@nfdi4plants/arctrl 3.1.0 → 3.2.0

package/dist/ts/ts/CWL/Decode.d.ts

@@ -1,40 +1,97 @@
-import { IMap } from '@fable-org/fable-library-js/Util.js';
-import { int32 } from '@fable-org/fable-library-js/Int32.js';
-import { Option } from '@fable-org/fable-library-js/Option.js';
-import { FSharpList } from '@fable-org/fable-library-js/List.js';
-import { YAMLElement_$union } from '../fable_modules/YAMLicious.1.0.0-alpha.7/YAMLiciousTypes.fs.js';
-import { IGetters } from '../fable_modules/YAMLicious.1.0.0-alpha.7/Decode.fs.js';
-import { DynamicObj } from '../fable_modules/DynamicObj.7.1.0/DynamicObj.fs.js';
-import { SchemaDefRequirementType, SoftwarePackage, InputEnumSchema, InputRecordSchema, InputRecordField, InputArraySchema, CWLType_$union, SchemaSaladString_$union } from './CWLTypes.js';
-import { CWLOutput, OutputBinding } from './Outputs.js';
-import { HintEntry_$union, InlineJavascriptRequirementValue, ToolTimeLimitValue_$union, InplaceUpdateRequirementValue, Requirement_$union, ResourceRequirementInstance, LoadListingRequirementValue, EnvironmentDef, DockerRequirement, InitialWorkDirEntry_$union } from './Requirements.js';
-import { CWLInput, InputBinding } from './Inputs.js';
-import { WorkflowStep, WorkflowStepRun_$union, StepOutput_$union, StepInput, ScatterMethod_$union, PickValueMethod_$union, LinkMergeMethod_$union } from './WorkflowSteps.js';
-import { CWLProcessingUnit_$union } from './CWLProcessingUnit.js';
-import { CWLToolDescription } from './ToolDescription.js';
-import { CWLExpressionToolDescription } from './ExpressionToolDescription.js';
-import { CWLOperationDescription } from './OperationDescription.js';
-import { CWLWorkflowDescription } from './WorkflowDescription.js';
-import { CWLParameterReference } from './ParameterReference.js';
+import { IMap, Exception, IComparable, IEquatable } from '@fable-org/fable-library-ts/Util.ts';
+import { Record } from '@fable-org/fable-library-ts/Types.ts';
+import { Option } from '@fable-org/fable-library-ts/Option.ts';
+import { TypeInfo } from '@fable-org/fable-library-ts/Reflection.ts';
+import { YAMLElement_$union } from '../fable_modules/YAMLicious.1.0.0/YAMLiciousTypes.fs.js';
+import { int32 } from '@fable-org/fable-library-ts/Int32.ts';
+import { FSharpList } from '@fable-org/fable-library-ts/List.ts';
+import { IGetters } from '../fable_modules/YAMLicious.1.0.0/Decode.fs.js';
+import { int64 } from '@fable-org/fable-library-ts/BigInt.ts';
+import { DynamicObj } from '../fable_modules/DynamicObj.8.0.0/DynamicObj.fs.js';
+import { HintEntry_$union, InlineJavascriptRequirementValue, ToolTimeLimitValue_$union, InplaceUpdateRequirementValue, Requirement_$union, ResourceRequirementInstance, LoadListingRequirementValue, EnvironmentDef, DockerRequirement, InitialWorkDirEntry_$union, LoadListingEnum_$union } from './Requirements.ts';
+import { SchemaDefRequirementType, SoftwarePackage, InputEnumSchema, InputRecordSchema, InputRecordField, InputArraySchema, CWLType_$union, SchemaSaladString_$union, DirectoryInstance, FileInstance } from './CWLTypes.ts';
+import { CWLOutput, OutputBinding } from './Outputs.ts';
+import { CWLInput, InputBinding } from './Inputs.ts';
+import { WorkflowStep, WorkflowStepRun_$union, StepOutput_$union, StepInput, ScatterMethod_$union, PickValueMethod_$union, LinkMergeMethod_$union } from './WorkflowSteps.ts';
+import { CWLProcessingUnit_$union } from './CWLProcessingUnit.ts';
+import { CWLWorkflowDescription } from './WorkflowDescription.ts';
+import { CWLExpressionToolDescription } from './ExpressionToolDescription.ts';
+import { CWLOperationDescription } from './OperationDescription.ts';
+import { CWLToolDescription } from './ToolDescription.ts';
+import { CWLParameterValue_$union } from './ParameterValue.ts';
+import { CWLParameterReference } from './ParameterReference.ts';
 export declare function ResizeArray_map<$a, $b>(f: ((arg0: $a) => $b), a: $a[]): $b[];
-export declare function Decode_countLeadingSpaces(line: string): int32;
-export declare function Decode_isBlankLine(line: string): boolean;
-export declare function Decode_normalizeLineEndings(yaml: string): string;
-export declare function Decode_stripLeadingShebang(yaml: string): string;
-export declare function Decode_tryParseBlockScalarHeader(line: string): Option<int32>;
-export declare function Decode_normalizeYamlInput(yaml: string): string;
-export declare function Decode_removeFullLineComments(yaml: string): string;
+export declare class Decode_DecodeWarning extends Record implements IEquatable<Decode_DecodeWarning>, IComparable<Decode_DecodeWarning> {
+    readonly Path: string;
+    readonly Message: string;
+    readonly Raw: Option<string>;
+    constructor(Path: string, Message: string, Raw: Option<string>);
+}
+export declare function Decode_DecodeWarning_$reflection(): TypeInfo;
+export declare class Decode_DecodeResult$1<T> extends Record implements IEquatable<Decode_DecodeResult$1<T>> {
+    readonly Value: T;
+    readonly Warnings: Decode_DecodeWarning[];
+    constructor(Value: T, Warnings: Decode_DecodeWarning[]);
+}
+export declare function Decode_DecodeResult$1_$reflection(gen0: TypeInfo): TypeInfo;
+/**
+ * Add a recoverable decode warning only when the caller requested warning collection.
+ */
+export declare function Decode_addWarning(warnings: Option<Decode_DecodeWarning[]>, path: string, message: string, raw: Option<YAMLElement_$union>): void;
+/**
+ * Strip parser-level comment nodes and sequence placeholders before CWL semantic decoding.
+ */
 export declare function Decode_removeYamlComments(yamlElement: YAMLElement_$union): YAMLElement_$union;
 /**
  * Determines if an exception represents a recoverable decoding error.
  * Returns true for schema mismatches; false for system errors that should propagate.
  */
-export declare function Decode_isRecoverableDecodingError(ex: Error): boolean;
+export declare function Decode_isRecoverableDecodingError(ex: Exception): boolean;
+/**
+ * Read YAML and normalize comment nodes that CWL decoders intentionally ignore.
+ */
 export declare function Decode_readSanitizedYaml(yaml: string): YAMLElement_$union;
 /**
- * Decode key value pairs into a dynamic object, while preserving their tree structure
+ * Box int64 values in a way that preserves 64-bit numeric intent across Fable targets.
+ */
+export declare function Decode_boxOverflowInt64(value: int64): any;
+/**
+ * Decode key value pairs into a dynamic object, while preserving their tree structure.
  */
 export declare function Decode_overflowDecoder(dynObj: DynamicObj, dict: IMap<string, YAMLElement_$union>): DynamicObj;
+/**
+ * Treat comment artifacts and empty placeholder objects as non-semantic collection items.
+ */
+export declare function Decode_isIgnorableYamlNoise(value: YAMLElement_$union): boolean;
+/**
+ * Decode an optional field only if the field is physically present, avoiding fallback
+ * behavior that can blur absent fields with malformed field values.
+ */
+export declare function Decode_tryGetPresentField<T>(fieldName: string, decoder: ((arg0: YAMLElement_$union) => T), value: YAMLElement_$union): Option<T>;
+export declare function Decode_tryGetStringField(fieldName: string, value: YAMLElement_$union): Option<string>;
+export declare function Decode_tryGetBoolField(fieldName: string, value: YAMLElement_$union): Option<boolean>;
+export declare function Decode_tryGetYamlField(fieldName: string, value: YAMLElement_$union): Option<YAMLElement_$union>;
+export declare function Decode_tryGetIntArrayField(fieldName: string, value: YAMLElement_$union): Option<int32[]>;
+/**
+ * Decode int64 fields explicitly so resource and File sizes do not narrow to int.
+ */
+export declare function Decode_tryGetInt64Field(fieldName: string, value: YAMLElement_$union): Option<int64>;
+/**
+ * Decode and validate CWL loadListing enum fields from their YAML string form.
+ */
+export declare function Decode_tryGetLoadListingField(fieldName: string, value: YAMLElement_$union): Option<LoadListingEnum_$union>;
+/**
+ * Preserve unknown object fields on DynamicObj-backed CWL objects.
+ */
+export declare function Decode_overflowIntoDynamicObj(dynObj: DynamicObj, knownFields: FSharpList<string>, value: YAMLElement_$union): DynamicObj;
+/**
+ * Decode File object fields while preserving unrecognized extension metadata.
+ */
+export declare function Decode_decodeFileInstanceFields(element: YAMLElement_$union): FileInstance;
+/**
+ * Decode Directory object fields while preserving unrecognized extension metadata.
+ */
+export declare function Decode_decodeDirectoryInstanceFields(element: YAMLElement_$union): DirectoryInstance;
 /**
  * Decode scalar schema-salad string fields.
  * Recognized directive wrappers are `$include` and `$import`.
@@ -46,11 +103,20 @@ export declare function Decode_decodeSchemaSaladString(yEle: YAMLElement_$union)
  * Directive objects such as {$include: path} are represented using legacy string form.
  */
 export declare function Decode_decodeStringOrExpression(yEle: YAMLElement_$union): string;
-export declare const Decode_outputBindingGlobDecoder: (value_1: YAMLElement_$union) => OutputBinding;
-export declare const Decode_outputBindingDecoder: (value: YAMLElement_$union) => Option<OutputBinding>;
+/**
+ * Decode a YAMLElement into a glob search pattern for output binding
+ */
+export declare function Decode_outputBindingGlobDecoder(value: YAMLElement_$union): OutputBinding;
+export declare const Decode_outputBindingDecoder: (value_1: YAMLElement_$union) => Option<OutputBinding>;
+/**
+ * Decode schema-salad string-or-array fields into a uniform ResizeArray.
+ */
 export declare function Decode_decodeStringArrayOrScalar(value: YAMLElement_$union): string[];
 export declare const Decode_outputSourceDecoder: (value_1: YAMLElement_$union) => Option<string[]>;
-export declare const Decode_direntDecoder: (value_1: YAMLElement_$union) => CWLType_$union;
+/**
+ * Decode a YAMLElement into a Dirent
+ */
+export declare function Decode_direntDecoder(value: YAMLElement_$union): CWLType_$union;
 /**
  * Decode a listing entry of InitialWorkDirRequirement.
  * Supports both Dirent object form and string/expression form.
@@ -64,16 +130,14 @@ export declare function Decode_cwlSimpleTypeFromString(s: string): CWLType_$unio
  * Recursively parse array shorthand notation (File[][], string[][][], etc.)
  */
 export declare function Decode_parseArrayShorthand(typeStr: string): Option<CWLType_$union>;
-export declare function inputArraySchemaDecoder$0040324(): ((arg0: YAMLElement_$union) => InputArraySchema);
-export declare const inputArraySchemaDecoder$0040324$002D1: any;
-export declare function inputRecordFieldDecoder$0040338(): ((arg0: YAMLElement_$union) => InputRecordField);
-export declare const inputRecordFieldDecoder$0040338$002D1: any;
-export declare function inputRecordSchemaDecoder$0040377(): ((arg0: YAMLElement_$union) => InputRecordSchema);
-export declare const inputRecordSchemaDecoder$0040377$002D1: any;
-export declare function inputEnumSchemaDecoder$0040404(): ((arg0: YAMLElement_$union) => InputEnumSchema);
-export declare const inputEnumSchemaDecoder$0040404$002D1: any;
-export declare const Decode_inputArraySchemaDecoder: ((arg0: YAMLElement_$union) => InputArraySchema);
-export declare const Decode_inputRecordFieldDecoder: ((arg0: YAMLElement_$union) => InputRecordField);
+/**
+ * Decode an InputArraySchema from a YAMLElement
+ */
+export declare function Decode_inputArraySchemaDecoder(value: YAMLElement_$union): InputArraySchema;
+/**
+ * Decode an InputRecordField from a YAMLElement
+ */
+export declare function Decode_inputRecordFieldDecoder(value: YAMLElement_$union): InputRecordField;
 /**
  * Attempt to decode fields as flow-style array: [{name: x, type: y}]
  */
@@ -82,8 +146,14 @@ export declare function Decode_tryDecodeFieldsAsArray(element: YAMLElement_$unio
  * Attempt to decode fields as map-style: {fieldName: type}
  */
 export declare function Decode_tryDecodeFieldsAsMap(element: YAMLElement_$union): Option<InputRecordField[]>;
-export declare const Decode_inputRecordSchemaDecoder: ((arg0: YAMLElement_$union) => InputRecordSchema);
-export declare const Decode_inputEnumSchemaDecoder: ((arg0: YAMLElement_$union) => InputEnumSchema);
+/**
+ * Decode an InputRecordSchema from a YAMLElement
+ */
+export declare function Decode_inputRecordSchemaDecoder(value: YAMLElement_$union): InputRecordSchema;
+/**
+ * Decode an InputEnumSchema from a YAMLElement
+ */
+export declare function Decode_inputEnumSchemaDecoder(value: YAMLElement_$union): InputEnumSchema;
 /**
  * Decode a CWLType from a YAMLElement (handles all types including complex schemas)
  */
@@ -93,8 +163,24 @@ export declare function Decode_cwlTypeDecoder$0027(element: YAMLElement_$union):
  */
 export declare function Decode_cwlTypeStringMatcher(t: string, get$: IGetters): [CWLType_$union, boolean];
 export declare const Decode_cwlTypeDecoder: (value_1: YAMLElement_$union) => [CWLType_$union, boolean];
-export declare const Decode_outputArrayDecoder: (value_1: YAMLElement_$union) => CWLOutput[];
-export declare const Decode_outputsDecoder: (value: YAMLElement_$union) => CWLOutput[];
+/**
+ * Decode a named output from either map shorthand or full object form.
+ */
+export declare function Decode_decodeNamedOutput(name: string, value: YAMLElement_$union): CWLOutput;
+/**
+ * Decode one sequence-form output, warning only for malformed unnamed entries.
+ */
+export declare function Decode_decodeOutputSequenceItem(warnings: Option<Decode_DecodeWarning[]>, path: string, index: int32, item: YAMLElement_$union): Option<CWLOutput>;
+/**
+ * Decode a YAMLElement into an Output Array
+ */
+export declare function Decode_outputArrayDecoderWithWarnings(warnings: Option<Decode_DecodeWarning[]>, path: string, value: YAMLElement_$union): CWLOutput[];
+export declare const Decode_outputArrayDecoder: (value: YAMLElement_$union) => CWLOutput[];
+/**
+ * Access the outputs field and decode a YAMLElement into an Output Array
+ */
+export declare function Decode_outputsDecoderWithWarnings(warnings: Option<Decode_DecodeWarning[]>): ((arg0: YAMLElement_$union) => CWLOutput[]);
+export declare const Decode_outputsDecoder: ((arg0: YAMLElement_$union) => CWLOutput[]);
 /**
  * Decode a YAMLElement into a DockerRequirement
  */
@@ -114,40 +200,99 @@ export declare function Decode_softwareRequirementDecoder(get$: IGetters): Softw
  * Supports both string/expression and Dirent listing items.
  */
 export declare function Decode_initialWorkDirRequirementDecoder(get$: IGetters): InitialWorkDirEntry_$union[];
+/**
+ * Decode LoadListingRequirement, applying CWL's default no_listing behavior.
+ */
 export declare function Decode_loadListingRequirementDecoder(get$: IGetters): LoadListingRequirementValue;
+/**
+ * Decode resource scalar fields as int64, float, or expression string without losing numeric shape.
+ */
 export declare function Decode_decodeResourceScalar(element: YAMLElement_$union): any;
+/**
+ * Decode an optional resource field through the resource scalar coercion rules.
+ */
 export declare function Decode_optionalResourceField(get$: IGetters, fieldName: string): Option<any>;
 /**
  * Decode a YAMLElement into a ResourceRequirementInstance
  */
 export declare function Decode_resourceRequirementDecoder(get$: IGetters): ResourceRequirementInstance;
+/**
+ * Decode schema definition entries in either named object or map-entry shorthand form.
+ */
 export declare function Decode_schemaDefRequirementTypeDecoder(value: YAMLElement_$union): SchemaDefRequirementType;
 /**
  * Decode a YAMLElement into a SchemaDefRequirementType array
  */
 export declare function Decode_schemaDefRequirementDecoder(get$: IGetters): SchemaDefRequirementType[];
+/**
+ * Decode only literal boolean scalars, leaving expressions for requirement-specific handling.
+ */
 export declare function Decode_tryDecodeBoolScalar(element: YAMLElement_$union): Option<boolean>;
+/**
+ * Decode WorkReuse as either a concrete bool requirement or an expression payload.
+ */
 export declare function Decode_workReuseRequirementDecoder(get$: IGetters): Requirement_$union;
+/**
+ * Decode NetworkAccess as either a concrete bool requirement or an expression payload.
+ */
 export declare function Decode_networkAccessRequirementDecoder(get$: IGetters): Requirement_$union;
+/**
+ * Decode InplaceUpdateRequirement, defaulting missing inplaceUpdate to true.
+ */
 export declare function Decode_inplaceUpdateRequirementDecoder(get$: IGetters): InplaceUpdateRequirementValue;
 /**
  * Decode a YAMLElement into a ToolTimeLimitRequirement value
  */
 export declare function Decode_toolTimeLimitRequirementDecoder(get$: IGetters): ToolTimeLimitValue_$union;
+/**
+ * Decode InlineJavascriptRequirement expressionLib in scalar or array form.
+ */
 export declare function Decode_inlineJavascriptRequirementDecoder(get$: IGetters): InlineJavascriptRequirementValue;
 /**
- * Decode all YAMLElements matching the Requirement type into a ResizeArray of Requirement
+ * Dispatch a known CWL requirement class to its typed decoder.
  */
 export declare function Decode_requirementFromTypeName(cls: string, get$: IGetters): Requirement_$union;
+/**
+ * Attach unknown payload fields to DynamicObj-backed requirement values after class dispatch.
+ */
+export declare function Decode_addRequirementPayloadOverflow(element: YAMLElement_$union, requirement: Requirement_$union): Requirement_$union;
+/**
+ * Decode requirements from either sequence syntax or class-name map syntax.
+ */
 export declare function Decode_requirementArrayDecoder(yEle: YAMLElement_$union): Requirement_$union[];
+/**
+ * Try known requirement decoding for hints, falling back to UnknownHint on decode failure.
+ */
 export declare function Decode_tryDecodeKnownRequirementFromElement(element: YAMLElement_$union): Option<Requirement_$union>;
+/**
+ * Decode one hint as a known requirement when possible, otherwise preserve the raw hint.
+ */
 export declare function Decode_decodeHintElement(element: YAMLElement_$union): HintEntry_$union;
+/**
+ * Decode hints from sequence syntax or class-name map syntax while preserving unknown hints.
+ */
 export declare function Decode_hintArrayDecoder(yEle: YAMLElement_$union): HintEntry_$union[];
 export declare const Decode_requirementsDecoder: (value: YAMLElement_$union) => Option<Requirement_$union[]>;
 export declare const Decode_hintsDecoder: (value: YAMLElement_$union) => Option<HintEntry_$union[]>;
-export declare const Decode_inputBindingDecoder: (value_5: YAMLElement_$union) => Option<InputBinding>;
-export declare const Decode_inputArrayDecoder: (value_1: YAMLElement_$union) => CWLInput[];
-export declare const Decode_inputsDecoder: (value: YAMLElement_$union) => Option<CWLInput[]>;
+export declare const Decode_inputBindingDecoder: (value_9: YAMLElement_$union) => Option<InputBinding>;
+/**
+ * Decode a named input from map shorthand or full object form, preserving optionality and extensions.
+ */
+export declare function Decode_decodeNamedInput(name: string, value: YAMLElement_$union): CWLInput;
+/**
+ * Decode one sequence-form input, warning only for malformed unnamed entries.
+ */
+export declare function Decode_decodeInputSequenceItem(warnings: Option<Decode_DecodeWarning[]>, path: string, index: int32, item: YAMLElement_$union): Option<CWLInput>;
+/**
+ * Decode a YAMLElement into an Input array
+ */
+export declare function Decode_inputArrayDecoderWithWarnings(warnings: Option<Decode_DecodeWarning[]>, path: string, value: YAMLElement_$union): CWLInput[];
+export declare const Decode_inputArrayDecoder: (value: YAMLElement_$union) => CWLInput[];
+/**
+ * Access the inputs field and decode the YAMLElements into an Input array
+ */
+export declare function Decode_inputsDecoderWithWarnings(warnings: Option<Decode_DecodeWarning[]>): ((arg0: YAMLElement_$union) => Option<CWLInput[]>);
+export declare const Decode_inputsDecoder: ((arg0: YAMLElement_$union) => Option<CWLInput[]>);
 export declare const Decode_baseCommandDecoder: (value_2: YAMLElement_$union) => Option<string[]>;
 export declare const Decode_versionDecoder: (value_1: YAMLElement_$union) => string;
 export declare const Decode_classDecoder: (value_1: YAMLElement_$union) => string;
@@ -164,54 +309,151 @@ export declare function Decode_stringOrStringArrayDecoder(value: YAMLElement_$un
  * Handles both single string values and arrays of strings
  */
 export declare function Decode_sourceArrayFieldDecoder(field: string): ((arg0: YAMLElement_$union) => Option<string[]>);
+/**
+ * Decode and validate linkMerge enum fields.
+ */
 export declare function Decode_linkMergeFieldDecoder(field: string): ((arg0: YAMLElement_$union) => Option<LinkMergeMethod_$union>);
+/**
+ * Decode and validate pickValue enum fields.
+ */
 export declare function Decode_pickValueFieldDecoder(field: string): ((arg0: YAMLElement_$union) => Option<PickValueMethod_$union>);
 export declare function Decode_scatterFieldDecoder(field: string): ((arg0: YAMLElement_$union) => Option<string[]>);
+/**
+ * Decode and validate scatterMethod enum fields.
+ */
 export declare function Decode_scatterMethodFieldDecoder(field: string): ((arg0: YAMLElement_$union) => Option<ScatterMethod_$union>);
+/**
+ * Decode optional expression-like fields, including schema-salad directive wrappers.
+ */
 export declare function Decode_expressionStringOptionFieldDecoder(field: string): ((arg0: YAMLElement_$union) => Option<string>);
+/**
+ * Decode a step input from map or scalar shorthand and preserve unknown step-input fields.
+ */
 export declare function Decode_decodeStepInputFromValue(id: string, value: YAMLElement_$union, allowScalarSource: boolean): StepInput;
+/**
+ * Decode map-form step inputs where the map key supplies the step input id.
+ */
 export declare function Decode_decodeStepInputsFromMap(value: YAMLElement_$union): StepInput[];
+/**
+ * Decode sequence-form step inputs where the id must be present in the item.
+ */
 export declare function Decode_decodeStepInputFromArrayItem(item: YAMLElement_$union): StepInput;
+/**
+ * Decode sequence-form step inputs, warning and skipping only malformed unnamed entries.
+ */
+export declare function Decode_decodeStepInputsFromArrayWithWarnings(warnings: Option<Decode_DecodeWarning[]>, path: string, items: FSharpList<YAMLElement_$union>): StepInput[];
 export declare function Decode_decodeStepInputsFromArray(items: FSharpList<YAMLElement_$union>): StepInput[];
-export declare function Decode_inputStepDecoder(value: YAMLElement_$union): StepInput[];
+/**
+ * Select the step input decoder based on CWL map-form versus sequence-form syntax.
+ */
+export declare function Decode_inputStepDecoderWithWarnings(warnings: Option<Decode_DecodeWarning[]>, path: string, value: YAMLElement_$union): StepInput[];
+export declare const Decode_inputStepDecoder: (value: YAMLElement_$union) => StepInput[];
+/**
+ * Decode step outputs from scalar shorthand or record form with extension fields.
+ */
 export declare function Decode_decodeStepOutputItem(value: YAMLElement_$union): StepOutput_$union;
 export declare const Decode_outputStepsDecoder: (value_2: YAMLElement_$union) => StepOutput_$union[];
 export declare const Decode_docDecoder: (value_1: YAMLElement_$union) => Option<string>;
 export declare const Decode_labelDecoder: (value_1: YAMLElement_$union) => Option<string>;
 export declare const Decode_idDecoder: (value_1: YAMLElement_$union) => Option<string>;
 export declare const Decode_intentDecoder: (value_1: YAMLElement_$union) => Option<string[]>;
+/**
+ * Test object mappings for an explicit field without invoking a typed decoder.
+ */
 export declare function Decode_hasField(fieldName: string, yamlElement: YAMLElement_$union): boolean;
+/**
+ * Inject the parent workflow cwlVersion into inline run objects that omit it.
+ */
 export declare function Decode_withDefaultCwlVersion(defaultCwlVersion: string, yamlElement: YAMLElement_$union): YAMLElement_$union;
-export declare function Decode_workflowStepRunDecoder(defaultCwlVersion: string, runValue: YAMLElement_$union): WorkflowStepRun_$union;
-export declare function Decode_decodeWorkflowStepFromValueWithId(defaultCwlVersion: string, stepId: string, value: YAMLElement_$union): WorkflowStep;
+/**
+ * Decode a workflow step run as either a path string or an inline CWL processing unit.
+ */
+export declare function Decode_workflowStepRunDecoder(warnings: Option<Decode_DecodeWarning[]>, defaultCwlVersion: string, runValue: YAMLElement_$union): WorkflowStepRun_$union;
+/**
+ * Decode a named workflow step and thread warnings into nested step inputs and inline runs.
+ */
+export declare function Decode_decodeWorkflowStepFromValueWithId(warnings: Option<Decode_DecodeWarning[]>, defaultCwlVersion: string, path: string, stepId: string, value: YAMLElement_$union): WorkflowStep;
 export declare function Decode_decodeWorkflowStepFromArrayItem(defaultCwlVersion: string, item: YAMLElement_$union): WorkflowStep;
-export declare function Decode_stepArrayDecoderWithVersion(defaultCwlVersion: string, value: YAMLElement_$union): WorkflowStep[];
-export declare function Decode_stepsDecoderWithVersion(defaultCwlVersion: string): ((arg0: YAMLElement_$union) => WorkflowStep[]);
-export declare function Decode_commandLineToolDecoder(yamlCWL: YAMLElement_$union): CWLToolDescription;
-export declare function Decode_expressionToolDecoder(yamlCWL: YAMLElement_$union): CWLExpressionToolDescription;
-export declare function Decode_operationDecoder(yamlCWL: YAMLElement_$union): CWLOperationDescription;
-export declare function Decode_workflowDecoder(yamlCWL: YAMLElement_$union): CWLWorkflowDescription;
+/**
+ * Decode one sequence-form workflow step, warning only for malformed unnamed entries.
+ */
+export declare function Decode_decodeWorkflowStepFromArrayItemWithWarnings(warnings: Option<Decode_DecodeWarning[]>, defaultCwlVersion: string, index: int32, item: YAMLElement_$union): Option<WorkflowStep>;
+/**
+ * Decode workflow steps from sequence-form or map-form syntax with version-aware inline runs.
+ */
+export declare function Decode_stepArrayDecoderWithVersion(warnings: Option<Decode_DecodeWarning[]>, defaultCwlVersion: string, value: YAMLElement_$union): WorkflowStep[];
+export declare function Decode_stepsDecoderWithVersion(warnings: Option<Decode_DecodeWarning[]>, defaultCwlVersion: string): ((arg0: YAMLElement_$union) => WorkflowStep[]);
+/**
+ * Decode a CommandLineTool and preserve unknown top-level metadata fields.
+ */
+export declare function Decode_commandLineToolDecoder(warnings: Option<Decode_DecodeWarning[]>, yamlCWL: YAMLElement_$union): CWLToolDescription;
+/**
+ * Decode an ExpressionTool and preserve unknown top-level metadata fields.
+ */
+export declare function Decode_expressionToolDecoder(warnings: Option<Decode_DecodeWarning[]>, yamlCWL: YAMLElement_$union): CWLExpressionToolDescription;
+/**
+ * Decode an Operation and enforce its required inputs collection.
+ */
+export declare function Decode_operationDecoder(warnings: Option<Decode_DecodeWarning[]>, yamlCWL: YAMLElement_$union): CWLOperationDescription;
+/**
+ * Decode a Workflow, including version-aware steps and preserved metadata fields.
+ */
+export declare function Decode_workflowDecoder(warnings: Option<Decode_DecodeWarning[]>, yamlCWL: YAMLElement_$union): CWLWorkflowDescription;
+/**
+ * Dispatch a parsed CWL document to the processing-unit decoder declared by its class field.
+ */
+export declare function Decode_decodeCWLProcessingUnitElementWithWarnings(warnings: Option<Decode_DecodeWarning[]>, yamlCWL: YAMLElement_$union): CWLProcessingUnit_$union;
+/**
+ * Decode an already-parsed CWL element without warning collection.
+ */
 export declare function Decode_decodeCWLProcessingUnitElement(yamlCWL: YAMLElement_$union): CWLProcessingUnit_$union;
 export declare const Decode_stepArrayDecoder: (value: YAMLElement_$union) => WorkflowStep[];
 export declare const Decode_stepsDecoder: ((arg0: YAMLElement_$union) => WorkflowStep[]);
 /**
- * Decode a CWL file string written in the YAML format into a CWLToolDescription
+ * Decode a CWL CommandLineTool YAML string and return recoverable warnings.
+ */
+export declare function Decode_decodeCommandLineToolWithWarnings(cwl: string): Decode_DecodeResult$1<CWLToolDescription>;
+/**
+ * Decode a CWL CommandLineTool and discard recoverable warnings.
  */
 export declare function Decode_decodeCommandLineTool(cwl: string): CWLToolDescription;
 /**
- * Decode a CWL file string written in the YAML format into a CWLWorkflowDescription
+ * Decode a CWL Workflow YAML string and return recoverable warnings.
+ */
+export declare function Decode_decodeWorkflowWithWarnings(cwl: string): Decode_DecodeResult$1<CWLWorkflowDescription>;
+/**
+ * Decode a CWL Workflow and discard recoverable warnings.
  */
 export declare function Decode_decodeWorkflow(cwl: string): CWLWorkflowDescription;
 /**
- * Decode a CWL file string written in the YAML format into a CWLExpressionToolDescription
+ * Decode a CWL ExpressionTool YAML string and return recoverable warnings.
+ */
+export declare function Decode_decodeExpressionToolWithWarnings(cwl: string): Decode_DecodeResult$1<CWLExpressionToolDescription>;
+/**
+ * Decode a CWL ExpressionTool and discard recoverable warnings.
  */
 export declare function Decode_decodeExpressionTool(cwl: string): CWLExpressionToolDescription;
 /**
- * Decode a CWL file string written in the YAML format into a CWLOperationDescription
+ * Decode a CWL Operation YAML string and return recoverable warnings.
+ */
+export declare function Decode_decodeOperationWithWarnings(cwl: string): Decode_DecodeResult$1<CWLOperationDescription>;
+/**
+ * Decode a CWL Operation and discard recoverable warnings.
  */
 export declare function Decode_decodeOperation(cwl: string): CWLOperationDescription;
+/**
+ * Decode any CWL processing unit from a YAML string and return recoverable warnings.
+ */
+export declare function Decode_decodeCWLProcessingUnitWithWarnings(cwl: string): Decode_DecodeResult$1<CWLProcessingUnit_$union>;
+/**
+ * Decode any CWL processing unit and discard recoverable warnings.
+ */
 export declare function Decode_decodeCWLProcessingUnit(cwl: string): CWLProcessingUnit_$union;
+export declare function DecodeParameters_decodeParameterValue(value: YAMLElement_$union): CWLParameterValue_$union;
 export declare function DecodeParameters_cwlParameterReferenceDecoder(get$: IGetters, key: string, yEle: YAMLElement_$union): CWLParameterReference;
 export declare const DecodeParameters_cwlparameterReferenceArrayDecoder: (value: YAMLElement_$union) => CWLParameterReference[];
+/**
+ * Decode a YAML parameter file string into parameter references.
+ */
 export declare function DecodeParameters_decodeYAMLParameterFile(yaml: string): CWLParameterReference[];
 //# sourceMappingURL=Decode.d.ts.map

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

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