1, SequenceItem, YamlNodeKind_Mapping, MappingEntry } from '../fable_modules/YAMLicious.2.0.0/Model.fs.js';
+import { Encode_string } from '../fable_modules/YAMLicious.2.0.0/Encode.fs.js';
+import { defaultArg } from '../../node_modules/@fable-org/fable-library-ts/Option.js';
+import { Record } from '../../node_modules/@fable-org/fable-library-ts/Types.js';
+import { record_type, array_type, bool_type } from '../../node_modules/@fable-org/fable-library-ts/Reflection.js';
+import { mapIndexed } from '../../node_modules/@fable-org/fable-library-ts/List.js';
+import { item } from '../../node_modules/@fable-org/fable-library-ts/Array.js';
+
+const boolWords = /^(?:y|Y|yes|Yes|YES|n|N|no|No|NO|on|On|ON|off|Off|OFF)$/gu;
+const intSpellings = /^[-+]?(?:0b[0-1_]+|0o?[0-7_]+|[0-9_]+|0x[0-9a-fA-F_]+|[1-9][0-9_]*(?::[0-5]?[0-9])+)$/gu;
+const floatSpellings = /^(?:[-+]?(?:[0-9][0-9_]*\.[0-9_]*(?:[eE][-+]?[0-9]+)?|[0-9][0-9_]*[eE][-+]?[0-9]+|\.[0-9_]+(?:[eE][-+][0-9]+)?|[0-9][0-9_]*(?::[0-5]?[0-9])+\.[0-9_]*|\.(?:inf|Inf|INF))|\.(?:nan|NaN|NAN))$/gu;
+const dotFloatWithUnsignedExponent = /^[-+]?\.[0-9]+[eE][0-9]+$/gu;
+function matches(pattern, text) {
+  if (!(text.indexOf("\n") >= 0)) {
+    return isMatch(pattern, text);
+  } else {
+    return false;
+  }
+}
+function readsAsAnotherTypeThanCore(text) {
+  if (((text === "=" ? true : text === "<<") ? true : matches(boolWords, text)) ? true : text.length > 0 && "-+0123456789".indexOf(getCharAtIndex(text, 0)) >= 0 && matches(intSpellings, text)) {
+    return true;
+  } else {
+    return matches(floatSpellings, text);
+  }
+}
+function holdsLineBreakCharacter(text) {
+  return exists((c) => {
+    if (c === "…" ? true : c === "\u2028") {
+      return true;
+    } else {
+      return c === "\u2029";
+    }
+  }, text.split(""));
+}
+function readsAsAnotherString(text) {
+  if (text.startsWith("?") ? true : holdsLineBreakCharacter(text)) {
+    return true;
+  } else {
+    return exists((c) => c === "	", text.split(""));
+  }
+}
+function readsAsAnotherType(text) {
+  if (CoreSchema_resolvesToNonString(text) ? true : readsAsAnotherTypeThanCore(text)) {
+    return true;
+  } else {
+    return readsAsAnotherString(text);
+  }
+}
+function keepAsText(node) {
+  const matchValue = node.Kind;
+  let matchResult = void 0, scalar_1 = void 0;
+  if (matchValue.tag === /* Scalar */
+  0) {
+    if (matchValue.fields[0], node.Properties.Tag == null) {
+      matchResult = 0;
+      scalar_1 = matchValue.fields[0];
+    } else {
+      matchResult = 1;
+    }
+  } else {
+    matchResult = 1;
+  }
+  switch (matchResult) {
+    case 0: {
+      const matchValue_1 = scalar_1.Style;
+      let matchResult_1 = void 0;
+      switch (matchValue_1.tag) {
+        case /* Plain */
+        0: {
+          if (readsAsAnotherType(scalar_1.Value)) {
+            matchResult_1 = 0;
+          } else {
+            matchResult_1 = 2;
+          }
+          break;
+        }
+        case /* Block */
+        3: {
+          if (holdsLineBreakCharacter(scalar_1.Value)) {
+            matchResult_1 = 1;
+          } else {
+            matchResult_1 = 2;
+          }
+          break;
+        }
+        default:
+          matchResult_1 = 2;
+      }
+      switch (matchResult_1) {
+        case 0:
+          return new YamlNode(YamlNodeKind_Scalar(new YamlScalar(scalar_1.Value, ScalarStyle.DoubleQuoted, scalar_1.HeaderComment, scalar_1.Layout)), node.Properties, node.PropertyLayout, node.TrailingComment, node.Span);
+        case 1:
+          return new YamlNode(YamlNodeKind_Scalar(new YamlScalar(scalar_1.Value, ScalarStyle.DoubleQuoted, void 0, void 0)), node.Properties, node.PropertyLayout, scalar_1.HeaderComment, node.Span);
+        default:
+          return node;
+      }
+    }
+    default:
+      return node;
+  }
+}
+function textNode(text) {
+  return keepAsText(Encode_string(text));
+}
+function tryNormalizeScalar(scalar) {
+  if (scalar.Style.tag === /* Plain */
+  0) {
+    const matchValue_1 = CoreSchema_resolveKind(scalar.Value);
+    let matchResult = void 0;
+    switch (matchValue_1.tag) {
+      case /* Str */
+      4: {
+        if (readsAsAnotherTypeThanCore(scalar.Value)) {
+          matchResult = 0;
+        } else {
+          matchResult = 2;
+        }
+        break;
+      }
+      case /* Float */
+      3: {
+        if (matches(dotFloatWithUnsignedExponent, scalar.Value)) {
+          matchResult = 1;
+        } else {
+          matchResult = 2;
+        }
+        break;
+      }
+      default:
+        matchResult = 2;
+    }
+    switch (matchResult) {
+      case 0:
+        return new YamlScalar(scalar.Value, ScalarStyle.DoubleQuoted, scalar.HeaderComment, scalar.Layout);
+      case 1: {
+        const sign = (getCharAtIndex(scalar.Value, 0) === "-" ? true : getCharAtIndex(scalar.Value, 0) === "+") ? substring(scalar.Value, 0, 1) : "";
+        return new YamlScalar(sign + "0" + substring(scalar.Value, sign.length), scalar.Style, scalar.HeaderComment, scalar.Layout);
+      }
+      default:
+        return void 0;
+    }
+  } else {
+    return void 0;
+  }
+}
+function normalizeScalar(scalar) {
+  return defaultArg(tryNormalizeScalar(scalar), scalar);
+}
+class RebuildFrame extends Record {
+  constructor(Original, Children, Rebuilt, Changed) {
+    super();
+    this.Original = Original;
+    this.Children = Children;
+    this.Rebuilt = Rebuilt;
+    this.Changed = Changed;
+  }
+}
+function RebuildFrame_$reflection() {
+  return record_type("ARCtrl.CWL.ScalarQuoting.RebuildFrame", [], RebuildFrame, () => [["Original", YamlNode_$reflection()], ["Children", array_type(YamlNode_$reflection())], ["Rebuilt", array_type(YamlNode_$reflection())], ["Changed", bool_type]]);
+}
+function childrenOf(node) {
+  const matchValue = node.Kind;
+  switch (matchValue.tag) {
+    case /* Mapping */
+    1: {
+      const collection = matchValue.fields[0];
+      return toArray(delay(() => collect((entry) => append(singleton(entry.Key), delay(() => singleton(entry.Value))), collection.Items)));
+    }
+    case /* Sequence */
+    2: {
+      const collection_1 = matchValue.fields[0];
+      return toArray(delay(() => map((item) => item.Node, collection_1.Items)));
+    }
+    default:
+      return [];
+  }
+}
+function withChildren(node, children) {
+  const matchValue = node.Kind;
+  switch (matchValue.tag) {
+    case /* Mapping */
+    1: {
+      const collection = matchValue.fields[0];
+      return new YamlNode(YamlNodeKind_Mapping(new Collection$1(collection.Style, collection.OpeningComment, mapIndexed((index, entry) => new MappingEntry(entry.Before, entry.Question, item(2 * index, children), entry.BeforeColon, entry.Colon, item(2 * index + 1, children), entry.Span), collection.Items), collection.End)), node.Properties, node.PropertyLayout, node.TrailingComment, node.Span);
+    }
+    case /* Sequence */
+    2: {
+      const collection_1 = matchValue.fields[0];
+      return new YamlNode(YamlNodeKind_Sequence(new Collection$1(collection_1.Style, collection_1.OpeningComment, mapIndexed((index_1, item$1) => new SequenceItem(item$1.Before, item$1.Dash, item(index_1, children), item$1.Span), collection_1.Items), collection_1.End)), node.Properties, node.PropertyLayout, node.TrailingComment, node.Span);
+    }
+    default:
+      return node;
+  }
+}
+function normalizeTree(root) {
+  const frames = [];
+  const enter = (node_1) => {
+    let node = void 0, matchValue = void 0, matchValue_1 = void 0;
+    const children = childrenOf(node_1);
+    if (children.length === 0) {
+      return node = node_1, matchValue = node.Kind, matchValue.tag === /* Scalar */
+      0 ? (matchValue_1 = tryNormalizeScalar(matchValue.fields[0]), matchValue_1 == null ? [node, false] : [new YamlNode(YamlNodeKind_Scalar(matchValue_1), node.Properties, node.PropertyLayout, node.TrailingComment, node.Span), true]) : [node, false];
+    } else {
+      void frames.push(new RebuildFrame(node_1, children, [], false));
+      return void 0;
+    }
+  };
+  let result = [root, false];
+  const matchValue_2 = enter(root);
+  if (matchValue_2 == null) {
+    while (frames.length > 0) {
+      const top = item(frames.length - 1, frames);
+      if (top.Rebuilt.length < top.Children.length) {
+        const matchValue_3 = enter(item(top.Rebuilt.length, top.Children));
+        if (matchValue_3 == null) {
+        } else {
+          const node_2 = matchValue_3[0];
+          const changed = matchValue_3[1];
+          void top.Rebuilt.push(node_2);
+          if (changed) {
+            top.Changed = true;
+          }
+        }
+      } else {
+        frames.splice(frames.length - 1, 1);
+        const rebuilt = top.Changed ? withChildren(top.Original, top.Rebuilt) : top.Original;
+        if (frames.length === 0) {
+          result = [rebuilt, top.Changed];
+        } else {
+          const parent = item(frames.length - 1, frames);
+          void parent.Rebuilt.push(rebuilt);
+          if (top.Changed) {
+            parent.Changed = true;
+          }
+        }
+      }
+    }
+  } else {
+    const leaf = matchValue_2;
+    result = leaf;
+  }
+  return result[0];
+}
+
+export { holdsLineBreakCharacter, keepAsText, normalizeScalar, normalizeTree, readsAsAnotherType, readsAsAnotherTypeThanCore, textNode, tryNormalizeScalar };

package/dist/ts/ts/CWL/ToolDescription.d.ts

@@ -1,6 +1,6 @@
 import { Option } from '@fable-org/fable-library-ts/Option.ts';
+import { SourceNodes, DocText_$union, RawYaml, SchemaSaladString_$union, ListEntry$1_$union } from './CWLTypes.ts';
 import { CWLOutput } from './Outputs.ts';
-import { YAMLElement_$union } from '../fable_modules/YAMLicious.1.0.0/YAMLiciousTypes.fs.js';
 import { int32 } from '@fable-org/fable-library-ts/Int32.ts';
 import { HintEntry_$union, Requirement_$union } from './Requirements.ts';
 import { CWLInput } from './Inputs.ts';
@@ -10,72 +10,85 @@ import { TypeInfo } from '@fable-org/fable-library-ts/Reflection.ts';
 export declare class CWLToolDescription extends DynamicObj {
     _id: Option<string>;
     _cwlVersion: string;
-    _outputs: CWLOutput[];
-    _baseCommand: Option<string[]>;
-    _arguments: Option<YAMLElement_$union>;
-    _stdin: Option<string>;
-    _stderr: Option<string>;
-    _stdout: Option<string>;
-    _successCodes: Option<int32[]>;
-    _temporaryFailCodes: Option<int32[]>;
-    _permanentFailCodes: Option<int32[]>;
+    _outputs: ListEntry$1_$union<CWLOutput>[];
+    _baseCommand: Option<SchemaSaladString_$union[]>;
+    _arguments: Option<RawYaml>;
+    _stdin: Option<SchemaSaladString_$union>;
+    _stderr: Option<SchemaSaladString_$union>;
+    _stdout: Option<SchemaSaladString_$union>;
+    _successCodes: Option<ListEntry$1_$union<int32>[]>;
+    _temporaryFailCodes: Option<ListEntry$1_$union<int32>[]>;
+    _permanentFailCodes: Option<ListEntry$1_$union<int32>[]>;
     _requirements: Option<Requirement_$union[]>;
     _hints: Option<HintEntry_$union[]>;
-    _intent: Option<string[]>;
-    _inputs: Option<CWLInput[]>;
+    _intent: Option<SchemaSaladString_$union[]>;
+    _inputs: Option<ListEntry$1_$union<CWLInput>[]>;
     _metadata: Option<DynamicObj>;
-    _label: Option<string>;
-    _doc: Option<string>;
-    constructor(outputs: CWLOutput[], cwlVersion?: string, baseCommand?: string[], arguments$?: YAMLElement_$union, stdin?: string, stderr?: string, stdout?: string, successCodes?: int32[], temporaryFailCodes?: int32[], permanentFailCodes?: int32[], requirements?: Requirement_$union[], hints?: HintEntry_$union[], intent?: string[], inputs?: CWLInput[], metadata?: DynamicObj, label?: string, doc?: string, id?: string);
+    _label: Option<SchemaSaladString_$union>;
+    _doc: Option<DocText_$union>;
+    _sourceNodes: SourceNodes;
+    constructor(outputs: ListEntry$1_$union<CWLOutput>[], cwlVersion?: string, baseCommand?: SchemaSaladString_$union[], arguments$?: RawYaml, stdin?: SchemaSaladString_$union, stderr?: SchemaSaladString_$union, stdout?: SchemaSaladString_$union, successCodes?: ListEntry$1_$union<int32>[], temporaryFailCodes?: ListEntry$1_$union<int32>[], permanentFailCodes?: ListEntry$1_$union<int32>[], requirements?: Requirement_$union[], hints?: HintEntry_$union[], intent?: SchemaSaladString_$union[], inputs?: ListEntry$1_$union<CWLInput>[], metadata?: DynamicObj, label?: SchemaSaladString_$union, doc?: DocText_$union, id?: string);
     get Id(): string | undefined;
     set Id(id: Option<string>);
     get CWLVersion(): string;
     set CWLVersion(version: string);
-    get Outputs(): CWLOutput[];
-    set Outputs(outputs: CWLOutput[]);
-    get BaseCommand(): string[] | undefined;
-    set BaseCommand(baseCommand: Option<string[]>);
-    get Arguments(): YAMLElement_$union | undefined;
-    set Arguments(value: Option<YAMLElement_$union>);
-    get Stdin(): string | undefined;
-    set Stdin(value: Option<string>);
-    get Stderr(): string | undefined;
-    set Stderr(value: Option<string>);
-    get Stdout(): string | undefined;
-    set Stdout(value: Option<string>);
-    get SuccessCodes(): int32[] | undefined;
-    set SuccessCodes(value: Option<int32[]>);
-    get TemporaryFailCodes(): int32[] | undefined;
-    set TemporaryFailCodes(value: Option<int32[]>);
-    get PermanentFailCodes(): int32[] | undefined;
-    set PermanentFailCodes(value: Option<int32[]>);
+    get Outputs(): ListEntry$1_$union<CWLOutput>[];
+    set Outputs(outputs: ListEntry$1_$union<CWLOutput>[]);
+    get BaseCommand(): SchemaSaladString_$union[] | undefined;
+    set BaseCommand(baseCommand: Option<SchemaSaladString_$union[]>);
+    get Arguments(): RawYaml | undefined;
+    set Arguments(value: Option<RawYaml>);
+    get Stdin(): SchemaSaladString_$union | undefined;
+    set Stdin(value: Option<SchemaSaladString_$union>);
+    get Stderr(): SchemaSaladString_$union | undefined;
+    set Stderr(value: Option<SchemaSaladString_$union>);
+    get Stdout(): SchemaSaladString_$union | undefined;
+    set Stdout(value: Option<SchemaSaladString_$union>);
+    get SuccessCodes(): ListEntry$1_$union<int32>[] | undefined;
+    set SuccessCodes(value: Option<ListEntry$1_$union<int32>[]>);
+    get TemporaryFailCodes(): ListEntry$1_$union<int32>[] | undefined;
+    set TemporaryFailCodes(value: Option<ListEntry$1_$union<int32>[]>);
+    get PermanentFailCodes(): ListEntry$1_$union<int32>[] | undefined;
+    set PermanentFailCodes(value: Option<ListEntry$1_$union<int32>[]>);
     get Requirements(): Requirement_$union[] | undefined;
     set Requirements(requirements: Option<Requirement_$union[]>);
     get Hints(): HintEntry_$union[] | undefined;
     set Hints(hints: Option<HintEntry_$union[]>);
-    get Intent(): string[] | undefined;
-    set Intent(intent: Option<string[]>);
-    get Inputs(): CWLInput[] | undefined;
-    set Inputs(inputs: Option<CWLInput[]>);
+    get Intent(): SchemaSaladString_$union[] | undefined;
+    set Intent(intent: Option<SchemaSaladString_$union[]>);
+    get Inputs(): ListEntry$1_$union<CWLInput>[] | undefined;
+    set Inputs(inputs: Option<ListEntry$1_$union<CWLInput>[]>);
     get Metadata(): DynamicObj | undefined;
     set Metadata(metadata: Option<DynamicObj>);
-    get Label(): string | undefined;
-    set Label(label: Option<string>);
-    get Doc(): string | undefined;
-    set Doc(doc: Option<string>);
+    get Label(): SchemaSaladString_$union | undefined;
+    set Label(label: Option<SchemaSaladString_$union>);
+    get Doc(): DocText_$union | undefined;
+    set Doc(doc: Option<DocText_$union>);
+    /**
+     * The nodes that the doc and the label were read from. The encoder writes the layout of the author from them.
+     * They stay out of the equality and the hash of the object.
+     */
+    get SourceNodes(): SourceNodes;
+    /**
+     * The nodes that the doc and the label were read from. The encoder writes the layout of the author from them.
+     * They stay out of the equality and the hash of the object.
+     */
+    set SourceNodes(value: SourceNodes);
     static get KnownFieldNames(): FSharpSet<string>;
     /**
-     * Returns the tool's inputs or an empty ResizeArray if None.
+     * Returns a new list of the inputs of the tool that are objects, or an empty list. The imports and the mixins are left
+     * out, so a change of the list changes nothing in the tool. The entries of the tool are in Inputs.
      */
-    static getInputsOrEmpty(tool: CWLToolDescription): CWLInput[];
+    static getInputValuesOrEmpty(tool: CWLToolDescription): CWLInput[];
     /**
-     * Returns the tool's outputs.
+     * Returns a new list of the outputs of the tool that are objects. The imports and the mixins are left out, so a change
+     * of the list changes nothing in the tool. The entries of the tool are in Outputs.
      */
-    static getOutputs(tool: CWLToolDescription): CWLOutput[];
+    static getOutputValues(tool: CWLToolDescription): CWLOutput[];
     /**
-     * Returns the tool's inputs, creating and assigning a new empty ResizeArray if None.
+     * Returns the entries of the tool's inputs, creating and assigning a new empty ResizeArray if None.
      */
-    static getOrCreateInputs(tool: CWLToolDescription): CWLInput[];
+    static getOrCreateInputs(tool: CWLToolDescription): ListEntry$1_$union<CWLInput>[];
     /**
      * Returns the tool's requirements or an empty ResizeArray if None.
      */
@@ -87,7 +100,7 @@ export declare class CWLToolDescription extends DynamicObj {
     /**
      * Returns the tool's intent or an empty ResizeArray if None.
      */
-    static getIntentOrEmpty(tool: CWLToolDescription): string[];
+    static getIntentOrEmpty(tool: CWLToolDescription): SchemaSaladString_$union[];
     /**
      * Returns the tool's hints, creating and assigning a new empty ResizeArray if None.
      */
@@ -95,8 +108,8 @@ export declare class CWLToolDescription extends DynamicObj {
     /**
      * Returns the tool's intent, creating and assigning a new empty ResizeArray if None.
      */
-    static getOrCreateIntent(tool: CWLToolDescription): string[];
+    static getOrCreateIntent(tool: CWLToolDescription): SchemaSaladString_$union[];
 }
 export declare function CWLToolDescription_$reflection(): TypeInfo;
-export declare function CWLToolDescription_$ctor_Z5BAE825A(outputs: CWLOutput[], cwlVersion?: string, baseCommand?: string[], arguments$?: YAMLElement_$union, stdin?: string, stderr?: string, stdout?: string, successCodes?: int32[], temporaryFailCodes?: int32[], permanentFailCodes?: int32[], requirements?: Requirement_$union[], hints?: HintEntry_$union[], intent?: string[], inputs?: CWLInput[], metadata?: DynamicObj, label?: string, doc?: string, id?: string): CWLToolDescription;
+export declare function CWLToolDescription_$ctor_Z45149AC1(outputs: ListEntry$1_$union<CWLOutput>[], cwlVersion?: string, baseCommand?: SchemaSaladString_$union[], arguments$?: RawYaml, stdin?: SchemaSaladString_$union, stderr?: SchemaSaladString_$union, stdout?: SchemaSaladString_$union, successCodes?: ListEntry$1_$union<int32>[], temporaryFailCodes?: ListEntry$1_$union<int32>[], permanentFailCodes?: ListEntry$1_$union<int32>[], requirements?: Requirement_$union[], hints?: HintEntry_$union[], intent?: SchemaSaladString_$union[], inputs?: ListEntry$1_$union<CWLInput>[], metadata?: DynamicObj, label?: SchemaSaladString_$union, doc?: DocText_$union, id?: string): CWLToolDescription;
 //# sourceMappingURL=ToolDescription.d.ts.map

package/dist/ts/ts/CWL/ToolDescription.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"ToolDescription.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/CWL/ToolDescription.ts"],"names":[],"mappings":"AACA,OAAO,EAAc,MAAM,EAAU,MAAM,uCAAuC,CAAC;AACnF,OAAO,EAAsC,WAAW,EAAE,cAAc,EAAE,OAAO,EAAE,wBAAwB,EAAE,kBAAkB,EAAE,MAAM,eAAe,CAAC;AACvJ,OAAO,EAAE,SAAS,EAAE,MAAM,cAAc,CAAC;AACzC,OAAO,EAAE,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAC7D,OAAO,EAAE,gBAAgB,EAAE,kBAAkB,EAAE,MAAM,mBAAmB,CAAC;AACzE,OAAO,EAAE,QAAQ,EAAE,MAAM,aAAa,CAAC;AACvC,OAAO,EAA0B,UAAU,EAAE,MAAM,oDAAoD,CAAC;AAExG,OAAO,EAAE,SAAS,EAAE,MAAM,oCAAoC,CAAC;AAC/D,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAEjF,qBAAa,kBAAmB,SAAQ,UAAU;IAC9C,GAAG,EAAE,MAAM,CAAC,MAAM,CAAC,CAAC;IACpB,WAAW,EAAE,MAAM,CAAC;IACpB,QAAQ,EAAE,kBAAkB,CAAC,SAAS,CAAC,EAAE,CAAC;IAC1C,YAAY,EAAE,MAAM,CAAC,wBAAwB,EAAE,CAAC,CAAC;IACjD,UAAU,EAAE,MAAM,CAAC,OAAO,CAAC,CAAC;IAC5B,MAAM,EAAE,MAAM,CAAC,wBAAwB,CAAC,CAAC;IACzC,OAAO,EAAE,MAAM,CAAC,wBAAwB,CAAC,CAAC;IAC1C,OAAO,EAAE,MAAM,CAAC,wBAAwB,CAAC,CAAC;IAC1C,aAAa,EAAE,MAAM,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACnD,mBAAmB,EAAE,MAAM,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACzD,mBAAmB,EAAE,MAAM,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACzD,aAAa,EAAE,MAAM,CAAC,kBAAkB,EAAE,CAAC,CAAC;IAC5C,MAAM,EAAE,MAAM,CAAC,gBAAgB,EAAE,CAAC,CAAC;IACnC,OAAO,EAAE,MAAM,CAAC,wBAAwB,EAAE,CAAC,CAAC;IAC5C,OAAO,EAAE,MAAM,CAAC,kBAAkB,CAAC,QAAQ,CAAC,EAAE,CAAC,CAAC;IAChD,SAAS,EAAE,MAAM,CAAC,UAAU,CAAC,CAAC;IAC9B,MAAM,EAAE,MAAM,CAAC,wBAAwB,CAAC,CAAC;IACzC,IAAI,EAAE,MAAM,CAAC,cAAc,CAAC,CAAC;IAC7B,YAAY,EAAE,WAAW,CAAC;gBACd,OAAO,EAAE,kBAAkB,CAAC,SAAS,CAAC,EAAE,EAAE,UAAU,CAAC,EAAE,MAAM,EAAE,WAAW,CAAC,EAAE,wBAAwB,EAAE,EAAE,UAAU,CAAC,EAAE,OAAO,EAAE,KAAK,CAAC,EAAE,wBAAwB,EAAE,MAAM,CAAC,EAAE,wBAAwB,EAAE,MAAM,CAAC,EAAE,wBAAwB,EAAE,YAAY,CAAC,EAAE,kBAAkB,CAAC,KAAK,CAAC,EAAE,EAAE,kBAAkB,CAAC,EAAE,kBAAkB,CAAC,KAAK,CAAC,EAAE,EAAE,kBAAkB,CAAC,EAAE,kBAAkB,CAAC,KAAK,CAAC,EAAE,EAAE,YAAY,CAAC,EAAE,kBAAkB,EAAE,EAAE,KAAK,CAAC,EAAE,gBAAgB,EAAE,EAAE,MAAM,CAAC,EAAE,wBAAwB,EAAE,EAAE,MAAM,CAAC,EAAE,kBAAkB,CAAC,QAAQ,CAAC,EAAE,EAAE,QAAQ,CAAC,EAAE,UAAU,EAAE,KAAK,CAAC,EAAE,wBAAwB,EAAE,GAAG,CAAC,EAAE,cAAc,EAAE,EAAE,CAAC,EAAE,MAAM;IAsB5mB,IAAI,EAAE,IAAI,MAAM,GAAG,SAAS,CAG3B;IACD,IAAI,EAAE,CAAC,EAAE,EAAE,MAAM,CAAC,MAAM,CAAC,EAGxB;IACD,IAAI,UAAU,IAAI,MAAM,CAGvB;IACD,IAAI,UAAU,CAAC,OAAO,EAAE,MAAM,EAG7B;IACD,IAAI,OAAO,IAAI,kBAAkB,CAAC,SAAS,CAAC,EAAE,CAG7C;IACD,IAAI,OAAO,CAAC,OAAO,EAAE,kBAAkB,CAAC,SAAS,CAAC,EAAE,EAGnD;IACD,IAAI,WAAW,IAAI,wBAAwB,EAAE,GAAG,SAAS,CAGxD;IACD,IAAI,WAAW,CAAC,WAAW,EAAE,MAAM,CAAC,wBAAwB,EAAE,CAAC,EAG9D;IACD,IAAI,SAAS,IAAI,OAAO,GAAG,SAAS,CAGnC;IACD,IAAI,SAAS,CAAC,KAAK,EAAE,MAAM,CAAC,OAAO,CAAC,EAGnC;IACD,IAAI,KAAK,IAAI,wBAAwB,GAAG,SAAS,CAGhD;IACD,IAAI,KAAK,CAAC,KAAK,EAAE,MAAM,CAAC,wBAAwB,CAAC,EAGhD;IACD,IAAI,MAAM,IAAI,wBAAwB,GAAG,SAAS,CAGjD;IACD,IAAI,MAAM,CAAC,KAAK,EAAE,MAAM,CAAC,wBAAwB,CAAC,EAGjD;IACD,IAAI,MAAM,IAAI,wBAAwB,GAAG,SAAS,CAGjD;IACD,IAAI,MAAM,CAAC,KAAK,EAAE,MAAM,CAAC,wBAAwB,CAAC,EAGjD;IACD,IAAI,YAAY,IAAI,kBAAkB,CAAC,KAAK,CAAC,EAAE,GAAG,SAAS,CAG1D;IACD,IAAI,YAAY,CAAC,KAAK,EAAE,MAAM,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,EAG1D;IACD,IAAI,kBAAkB,IAAI,kBAAkB,CAAC,KAAK,CAAC,EAAE,GAAG,SAAS,CAGhE;IACD,IAAI,kBAAkB,CAAC,KAAK,EAAE,MAAM,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,EAGhE;IACD,IAAI,kBAAkB,IAAI,kBAAkB,CAAC,KAAK,CAAC,EAAE,GAAG,SAAS,CAGhE;IACD,IAAI,kBAAkB,CAAC,KAAK,EAAE,MAAM,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,EAGhE;IACD,IAAI,YAAY,IAAI,kBAAkB,EAAE,GAAG,SAAS,CAGnD;IACD,IAAI,YAAY,CAAC,YAAY,EAAE,MAAM,CAAC,kBAAkB,EAAE,CAAC,EAG1D;IACD,IAAI,KAAK,IAAI,gBAAgB,EAAE,GAAG,SAAS,CAG1C;IACD,IAAI,KAAK,CAAC,KAAK,EAAE,MAAM,CAAC,gBAAgB,EAAE,CAAC,EAG1C;IACD,IAAI,MAAM,IAAI,wBAAwB,EAAE,GAAG,SAAS,CAGnD;IACD,IAAI,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,wBAAwB,EAAE,CAAC,EAGpD;IACD,IAAI,MAAM,IAAI,kBAAkB,CAAC,QAAQ,CAAC,EAAE,GAAG,SAAS,CAGvD;IACD,IAAI,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,kBAAkB,CAAC,QAAQ,CAAC,EAAE,CAAC,EAGxD;IACD,IAAI,QAAQ,IAAI,UAAU,GAAG,SAAS,CAGrC;IACD,IAAI,QAAQ,CAAC,QAAQ,EAAE,MAAM,CAAC,UAAU,CAAC,EAGxC;IACD,IAAI,KAAK,IAAI,wBAAwB,GAAG,SAAS,CAGhD;IACD,IAAI,KAAK,CAAC,KAAK,EAAE,MAAM,CAAC,wBAAwB,CAAC,EAGhD;IACD,IAAI,GAAG,IAAI,cAAc,GAAG,SAAS,CAGpC;IACD,IAAI,GAAG,CAAC,GAAG,EAAE,MAAM,CAAC,cAAc,CAAC,EAGlC;IACD;;;OAGG;IACH,IAAI,WAAW,IAAI,WAAW,CAG7B;IACD;;;OAGG;IACH,IAAI,WAAW,CAAC,KAAK,EAAE,WAAW,EAGjC;IACD,MAAM,KAAK,eAAe,IAAI,SAAS,CAAC,MAAM,CAAC,CAE9C;IACD;;;OAGG;IACH,MAAM,CAAC,qBAAqB,CAAC,IAAI,EAAE,kBAAkB,GAAG,QAAQ,EAAE;IAIlE;;;OAGG;IACH,MAAM,CAAC,eAAe,CAAC,IAAI,EAAE,kBAAkB,GAAG,SAAS,EAAE;IAG7D;;OAEG;IACH,MAAM,CAAC,iBAAiB,CAAC,IAAI,EAAE,kBAAkB,GAAG,kBAAkB,CAAC,QAAQ,CAAC,EAAE;IAWlF;;OAEG;IACH,MAAM,CAAC,sBAAsB,CAAC,IAAI,EAAE,kBAAkB,GAAG,kBAAkB,EAAE;IAG7E;;OAEG;IACH,MAAM,CAAC,eAAe,CAAC,IAAI,EAAE,kBAAkB,GAAG,gBAAgB,EAAE;IAGpE;;OAEG;IACH,MAAM,CAAC,gBAAgB,CAAC,IAAI,EAAE,kBAAkB,GAAG,wBAAwB,EAAE;IAG7E;;OAEG;IACH,MAAM,CAAC,gBAAgB,CAAC,IAAI,EAAE,kBAAkB,GAAG,gBAAgB,EAAE;IAWrE;;OAEG;IACH,MAAM,CAAC,iBAAiB,CAAC,IAAI,EAAE,kBAAkB,GAAG,wBAAwB,EAAE;CAWjF;AAED,wBAAgB,8BAA8B,IAAI,QAAQ,CAEzD;AAED,wBAAgB,kCAAkC,CAAC,OAAO,EAAE,kBAAkB,CAAC,SAAS,CAAC,EAAE,EAAE,UAAU,CAAC,EAAE,MAAM,EAAE,WAAW,CAAC,EAAE,wBAAwB,EAAE,EAAE,UAA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package/dist/ts/ts/CWL/ToolDescription.js

@@ -1,4 +1,5 @@
-import { defaultArg, unwrap, value } from '../../node_modules/@fable-org/fable-library-ts/Option.js';
+import { defaultArg, unwrap } from '../../node_modules/@fable-org/fable-library-ts/Option.js';
+import { SourceNodes_get_Empty, ListEntry$1 } from './CWLTypes.js';
 import { DynamicObj, DynamicObj_$reflection } from '../fable_modules/DynamicObj.8.0.0/DynamicObj.fs.js';
 import { toolDescription } from './CWLKnownFieldNames.js';
 import { class_type } from '../../node_modules/@fable-org/fable-library-ts/Reflection.js';
@@ -24,6 +25,7 @@ class CWLToolDescription extends DynamicObj {
     this._metadata = metadata;
     this._label = label;
     this._doc = doc;
+    this._sourceNodes = SourceNodes_get_Empty();
   }
   get Id() {
     const this$ = this;
@@ -169,23 +171,42 @@ class CWLToolDescription extends DynamicObj {
     const this$ = this;
     this$._doc = doc;
   }
+  /**
+   * The nodes that the doc and the label were read from. The encoder writes the layout of the author from them.
+   * They stay out of the equality and the hash of the object.
+   */
+  get SourceNodes() {
+    const this$ = this;
+    return this$._sourceNodes;
+  }
+  /**
+   * The nodes that the doc and the label were read from. The encoder writes the layout of the author from them.
+   * They stay out of the equality and the hash of the object.
+   */
+  set SourceNodes(value) {
+    const this$ = this;
+    this$._sourceNodes = value;
+  }
   static get KnownFieldNames() {
     return toolDescription;
   }
   /**
-   * Returns the tool's inputs or an empty ResizeArray if None.
+   * Returns a new list of the inputs of the tool that are objects, or an empty list. The imports and the mixins are left
+   * out, so a change of the list changes nothing in the tool. The entries of the tool are in Inputs.
    */
-  static getInputsOrEmpty(tool) {
-    return defaultArg(tool.Inputs, []);
+  static getInputValuesOrEmpty(tool) {
+    let option_1 = void 0, entries = void 0;
+    return defaultArg((option_1 = tool.Inputs, option_1 != null ? (entries = option_1, ListEntry$1.values(entries)) : void 0), []);
   }
   /**
-   * Returns the tool's outputs.
+   * Returns a new list of the outputs of the tool that are objects. The imports and the mixins are left out, so a change
+   * of the list changes nothing in the tool. The entries of the tool are in Outputs.
    */
-  static getOutputs(tool) {
-    return tool.Outputs;
+  static getOutputValues(tool) {
+    return ListEntry$1.values(tool.Outputs);
   }
   /**
-   * Returns the tool's inputs, creating and assigning a new empty ResizeArray if None.
+   * Returns the entries of the tool's inputs, creating and assigning a new empty ResizeArray if None.
    */
   static getOrCreateInputs(tool) {
     const matchValue = tool.Inputs;
@@ -194,7 +215,7 @@ class CWLToolDescription extends DynamicObj {
       tool.Inputs = inputs_1;
       return inputs_1;
     } else {
-      return value(matchValue);
+      return matchValue;
     }
   }
   /**
@@ -225,7 +246,7 @@ class CWLToolDescription extends DynamicObj {
       tool.Hints = hints_1;
       return hints_1;
     } else {
-      return value(matchValue);
+      return matchValue;
     }
   }
   /**
@@ -238,15 +259,15 @@ class CWLToolDescription extends DynamicObj {
       tool.Intent = intent_1;
       return intent_1;
     } else {
-      return value(matchValue);
+      return matchValue;
     }
   }
 }
 function CWLToolDescription_$reflection() {
   return class_type("ARCtrl.CWL.CWLToolDescription", void 0, CWLToolDescription, DynamicObj_$reflection());
 }
-function CWLToolDescription_$ctor_Z5BAE825A(outputs, cwlVersion, baseCommand, arguments$, stdin, stderr, stdout, successCodes, temporaryFailCodes, permanentFailCodes, requirements, hints, intent, inputs, metadata, label, doc, id) {
+function CWLToolDescription_$ctor_Z45149AC1(outputs, cwlVersion, baseCommand, arguments$, stdin, stderr, stdout, successCodes, temporaryFailCodes, permanentFailCodes, requirements, hints, intent, inputs, metadata, label, doc, id) {
   return new CWLToolDescription(outputs, cwlVersion, baseCommand, arguments$, stdin, stderr, stdout, successCodes, temporaryFailCodes, permanentFailCodes, requirements, hints, intent, inputs, metadata, label, doc, id);
 }
 
-export { CWLToolDescription, CWLToolDescription_$ctor_Z5BAE825A, CWLToolDescription_$reflection };
+export { CWLToolDescription, CWLToolDescription_$ctor_Z45149AC1, CWLToolDescription_$reflection };