@nfdi4plants/arctrl 3.1.0 → 3.1.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/ts/ts/CWL/CWLTypes.d.ts +162 -45
- package/dist/ts/ts/CWL/CWLTypes.d.ts.map +1 -1
- package/dist/ts/ts/CWL/CWLTypes.js +495 -104
- package/dist/ts/ts/CWL/Decode.d.ts +291 -48
- package/dist/ts/ts/CWL/Decode.d.ts.map +1 -1
- package/dist/ts/ts/CWL/Decode.js +911 -568
- package/dist/ts/ts/CWL/DynamicObjHelpers.d.ts +37 -0
- package/dist/ts/ts/CWL/DynamicObjHelpers.d.ts.map +1 -0
- package/dist/ts/ts/CWL/DynamicObjHelpers.js +57 -0
- package/dist/ts/ts/CWL/Encode.d.ts +117 -2
- package/dist/ts/ts/CWL/Encode.d.ts.map +1 -1
- package/dist/ts/ts/CWL/Encode.js +399 -163
- package/dist/ts/ts/CWL/ExpressionToolDescription.d.ts +2 -0
- package/dist/ts/ts/CWL/ExpressionToolDescription.d.ts.map +1 -1
- package/dist/ts/ts/CWL/ExpressionToolDescription.js +7 -0
- package/dist/ts/ts/CWL/Inputs.d.ts +65 -14
- package/dist/ts/ts/CWL/Inputs.d.ts.map +1 -1
- package/dist/ts/ts/CWL/Inputs.js +194 -51
- package/dist/ts/ts/CWL/OperationDescription.d.ts +2 -0
- package/dist/ts/ts/CWL/OperationDescription.d.ts.map +1 -1
- package/dist/ts/ts/CWL/OperationDescription.js +7 -0
- package/dist/ts/ts/CWL/Outputs.d.ts +51 -12
- package/dist/ts/ts/CWL/Outputs.d.ts.map +1 -1
- package/dist/ts/ts/CWL/Outputs.js +152 -76
- package/dist/ts/ts/CWL/ParameterReference.d.ts +4 -1
- package/dist/ts/ts/CWL/ParameterReference.d.ts.map +1 -1
- package/dist/ts/ts/CWL/ParameterReference.js +17 -6
- package/dist/ts/ts/CWL/Requirements.d.ts +140 -51
- package/dist/ts/ts/CWL/Requirements.d.ts.map +1 -1
- package/dist/ts/ts/CWL/Requirements.js +458 -128
- package/dist/ts/ts/CWL/ToolDescription.d.ts +27 -2
- package/dist/ts/ts/CWL/ToolDescription.d.ts.map +1 -1
- package/dist/ts/ts/CWL/ToolDescription.js +74 -4
- package/dist/ts/ts/CWL/WorkflowDescription.d.ts +2 -0
- package/dist/ts/ts/CWL/WorkflowDescription.d.ts.map +1 -1
- package/dist/ts/ts/CWL/WorkflowDescription.js +7 -0
- package/dist/ts/ts/CWL/WorkflowSteps.d.ts +50 -19
- package/dist/ts/ts/CWL/WorkflowSteps.d.ts.map +1 -1
- package/dist/ts/ts/CWL/WorkflowSteps.js +152 -23
- package/dist/ts/ts/ContractIO/ContractIO.d.ts.map +1 -1
- package/dist/ts/ts/ContractIO/ContractIO.js +4 -1
- package/dist/ts/ts/Conversion/Assay.d.ts.map +1 -1
- package/dist/ts/ts/Conversion/Assay.js +4 -3
- package/dist/ts/ts/Conversion/Investigation.js +2 -2
- package/dist/ts/ts/Conversion/Person.d.ts +1 -1
- package/dist/ts/ts/Conversion/Person.d.ts.map +1 -1
- package/dist/ts/ts/Conversion/Person.js +27 -11
- package/dist/ts/ts/Conversion/Run.d.ts.map +1 -1
- package/dist/ts/ts/Conversion/Run.js +3 -2
- package/dist/ts/ts/Conversion/ScholarlyArticle.d.ts.map +1 -1
- package/dist/ts/ts/Conversion/ScholarlyArticle.js +2 -1
- package/dist/ts/ts/Conversion/Study.d.ts.map +1 -1
- package/dist/ts/ts/Conversion/Study.js +5 -4
- package/dist/ts/ts/Conversion/Workflow.d.ts.map +1 -1
- package/dist/ts/ts/Conversion/Workflow.js +13 -12
- package/dist/ts/ts/Conversion.d.ts +14 -10
- package/dist/ts/ts/Conversion.d.ts.map +1 -1
- package/dist/ts/ts/Conversion.js +18 -11
- package/dist/ts/ts/Core/ArcTypes.d.ts.map +1 -1
- package/dist/ts/ts/Core/ArcTypes.js +18 -0
- package/dist/ts/ts/Json.d.ts +2 -2
- package/dist/ts/ts/Json.d.ts.map +1 -1
- package/dist/ts/ts/Json.js +3 -3
- package/dist/ts/ts/WorkflowGraph/ReferenceParsing.d.ts.map +1 -1
- package/dist/ts/ts/WorkflowGraph/ReferenceParsing.js +2 -1
- package/dist/ts/ts/Yaml/ValidationPackage.d.ts +1 -1
- package/dist/ts/ts/Yaml/ValidationPackage.d.ts.map +1 -1
- package/dist/ts/ts/Yaml/ValidationPackage.js +5 -5
- package/dist/ts/ts/Yaml/ValidationPackagesConfig.d.ts +1 -1
- package/dist/ts/ts/Yaml/ValidationPackagesConfig.d.ts.map +1 -1
- package/dist/ts/ts/Yaml/ValidationPackagesConfig.js +5 -5
- package/dist/ts/ts/Yaml.js +1 -1
- package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Decode.fs.js +5 -33
- package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Persil.fs.js +11 -159
- package/dist/ts/ts/fable_modules/YAMLicious.1.0.0-alpha.11/Preprocessing.fs.js +319 -0
- package/dist/ts/ts/fable_modules/YAMLicious.1.0.0-alpha.11/Reader.fs.js +1867 -0
- package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Regex.fs.js +1 -1
- package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/RegexActivePatterns.fs.js +2 -2
- package/dist/ts/ts/fable_modules/YAMLicious.1.0.0-alpha.11/Syntax.fs.js +819 -0
- package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Writer.fs.js +75 -48
- package/package.json +1 -1
- package/dist/ts/ts/fable_modules/YAMLicious.1.0.0-alpha.7/FlowToBlock.fs.js +0 -956
- package/dist/ts/ts/fable_modules/YAMLicious.1.0.0-alpha.7/Preprocessing.fs.js +0 -181
- package/dist/ts/ts/fable_modules/YAMLicious.1.0.0-alpha.7/Reader.fs.js +0 -1493
- /package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Encode.fs.js +0 -0
- /package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Escapes.fs.js +0 -0
- /package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/Interop/JsInterop.fs.js +0 -0
- /package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/StringBuffer.fs.js +0 -0
- /package/dist/ts/ts/fable_modules/{YAMLicious.1.0.0-alpha.7 → YAMLicious.1.0.0-alpha.11}/YAMLiciousTypes.fs.js +0 -0
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@@ -97,7 +97,10 @@ function fulfillWriteContractAsync(forceOverwrite, basePath, c) {
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let arg_5;
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return FSharpResult$2_Error((arg_5 = e_1.message, toText(printf("Error writing contract %s: %s"))(c.Path)(arg_5)));
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}, PromiseBuilder__Run_212F1D4B(promise, PromiseBuilder__Delay_62FBFDE1(promise, () => PromiseBuilder__Delay_62FBFDE1(promise, () => fileExistsAsync(combine(basePath, c.Path)).then((_arg) => {
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const exists = _arg;
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if (exists && c.Path.endsWith(".gitkeep")) {
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return Promise.resolve(FSharpResult$2_Ok(c));
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} else if (exists && !forceOverwrite) {
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return Promise.resolve(FSharpResult$2_Error(toText(printf("Contract %s already exists and overwrite is not allowed"))(c.Path)));
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} else {
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const matchValue = c.DTO;
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@@ -1 +1 @@
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-
{"version":3,"file":"Assay.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Assay.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAIjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAKzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;
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{"version":3,"file":"Assay.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Assay.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAIjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAKzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AAGpD,OAAO,EAAE,QAAQ,EAAoB,MAAM,qBAAqB,CAAC;AAQjE,OAAO,EAAE,UAAU,EAAE,MAAM,6BAA6B,CAAC;AAGzD,qBAAa,eAAe;;CAG3B;AAED,wBAAgB,2BAA2B,IAAI,QAAQ,CAEtD;AAED,wBAAgB,kDAAkD,CAAC,SAAS,EAAE,MAAM,EAAE,EAAE,mBAAmB,CAAC,EAAE,MAAM,EAAE,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,EAAE,CAkBtK;AAED,wBAAgB,sCAAsC,CAAC,KAAK,EAAE,QAAQ,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM,CAa/F;AAED,wBAAgB,wCAAwC,CAAC,KAAK,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ,CAWtH"}
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@@ -7,12 +7,12 @@ import { DataAux_pathAndSelectorFromName } from '../Core/Data.js';
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import { LDFile } from '../ROCrate/LDTypes/File.js';
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import { LDDataset } from '../ROCrate/LDTypes/Dataset.js';
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import { BaseTypes_composeDefinedTerm_ZDED3A0F, BaseTypes_composePropertyValueFromOA_ZDED3A0F, BaseTypes_composeComment_Z13201A7E, BaseTypes_decomposeDefinedTerm_Z2F770004, BaseTypes_decomposePropertyValueToOA_Z2F770004, BaseTypes_decomposeComment_Z2F770004 } from './Basic.js';
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import {
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import { ArcAssay } from '../Core/ArcTypes.js';
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import { PersonConversion_composePerson_2B0BECCC, PersonConversion_decomposePerson_Z6839B9E8 } from './Person.js';
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import { ARCtrl_ArcTables__ArcTables_GetProcesses_5E660E5C, ARCtrl_ArcTables__ArcTables_fromProcesses_Static_Z27F0B586 } from './Table.js';
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import { ArcTables } from '../Core/Table/ArcTables.js';
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import { DatamapConversion_composeFragmentDescriptors_Z892BFC3, DatamapConversion_decomposeFragmentDescriptors_Z6E59645F } from './Datamap.js';
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import { Datamap } from '../Core/Datamap.js';
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import { ArcAssay } from '../Core/ArcTypes.js';
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import { ofSeq } from '../../node_modules/@fable-org/fable-library-js/List.js';
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class AssayConversion {
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@@ -45,7 +45,8 @@ function AssayConversion_composeAssay_Z5C53FD5C(assay, fs) {
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const measurementMethod = map(BaseTypes_composeDefinedTerm_ZDED3A0F, assay.TechnologyType);
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const measurementTechnique = map(BaseTypes_composeDefinedTerm_ZDED3A0F, assay.TechnologyPlatform);
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const variableMeasured = map(BaseTypes_composePropertyValueFromOA_ZDED3A0F, assay.MeasurementType);
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const
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const persons = map((i) => i.GetAllPersons(), assay.Investigation);
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const creators = Option_fromSeq(ResizeArray_map((c) => PersonConversion_composePerson_2B0BECCC(c, unwrap(persons)), assay.Performers));
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const processSequence = Option_fromSeq((collection = ARCtrl_ArcTables__ArcTables_GetProcesses_5E660E5C(new ArcTables(assay.Tables), assay.Identifier, void 0, unwrap(fs)), Array.from(collection)));
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const fragmentDescriptors = map(DatamapConversion_composeFragmentDescriptors_Z892BFC3, assay.Datamap);
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const dataFiles = map((ps) => AssayConversion_getDataFilesFromProcesses_6BABD1B0(ps, unwrap(fragmentDescriptors)), processSequence);
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@@ -4,7 +4,7 @@ import { tryFromString, toString } from './DateTime.js';
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import { now } from '../../node_modules/@fable-org/fable-library-js/Date.js';
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import { Option_fromSeq, ResizeArray_map, ResizeArray_choose, ResizeArray_filter } from '../Core/Helper/Collections.js';
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import { ScholarlyArticleConversion_composeScholarlyArticle_D324A6D, ScholarlyArticleConversion_decomposeScholarlyArticle_Z6839B9E8 } from './ScholarlyArticle.js';
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import {
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import { PersonConversion_composePerson_2B0BECCC, PersonConversion_decomposePerson_Z6839B9E8 } from './Person.js';
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import { BaseTypes_composeComment_Z13201A7E, BaseTypes_decomposeComment_Z2F770004 } from './Basic.js';
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import { toList, delay, append } from '../../node_modules/@fable-org/fable-library-js/Seq.js';
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import { AssayConversion_composeAssay_Z5C53FD5C, AssayConversion_decomposeAssay_Z6839B9E8 } from './Assay.js';
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@@ -33,7 +33,7 @@ function InvestigationConversion_composeInvestigation_Z284BC0AC(investigation, f
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const dateCreated = bind(tryFromString, investigation.SubmissionDate);
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const datePublished = defaultArg(bind(tryFromString, investigation.PublicReleaseDate), now());
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const publications = Option_fromSeq(ResizeArray_map(ScholarlyArticleConversion_composeScholarlyArticle_D324A6D, investigation.Publications));
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const creators = Option_fromSeq(ResizeArray_map(
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const creators = Option_fromSeq(ResizeArray_map((c) => PersonConversion_composePerson_2B0BECCC(c, investigation.GetAllPersons()), investigation.Contacts));
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const comments = Option_fromSeq(ResizeArray_map(BaseTypes_composeComment_Z13201A7E, investigation.Comments));
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const hasParts = Option_fromSeq((collection = toList(delay(() => append(ResizeArray_map((a_3) => AssayConversion_composeAssay_Z5C53FD5C(a_3, unwrap(fs)), investigation.Assays), delay(() => append(ResizeArray_map((s_2) => StudyConversion_composeStudy_ZFE0E38E(s_2, unwrap(fs)), investigation.Studies), delay(() => append(ResizeArray_choose((w) => {
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try {
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@@ -11,6 +11,6 @@ export declare function PersonConversion_composeAffiliation_Z721C83C5(affiliatio
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export declare function PersonConversion_decomposeAffiliation_Z2F770004(affiliation: LDNode, context?: LDContext): string;
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export declare function PersonConversion_composeAddress_Z721C83C5(address: string): any;
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export declare function PersonConversion_decomposeAddress_4E60E31B(address: any): string;
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export declare function
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export declare function PersonConversion_composePerson_2B0BECCC(person: Person, persons?: Iterable<Person>): LDNode;
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export declare function PersonConversion_decomposePerson_Z6839B9E8(person: LDNode, graph?: LDGraph, context?: LDContext): Person;
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//# sourceMappingURL=Person.d.ts.map
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{"version":3,"file":"Person.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Person.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAIjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAMzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;
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{"version":3,"file":"Person.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Person.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAIjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAMzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AACpD,OAAO,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAU3C,qBAAa,gBAAgB;;CAG5B;AAED,wBAAgB,4BAA4B,IAAI,QAAQ,CAEvD;AAED,wBAAgB,6BAA6B,IAAI,MAAM,CAEtD;AAED,wBAAgB,6CAA6C,CAAC,WAAW,EAAE,MAAM,GAAG,MAAM,CAczF;AAED,wBAAgB,+CAA+C,CAAC,WAAW,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAOhH;AAED,wBAAgB,yCAAyC,CAAC,OAAO,EAAE,MAAM,GAAG,GAAG,CAW9E;AAED,wBAAgB,0CAA0C,CAAC,OAAO,EAAE,GAAG,GAAG,MAAM,CAU/E;AAED,wBAAgB,uCAAuC,CAAC,MAAM,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,QAAQ,CAAC,MAAM,CAAC,GAAG,MAAM,CA+B1G;AAED,wBAAgB,0CAA0C,CAAC,MAAM,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAevH"}
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import { Person } from '../Core/Person.js';
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import { equals } from '../../node_modules/@fable-org/fable-library-js/Util.js';
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import { tryGetOrcidNumber } from '../Core/Helper/ORCID.js';
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import { Person } from '../Core/Person.js';
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import { tryGetOrcidNumber } from '../Core/Helper/ORCID.js';
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class PersonConversion {
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}
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function PersonConversion_composePerson_2B0BECCC(person, persons) {
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let orcid;
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const matchValue = person.ORCID;
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orcid = persons == null ? void 0 : bind((p_1) => p_1.ORCID, tryFind((p) => {
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if (equals(p.FirstName, person.FirstName)) {
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return equals(p.LastName, person.LastName);
|
|
78
|
+
} else {
|
|
79
|
+
return false;
|
|
80
|
+
}
|
|
81
|
+
}, value(persons)));
|
|
82
|
+
} else {
|
|
83
|
+
const o = value(matchValue);
|
|
84
|
+
const matchValue_1 = tryGetOrcidNumber(o);
|
|
85
|
+
orcid = matchValue_1 == null ? toFail(printf("Invalid ORCID: %s"))(o) : value(matchValue_1);
|
|
86
|
+
}
|
|
87
|
+
let givenName;
|
|
88
|
+
const matchValue_2 = person.FirstName;
|
|
89
|
+
if (matchValue_2 == null) {
|
|
74
90
|
throw new Error("Person must have a given name");
|
|
75
91
|
} else {
|
|
76
|
-
givenName = value(
|
|
92
|
+
givenName = value(matchValue_2);
|
|
77
93
|
}
|
|
78
94
|
const jobTitles = Option_fromSeq(ResizeArray_map(BaseTypes_composeDefinedTerm_ZDED3A0F, person.Roles));
|
|
79
95
|
const disambiguatingDescriptions = Option_fromSeq(ResizeArray_map(toString$1, person.Comments));
|
|
80
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|
const address_1 = map(PersonConversion_composeAddress_Z721C83C5, person.Address);
|
|
81
97
|
const affiliation_1 = map(PersonConversion_composeAffiliation_Z721C83C5, person.Affiliation);
|
|
82
|
-
return LDPerson.create(givenName, unwrap(
|
|
98
|
+
return LDPerson.create(givenName, unwrap(orcid), void 0, unwrap(affiliation_1), unwrap(person.EMail), unwrap(person.LastName), void 0, unwrap(jobTitles), unwrap(person.MidInitials), address_1, unwrap(disambiguatingDescriptions), unwrap(person.Fax), unwrap(person.Phone));
|
|
83
99
|
}
|
|
84
100
|
function PersonConversion_decomposePerson_Z6839B9E8(person, graph, context) {
|
|
85
101
|
const orcid = tryGetOrcidNumber(person.Id);
|
|
@@ -97,4 +113,4 @@ function PersonConversion_decomposePerson_Z6839B9E8(person, graph, context) {
|
|
|
97
113
|
return Person.create(unwrap(orcid), unwrap(LDPerson.tryGetFamilyNameAsString(person, unwrap(context))), LDPerson.getGivenNameAsString(person, unwrap(context)), unwrap(LDPerson.tryGetAdditionalNameAsString(person, unwrap(context))), unwrap(LDPerson.tryGetEmailAsString(person, unwrap(context))), unwrap(LDPerson.tryGetTelephoneAsString(person, unwrap(context))), unwrap(LDPerson.tryGetFaxNumberAsString(person, unwrap(context))), unwrap(address), unwrap(affiliation), roles, comments);
|
|
98
114
|
}
|
|
99
115
|
|
|
100
|
-
export { PersonConversion, PersonConversion_$reflection, PersonConversion_composeAddress_Z721C83C5, PersonConversion_composeAffiliation_Z721C83C5,
|
|
116
|
+
export { PersonConversion, PersonConversion_$reflection, PersonConversion_composeAddress_Z721C83C5, PersonConversion_composeAffiliation_Z721C83C5, PersonConversion_composePerson_2B0BECCC, PersonConversion_decomposeAddress_4E60E31B, PersonConversion_decomposeAffiliation_Z2F770004, PersonConversion_decomposePerson_Z6839B9E8, PersonConversion_get_orcidKey };
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"Run.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Run.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAEjF,OAAO,EAAgB,cAAc,EAAE,MAAM,oBAAoB,CAAC;AAOlE,OAAO,EAAE,QAAQ,EAAgB,MAAM,kBAAkB,CAAC;AAI1D,OAAO,EAAE,qBAAqB,EAAE,MAAM,8BAA8B,CAAC;AACrE,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAEzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AAEpD,OAAO,EAAE,wBAAwB,EAAE,MAAM,6BAA6B,CAAC;AAQvE,OAAO,
|
|
1
|
+
{"version":3,"file":"Run.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Run.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAEjF,OAAO,EAAgB,cAAc,EAAE,MAAM,oBAAoB,CAAC;AAOlE,OAAO,EAAE,QAAQ,EAAgB,MAAM,kBAAkB,CAAC;AAI1D,OAAO,EAAE,qBAAqB,EAAE,MAAM,8BAA8B,CAAC;AACrE,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAEzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AAEpD,OAAO,EAAE,wBAAwB,EAAE,MAAM,6BAA6B,CAAC;AAQvE,OAAO,EAAoB,MAAM,EAAE,MAAM,qBAAqB,CAAC;AAC/D,OAAO,EAAE,UAAU,EAAE,MAAM,6BAA6B,CAAC;AAczD,qBAAa,aAAa;;CAGzB;AAED,wBAAgB,yBAAyB,IAAI,QAAQ,CAEpD;AAED;;GAEG;AACH,wBAAgB,qCAAqC,CAAC,KAAK,EAAE,cAAc,GAAG,MAAM,CAGnF;AAED;;GAEG;AACH,wBAAgB,mCAAmC,CAAC,KAAK,EAAE,cAAc,GAAG,OAAO,CAgBlF;AAED;;;;GAIG;AACH,wBAAgB,+CAA+C,CAAC,IAAI,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,GAAG,MAAM,CAOrG;AAED,wBAAgB,iDAAiD,CAAC,IAAI,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,GAAG,MAAM,CAQvG;AAED,wBAAgB,2CAA2C,CAAC,UAAU,EAAE,qBAAqB,EAAE,aAAa,EAAE,MAAM,EAAE,UAAU,EAAE,QAAQ,EAAE,OAAO,EAAE,MAAM,GAAG,MAAM,CAwCnK;AAED,wBAAgB,8CAA8C,CAAC,UAAU,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,qBAAqB,CAqB/J;AAED,wBAAgB,0DAA0D,CAAC,GAAG,EAAE,MAAM,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM,EAAE,CAkDjH;AAED,wBAAgB,uDAAuD,CAAC,kBAAkB,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,CAAC,wBAAwB,EAAE,qBAAqB,EAAE,CAAC,CAK9M;AAED,wBAAgB,iCAAiC,CAAC,GAAG,EAAE,MAAM,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM,CA+BtF;AAED,wBAAgB,oCAAoC,CAAC,GAAG,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAoC9G"}
|
|
@@ -21,7 +21,7 @@ import { LDWorkflowInvocation } from '../ROCrate/LDTypes/WorkflowInvocation.js';
|
|
|
21
21
|
import { LDLabProcess } from '../ROCrate/LDTypes/LabProcess.js';
|
|
22
22
|
import { ArcRun } from '../Core/ArcTypes.js';
|
|
23
23
|
import { BaseTypes_composeDefinedTerm_ZDED3A0F, BaseTypes_composePropertyValueFromOA_ZDED3A0F, BaseTypes_composeComment_Z13201A7E, BaseTypes_decomposeDefinedTerm_Z2F770004, BaseTypes_decomposePropertyValueToOA_Z2F770004, BaseTypes_decomposeComment_Z2F770004 } from './Basic.js';
|
|
24
|
-
import {
|
|
24
|
+
import { PersonConversion_composePerson_2B0BECCC, PersonConversion_decomposePerson_Z6839B9E8 } from './Person.js';
|
|
25
25
|
import { LDOrganization } from '../ROCrate/LDTypes/Organization.js';
|
|
26
26
|
import { utcNow } from '../../node_modules/@fable-org/fable-library-js/Date.js';
|
|
27
27
|
import { DatamapConversion_composeFragmentDescriptors_Z892BFC3, DatamapConversion_decomposeFragmentDescriptors_Z6E59645F } from './Datamap.js';
|
|
@@ -200,7 +200,8 @@ function RunConversion_composeRun_Z8CC08AC(run, fs) {
|
|
|
200
200
|
const measurementMethod = map(BaseTypes_composeDefinedTerm_ZDED3A0F, run.TechnologyType);
|
|
201
201
|
const measurementTechnique = map(BaseTypes_composeDefinedTerm_ZDED3A0F, run.TechnologyPlatform);
|
|
202
202
|
const variableMeasured = map(BaseTypes_composePropertyValueFromOA_ZDED3A0F, run.MeasurementType);
|
|
203
|
-
const
|
|
203
|
+
const persons = map((i) => i.GetAllPersons(), run.Investigation);
|
|
204
|
+
const creators = Option_fromSeq(ResizeArray_map((c) => PersonConversion_composePerson_2B0BECCC(c, unwrap(persons)), run.Performers));
|
|
204
205
|
const publisher = LDOrganization.create("DataPLANT");
|
|
205
206
|
const dateCreated = utcNow();
|
|
206
207
|
if (creators != null) {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"ScholarlyArticle.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/ScholarlyArticle.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAIjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AASzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AAOpD,OAAO,EAAE,WAAW,EAAE,MAAM,wBAAwB,CAAC;AAErD,qBAAa,0BAA0B;;CAGtC;AAED,wBAAgB,sCAAsC,IAAI,QAAQ,CAEjE;AAED,wBAAgB,kDAAkD,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,
|
|
1
|
+
{"version":3,"file":"ScholarlyArticle.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/ScholarlyArticle.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAIjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AASzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AAOpD,OAAO,EAAE,WAAW,EAAE,MAAM,wBAAwB,CAAC;AAErD,qBAAa,0BAA0B;;CAGtC;AAED,wBAAgB,sCAAsC,IAAI,QAAQ,CAEjE;AAED,wBAAgB,kDAAkD,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,CAezF;AAED,wBAAgB,iDAAiD,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,EAAE,CAmCrF;AAED,wBAAgB,mDAAmD,CAAC,OAAO,EAAE,MAAM,GAAG,MAAM,EAAE,CAG7F;AAED,wBAAgB,oDAAoD,CAAC,MAAM,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAOhH;AAED,wBAAgB,oDAAoD,CAAC,OAAO,EAAE,MAAM,EAAE,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAEnH;AAED,wBAAgB,0DAA0D,CAAC,WAAW,EAAE,WAAW,GAAG,MAAM,CAc3G;AAED,wBAAgB,8DAA8D,CAAC,EAAE,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,WAAW,CAa5I"}
|
|
@@ -33,7 +33,8 @@ function ScholarlyArticleConversion_composeAuthor_Z721C83C5(author) {
|
|
|
33
33
|
return matchValue.fields[0];
|
|
34
34
|
}
|
|
35
35
|
} catch (matchValue_1) {
|
|
36
|
-
|
|
36
|
+
const id = `#Author_${author}`;
|
|
37
|
+
return LDPerson.create(author, void 0, id);
|
|
37
38
|
}
|
|
38
39
|
}
|
|
39
40
|
function ScholarlyArticleConversion_splitAuthors_Z721C83C5(a) {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"Study.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Study.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAOjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;
|
|
1
|
+
{"version":3,"file":"Study.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Study.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAOjF,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AACzD,OAAO,EAAE,QAAQ,EAAoB,MAAM,qBAAqB,CAAC;AAWjE,OAAO,EAAE,UAAU,EAAE,MAAM,6BAA6B,CAAC;AAEzD,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AAEpD,qBAAa,eAAe;;CAG3B;AAED,wBAAgB,2BAA2B,IAAI,QAAQ,CAEtD;AAED,wBAAgB,qCAAqC,CAAC,KAAK,EAAE,QAAQ,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM,CAa9F;AAED,wBAAgB,wCAAwC,CAAC,KAAK,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ,CAWtH"}
|
|
@@ -1,10 +1,11 @@
|
|
|
1
1
|
import { class_type } from '../../node_modules/@fable-org/fable-library-js/Reflection.js';
|
|
2
|
-
import { bind,
|
|
2
|
+
import { bind, map, unwrap } from '../../node_modules/@fable-org/fable-library-js/Option.js';
|
|
3
3
|
import { tryFromString, toString } from './DateTime.js';
|
|
4
4
|
import { now } from '../../node_modules/@fable-org/fable-library-js/Date.js';
|
|
5
5
|
import { Option_fromSeq, ResizeArray_map, Option_fromValueWithDefault } from '../Core/Helper/Collections.js';
|
|
6
6
|
import { ScholarlyArticleConversion_composeScholarlyArticle_D324A6D, ScholarlyArticleConversion_decomposeScholarlyArticle_Z6839B9E8 } from './ScholarlyArticle.js';
|
|
7
|
-
import {
|
|
7
|
+
import { ArcStudy } from '../Core/ArcTypes.js';
|
|
8
|
+
import { PersonConversion_composePerson_2B0BECCC, PersonConversion_decomposePerson_Z6839B9E8 } from './Person.js';
|
|
8
9
|
import { ARCtrl_ArcTables__ArcTables_GetProcesses_5E660E5C, ARCtrl_ArcTables__ArcTables_fromProcesses_Static_Z27F0B586 } from './Table.js';
|
|
9
10
|
import { ArcTables } from '../Core/Table/ArcTables.js';
|
|
10
11
|
import { DatamapConversion_composeFragmentDescriptors_Z892BFC3, DatamapConversion_decomposeFragmentDescriptors_Z6E59645F } from './Datamap.js';
|
|
@@ -12,7 +13,6 @@ import { Datamap } from '../Core/Datamap.js';
|
|
|
12
13
|
import { AssayConversion_getDataFilesFromProcesses_6BABD1B0 } from './Assay.js';
|
|
13
14
|
import { BaseTypes_composeComment_Z13201A7E, BaseTypes_decomposeComment_Z2F770004 } from './Basic.js';
|
|
14
15
|
import { LDDataset } from '../ROCrate/LDTypes/Dataset.js';
|
|
15
|
-
import { ArcStudy } from '../Core/ArcTypes.js';
|
|
16
16
|
import { ofSeq } from '../../node_modules/@fable-org/fable-library-js/List.js';
|
|
17
17
|
|
|
18
18
|
class StudyConversion {
|
|
@@ -28,7 +28,8 @@ function StudyConversion_composeStudy_ZFE0E38E(study, fs) {
|
|
|
28
28
|
const datePublished = bind(tryFromString, study.PublicReleaseDate);
|
|
29
29
|
const dateModified = now();
|
|
30
30
|
const publications = Option_fromSeq(ResizeArray_map(ScholarlyArticleConversion_composeScholarlyArticle_D324A6D, study.Publications));
|
|
31
|
-
const
|
|
31
|
+
const persons = map((i) => i.GetAllPersons(), study.Investigation);
|
|
32
|
+
const creators = Option_fromSeq(ResizeArray_map((c) => PersonConversion_composePerson_2B0BECCC(c, unwrap(persons)), study.Contacts));
|
|
32
33
|
const processSequence = Option_fromSeq((collection = ARCtrl_ArcTables__ArcTables_GetProcesses_5E660E5C(new ArcTables(study.Tables), void 0, study.Identifier, unwrap(fs)), Array.from(collection)));
|
|
33
34
|
const fragmentDescriptors = map(DatamapConversion_composeFragmentDescriptors_Z892BFC3, study.Datamap);
|
|
34
35
|
const dataFiles = map((ps) => AssayConversion_getDataFilesFromProcesses_6BABD1B0(ps, unwrap(fragmentDescriptors)), processSequence);
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"Workflow.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Workflow.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAEjF,OAAO,EAAE,cAAc,EAAE,MAAM,oBAAoB,CAAC;AAKpD,OAAO,EAAW,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAEtE,OAAO,EAAiC,MAAM,EAAoB,MAAM,uCAAuC,CAAC;AAEhH,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAEzD,OAAO,
|
|
1
|
+
{"version":3,"file":"Workflow.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Conversion/Workflow.ts"],"names":[],"mappings":"AAAA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAEjF,OAAO,EAAE,cAAc,EAAE,MAAM,oBAAoB,CAAC;AAKpD,OAAO,EAAW,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAEtE,OAAO,EAAiC,MAAM,EAAoB,MAAM,uCAAuC,CAAC;AAEhH,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AAEzD,OAAO,EAAE,QAAQ,EAAE,YAAY,EAAE,MAAM,kBAAkB,CAAC;AAE1D,OAAO,EAAE,SAAS,EAAE,MAAM,yBAAyB,CAAC;AACpD,OAAO,EAAE,SAAS,EAAE,aAAa,EAAE,MAAM,mBAAmB,CAAC;AAI7D,OAAO,EAA8B,SAAS,EAAE,MAAM,8BAA8B,CAAC;AAErF,OAAO,EAAgI,wBAAwB,EAAwC,MAAM,6BAA6B,CAAC;AAC3O,OAAO,EAA6B,YAAY,EAAE,sBAAsB,EAAE,MAAM,yBAAyB,CAAC;AAQ1G,OAAO,EAAE,kBAAkB,EAAE,MAAM,2BAA2B,CAAC;AAG/D,OAAO,EAAE,4BAA4B,EAAE,MAAM,qCAAqC,CAAC;AACnF,OAAO,EAAE,uBAAuB,EAAE,MAAM,gCAAgC,CAAC;AACzE,OAAO,EAAE,sBAAsB,EAAE,MAAM,+BAA+B,CAAC;AAKvE,OAAO,EAAE,WAAW,EAAoB,MAAM,qBAAqB,CAAC;AAOpE,OAAO,EAAE,UAAU,EAAE,MAAM,6BAA6B,CAAC;AAEzD,qBAAa,kBAAkB;;CAG9B;AAED,wBAAgB,8BAA8B,IAAI,QAAQ,CAEzD;AAED,wBAAgB,kDAAkD,CAAC,CAAC,EAAE,cAAc,GAAG,MAAM,CAQ5F;AAED,wBAAgB,oDAAoD,CAAC,CAAC,EAAE,MAAM,GAAG,cAAc,CAuC9F;AAED,wBAAgB,qDAAqD,CAAC,MAAM,EAAE,MAAM,CAAC,MAAM,CAAC,EAAE,QAAQ,EAAE,MAAM,CAAC,KAAK,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,CAmBvI;AAED,wBAAgB,4DAA4D,CAAC,GAAG,EAAE,QAAQ,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAa3I;AAED,wBAAgB,kDAAkD,CAAC,WAAW,EAAE,MAAM,EAAE,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAAC,YAAY,CAAC,CAqBnI;AAED,wBAAgB,6DAA6D,CAAC,GAAG,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,QAAQ,CA0BzI;AAED,wBAAgB,mEAAmE,CAAC,IAAI,EAAE,MAAM,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,CAQ1H;AAED,wBAAgB,6DAA6D,CAAC,GAAG,EAAE,SAAS,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAY7I;AAED,wBAAgB,mDAAmD,CAAC,WAAW,EAAE,MAAM,EAAE,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,aAAa,CAE7H;AAED,wBAAgB,8DAA8D,CAAC,IAAI,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,SAAS,CAK5I;AAED,wBAAgB,qDAAqD,CAAC,IAAI,EAAE,SAAS,GAAG,MAAM,CAsC7F;AAED,wBAAgB,uDAAuD,CAAC,IAAI,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,SAAS,CAGrI;AAED;;;GAGG;AACH,wBAAgB,gEAAgE,CAAC,EAAE,EAAE,wBAAwB,GAAG,QAAQ,EAAE,CAEzH;AAED,wBAAgB,8CAA8C,IAAI,MAAM,CAEvE;AAED,wBAAgB,kDAAkD,IAAI,MAAM,CAE3E;AAED,wBAAgB,wDAAwD,IAAI,MAAM,CAEjF;AAED,wBAAgB,mDAAmD,IAAI,MAAM,CAE5E;AAED;;;GAGG;AACH,wBAAgB,4CAA4C,CAAC,GAAG,EAAE,sBAAsB,GAAG,MAAM,CAahG;AAED;;;GAGG;AACH,wBAAgB,6DAA6D,CAAC,eAAe,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAAC,wBAAwB,CAAC,CAoD7K;AAED,wBAAgB,sEAAsE,CAAC,QAAQ,EAAE,MAAM,EAAE,QAAQ,EAAE,kBAAkB,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAItL;AAED,wBAAgB,sEAAsE,CAAC,QAAQ,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,kBAAkB,CAGjK;AAED;;;GAGG;AACH,wBAAgB,iFAAiF,CAAC,QAAQ,EAAE,MAAM,EAAE,cAAc,EAAE,4BAA4B,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAMjN;AAED;;;GAGG;AACH,wBAAgB,gFAAgF,CAAC,QAAQ,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,4BAA4B,CAGrL;AAED,wBAAgB,4EAA4E,CAAC,QAAQ,EAAE,MAAM,EAAE,SAAS,EAAE,uBAAuB,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAIlM;AAED,wBAAgB,2EAA2E,CAAC,QAAQ,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,uBAAuB,CAE3K;AAED,wBAAgB,gDAAgD,CAAC,EAAE,EAAE,IAAI,EAAE,YAAY,EAAE,UAAU,EAAE,EAAE,GAAG,MAAM,CAK/G;AAED,wBAAgB,gEAAgE,CAAC,QAAQ,EAAE,MAAM,EAAE,QAAQ,EAAE,sBAAsB,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAKpL;AAED;;;GAGG;AACH,wBAAgB,iDAAiD,CAAC,IAAI,EAAE,MAAM,EAAE,gBAAgB,CAAC,EAAE,MAAM,EAAE,oBAAoB,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,YAAY,CAG7L;AAED;;;GAGG;AACH,wBAAgB,+DAA+D,CAAC,QAAQ,EAAE,MAAM,EAAE,oBAAoB,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,sBAAsB,CAM9L;AAED;;;GAGG;AACH,wBAAgB,sEAAsE,CAAC,QAAQ,EAAE,MAAM,EAAE,EAAE,EAAE,wBAAwB,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAWtL;AAED;;;GAGG;AACH,wBAAgB,qEAAqE,CAAC,QAAQ,EAAE,MAAM,EAAE,oBAAoB,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,wBAAwB,CAetM;AAED,wBAAgB,2CAA2C,CAAC,QAAQ,EAAE,WAAW,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM,CAsC1G;AAED,wBAAgB,8CAA8C,CAAC,QAAQ,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,WAAW,CAalI"}
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import { class_type } from '../../node_modules/@fable-org/fable-library-js/Reflection.js';
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import { isComplexType, cwlTypeToYamlString, writeYaml, encodeCWLType } from '../CWL/Encode.js';
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import { object } from '../fable_modules/YAMLicious.1.0.0-alpha.
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import { read } from '../fable_modules/YAMLicious.1.0.0-alpha.11/Reader.fs.js';
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import { YAMLElement_Sequence, YAMLElement_Comment } from '../fable_modules/YAMLicious.1.0.0-alpha.11/YAMLiciousTypes.fs.js';
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import { object } from '../fable_modules/YAMLicious.1.0.0-alpha.11/Decode.fs.js';
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import { Decode_cwlTypeDecoder$0027, Decode_cwlTypeStringMatcher } from '../CWL/Decode.js';
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import { isEmpty, head, tail } from '../../node_modules/@fable-org/fable-library-js/List.js';
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import { value, defaultArg, unwrap, bind, map } from '../../node_modules/@fable-org/fable-library-js/Option.js';
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import { LDPropertyValue } from '../ROCrate/LDTypes/PropertyValue.js';
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import { LDFormalParameter } from '../ROCrate/LDTypes/FormalParameter.js';
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import {
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import { InputBinding, CWLInput } from '../CWL/Inputs.js';
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import { tryPick, exactlyOne, toArray, find } from '../../node_modules/@fable-org/fable-library-js/Seq.js';
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import {
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import { OutputBinding, CWLOutput } from '../CWL/Outputs.js';
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import { int32ToString, stringHash } from '../../node_modules/@fable-org/fable-library-js/Util.js';
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import { Component_create_Z2F0B38C7 } from '../Core/Process/Component.js';
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import { BaseTypes_decomposePropertyValue_Z2F770004, BaseTypes_composeDefinedTerm_ZDED3A0F, BaseTypes_composeComment_Z13201A7E, BaseTypes_decomposeDefinedTerm_Z2F770004, BaseTypes_decomposeComment_Z2F770004 } from './Basic.js';
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@@ -33,11 +33,11 @@ import { resolveWorkflowStepRunFromLookup } from '../CWLRunResolver.js';
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import { Workflow_cwlFileNameFromIdentifier } from '../Core/Helper/Identifier.js';
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import { toFail, printf } from '../../node_modules/@fable-org/fable-library-js/String.js';
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import { LDOrganization } from '../ROCrate/LDTypes/Organization.js';
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import {
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import { ArcWorkflow } from '../Core/ArcTypes.js';
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import { PersonConversion_composePerson_2B0BECCC, PersonConversion_decomposePerson_Z6839B9E8 } from './Person.js';
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import { utcNow } from '../../node_modules/@fable-org/fable-library-js/Date.js';
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import { DatamapConversion_composeFragmentDescriptors_Z892BFC3, DatamapConversion_decomposeFragmentDescriptors_Z6E59645F } from './Datamap.js';
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import { Datamap } from '../Core/Datamap.js';
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import { ArcWorkflow } from '../Core/ArcTypes.js';
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class WorkflowConversion {
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constructor() {
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}
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const valueRequired = !defaultArg(inp.Optional, false);
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const id = LDFormalParameter.genID(inp.Name, unwrap(workflowName), unwrap(runName));
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const identifiers = bind((ib) => WorkflowConversion_composeFormalParamInputIdentifiers(ib.Prefix, ib.
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const identifiers = bind((ib) => WorkflowConversion_composeFormalParamInputIdentifiers(ib.Prefix, ib._position), inp.InputBinding);
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return LDFormalParameter.create(additionalType, id, void 0, inp.Name, void 0, void 0, void 0, void 0, valueRequired, unwrap(identifiers));
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}
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function WorkflowConversion_decomposeInputBindings_1AAAE9A5(identifiers, context) {
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case 0:
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return
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return InputBinding.create(unwrap(prefix), unwrap(position));
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}
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}
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function WorkflowConversion_decomposeInputFromFormalParameter_2664C4B8(inp, context, graph) {
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return LDFormalParameter.create(additionalType, id, void 0, out.Name, void 0, void 0, void 0, void 0, true, unwrap(identifiers));
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}
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function WorkflowConversion_decomposeOutputBindings_1AAAE9A5(identifiers, context) {
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return
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return OutputBinding.create(unwrap(tryPick((n) => LDPropertyValue.tryGetAsGlob(n, unwrap(context)), identifiers)));
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}
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function WorkflowConversion_decomposeOutputFromFormalParameter_2664C4B8(outp, context, graph) {
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const t_1 = WorkflowConversion_decomposeAdditionalType_Z721C83C5(exactlyOne(outp.AdditionalType));
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@@ -328,7 +328,7 @@ function WorkflowConversion_composeWorkflowProtocolFromToolDescription_7B8357DA(
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}
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function WorkflowConversion_decomposeWorkflowProtocolToToolDescription_2664C4B8(protocol, context, graph) {
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const inputs = ResizeArray_map((i) => WorkflowConversion_decomposeInputFromFormalParameter_2664C4B8(i, unwrap(context), unwrap(graph)), LDComputationalWorkflow.getInputsAsFormalParameters(protocol, unwrap(graph), unwrap(context)));
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return new CWLToolDescription(ResizeArray_map((o) => WorkflowConversion_decomposeOutputFromFormalParameter_2664C4B8(o, unwrap(context), unwrap(graph)), LDComputationalWorkflow.getOutputsAsFormalParameter(protocol, unwrap(graph), unwrap(context))), void 0, void 0, void 0, void 0, void 0, inputs);
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return new CWLToolDescription(ResizeArray_map((o) => WorkflowConversion_decomposeOutputFromFormalParameter_2664C4B8(o, unwrap(context), unwrap(graph)), LDComputationalWorkflow.getOutputsAsFormalParameter(protocol, unwrap(graph), unwrap(context))), void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, inputs);
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}
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function WorkflowConversion_composeWorkflowProtocolFromExpressionToolDescription_Z7BEB6658(filePath, expressionTool, workflowName, runName) {
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const inputs = map((a) => ResizeArray_map((i) => WorkflowConversion_composeFormalParameterFromInput_Z7A02DED7(i, unwrap(workflowName), unwrap(runName)), a), expressionTool.Inputs);
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@@ -411,7 +411,8 @@ function WorkflowConversion_composeWorkflow_42450E6E(workflow, fs) {
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workflowProtocol = WorkflowConversion_composeWorkflowProtocolFromProcessingUnit_Z3099C0F7(workflowFilePath, value(matchValue), workflow.Identifier);
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}
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const publisher = LDOrganization.create("DataPLANT");
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const
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const persons = map((inv) => inv.GetAllPersons(), workflow.Investigation);
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const creators = Option_fromSeq(ResizeArray_map((c) => PersonConversion_composePerson_2B0BECCC(c, unwrap(persons)), workflow.Contacts));
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const dateCreated = utcNow();
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if (creators != null) {
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LDComputationalWorkflow.setCreators(workflowProtocol, value(creators));
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@@ -14,16 +14,20 @@ export declare function ARCtrl_ArcRun__ArcRun_ToROCrateRun_1695DD5C(this$: ArcRu
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export declare function ARCtrl_ArcRun__ArcRun_fromROCrateRun_Static_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcRun;
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export declare function ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B(this$: ArcInvestigation, fs: Option<FileSystem>, ignoreBrokenWR: Option<boolean>): LDNode;
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export declare function ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcInvestigation;
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export declare
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export declare function
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export declare function
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export declare function
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export declare function
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export declare function
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export declare function
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export declare function
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export declare class Dataset {
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constructor();
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+
}
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export declare function Dataset_$reflection(): TypeInfo;
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export declare function Dataset_toArcAssay_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcAssay;
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export declare function Dataset_fromArcAssay_1501C0F8(a: ArcAssay): LDNode;
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export declare function Dataset_toArcStudy_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcStudy;
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|
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export declare function Dataset_fromArcStudy_1680536E(a: ArcStudy): LDNode;
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export declare function Dataset_toArcWorkflow_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcWorkflow;
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export declare function Dataset_fromArcWorkflow_Z1C75CB0E(a: ArcWorkflow): LDNode;
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+
export declare function Dataset_toArcRun_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcRun;
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export declare function Dataset_fromArcRun_Z3EFAF6F8(a: ArcRun): LDNode;
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export declare function Dataset_toArcInvestigation_Z6839B9E8(a: LDNode, graph?: LDGraph, context?: LDContext): ArcInvestigation;
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export declare function Dataset_fromArcInvestigation_Z720BD3FF(a: ArcInvestigation): LDNode;
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export declare class Conversion {
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constructor();
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static arcAssayToDataset(a: ArcAssay, fs?: FileSystem): LDNode;
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@@ -1 +1 @@
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1
|
-
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|
|
1
|
+
{"version":3,"file":"Conversion.d.ts","sourceRoot":"","sources":["../../../src/ARCtrl/ts/Conversion.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,MAAM,EAAU,MAAM,uCAAuC,CAAC;AACvE,OAAO,EAAE,gBAAgB,EAAE,MAAM,EAAE,WAAW,EAAE,QAAQ,EAAE,QAAQ,EAAE,MAAM,oBAAoB,CAAC;AAC/F,OAAO,EAAE,UAAU,EAAE,MAAM,4BAA4B,CAAC;AACxD,OAAO,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,uBAAuB,CAAC;AACxD,OAAO,EAAE,SAAS,EAAE,MAAM,wBAAwB,CAAC;AAKnD,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AAEjF,wBAAgB,iDAAiD,CAAC,KAAK,EAAE,QAAQ,EAAE,EAAE,EAAE,MAAM,CAAC,UAAU,CAAC,GAAG,MAAM,CAEjH;AAED,wBAAgB,2DAA2D,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ,CAErI;AAED,wBAAgB,iDAAiD,CAAC,KAAK,EAAE,QAAQ,EAAE,EAAE,EAAE,MAAM,CAAC,UAAU,CAAC,GAAG,MAAM,CAEjH;AAED,wBAAgB,2DAA2D,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ,CAErI;AAED,wBAAgB,0DAA0D,CAAC,KAAK,EAAE,WAAW,EAAE,EAAE,EAAE,MAAM,CAAC,UAAU,CAAC,GAAG,MAAM,CAE7H;AAED,wBAAgB,oEAAoE,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,WAAW,CAEjJ;AAED,wBAAgB,2CAA2C,CAAC,KAAK,EAAE,MAAM,EAAE,EAAE,EAAE,MAAM,CAAC,UAAU,CAAC,GAAG,MAAM,CAEzG;AAED,wBAAgB,qDAAqD,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAE7H;AAED,wBAAgB,0EAA0E,CAAC,KAAK,EAAE,gBAAgB,EAAE,EAAE,EAAE,MAAM,CAAC,UAAU,CAAC,EAAE,cAAc,EAAE,MAAM,CAAC,OAAO,CAAC,GAAG,MAAM,CAEnL;AAED,wBAAgB,mFAAmF,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,gBAAgB,CAErK;AAED,qBAAa,OAAO;;CAGnB;AAED,wBAAgB,mBAAmB,IAAI,QAAQ,CAE9C;AAED,wBAAgB,4BAA4B,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ,CAEtG;AAED,wBAAgB,6BAA6B,CAAC,CAAC,EAAE,QAAQ,GAAG,MAAM,CAEjE;AAED,wBAAgB,4BAA4B,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ,CAEtG;AAED,wBAAgB,6BAA6B,CAAC,CAAC,EAAE,QAAQ,GAAG,MAAM,CAEjE;AAED,wBAAgB,+BAA+B,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,WAAW,CAE5G;AAED,wBAAgB,iCAAiC,CAAC,CAAC,EAAE,WAAW,GAAG,MAAM,CAExE;AAED,wBAAgB,0BAA0B,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAElG;AAED,wBAAgB,4BAA4B,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAE9D;AAED,wBAAgB,oCAAoC,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,gBAAgB,CAEtH;AAED,wBAAgB,sCAAsC,CAAC,CAAC,EAAE,gBAAgB,GAAG,MAAM,CAElF;AAED,qBAAa,UAAU;;IAGnB,MAAM,CAAC,iBAAiB,CAAC,CAAC,EAAE,QAAQ,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM;IAG9D,MAAM,CAAC,iBAAiB,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ;IAGnF,MAAM,CAAC,iBAAiB,CAAC,CAAC,EAAE,QAAQ,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM;IAG9D,MAAM,CAAC,iBAAiB,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,QAAQ;IAGnF,MAAM,CAAC,oBAAoB,CAAC,CAAC,EAAE,WAAW,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM;IAGpE,MAAM,CAAC,oBAAoB,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,WAAW;IAGzF,MAAM,CAAC,eAAe,CAAC,CAAC,EAAE,MAAM,EAAE,EAAE,CAAC,EAAE,UAAU,GAAG,MAAM;IAG1D,MAAM,CAAC,eAAe,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM;IAG/E,MAAM,CAAC,yBAAyB,CAAC,CAAC,EAAE,gBAAgB,EAAE,EAAE,CAAC,EAAE,UAAU,EAAE,cAAc,CAAC,EAAE,OAAO,GAAG,MAAM;IAGxG,MAAM,CAAC,yBAAyB,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,gBAAgB;CAGtG;AAED,wBAAgB,sBAAsB,IAAI,QAAQ,CAEjD"}
|
package/dist/ts/ts/Conversion.js
CHANGED
|
@@ -36,34 +36,41 @@ function ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E
|
|
|
36
36
|
function ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8(a, graph, context) {
|
|
37
37
|
return InvestigationConversion_decomposeInvestigation_Z6839B9E8(a, unwrap(graph), unwrap(context));
|
|
38
38
|
}
|
|
39
|
-
|
|
39
|
+
class Dataset {
|
|
40
|
+
constructor() {
|
|
41
|
+
}
|
|
42
|
+
}
|
|
43
|
+
function Dataset_$reflection() {
|
|
44
|
+
return class_type("ARCtrl.Conversion.TypeExtensions.Dataset", void 0, Dataset);
|
|
45
|
+
}
|
|
46
|
+
function Dataset_toArcAssay_Z6839B9E8(a, graph, context) {
|
|
40
47
|
return AssayConversion_decomposeAssay_Z6839B9E8(a, unwrap(graph), unwrap(context));
|
|
41
48
|
}
|
|
42
|
-
function
|
|
49
|
+
function Dataset_fromArcAssay_1501C0F8(a) {
|
|
43
50
|
return AssayConversion_composeAssay_Z5C53FD5C(a);
|
|
44
51
|
}
|
|
45
|
-
function
|
|
52
|
+
function Dataset_toArcStudy_Z6839B9E8(a, graph, context) {
|
|
46
53
|
return StudyConversion_decomposeStudy_Z6839B9E8(a, unwrap(graph), unwrap(context));
|
|
47
54
|
}
|
|
48
|
-
function
|
|
55
|
+
function Dataset_fromArcStudy_1680536E(a) {
|
|
49
56
|
return StudyConversion_composeStudy_ZFE0E38E(a);
|
|
50
57
|
}
|
|
51
|
-
function
|
|
58
|
+
function Dataset_toArcWorkflow_Z6839B9E8(a, graph, context) {
|
|
52
59
|
return WorkflowConversion_decomposeWorkflow_Z6839B9E8(a, unwrap(graph), unwrap(context));
|
|
53
60
|
}
|
|
54
|
-
function
|
|
61
|
+
function Dataset_fromArcWorkflow_Z1C75CB0E(a) {
|
|
55
62
|
return WorkflowConversion_composeWorkflow_42450E6E(a);
|
|
56
63
|
}
|
|
57
|
-
function
|
|
64
|
+
function Dataset_toArcRun_Z6839B9E8(a, graph, context) {
|
|
58
65
|
return RunConversion_decomposeRun_Z6839B9E8(a, unwrap(graph), unwrap(context));
|
|
59
66
|
}
|
|
60
|
-
function
|
|
67
|
+
function Dataset_fromArcRun_Z3EFAF6F8(a) {
|
|
61
68
|
return RunConversion_composeRun_Z8CC08AC(a);
|
|
62
69
|
}
|
|
63
|
-
function
|
|
70
|
+
function Dataset_toArcInvestigation_Z6839B9E8(a, graph, context) {
|
|
64
71
|
return InvestigationConversion_decomposeInvestigation_Z6839B9E8(a, unwrap(graph), unwrap(context));
|
|
65
72
|
}
|
|
66
|
-
function
|
|
73
|
+
function Dataset_fromArcInvestigation_Z720BD3FF(a) {
|
|
67
74
|
return InvestigationConversion_composeInvestigation_Z284BC0AC(a);
|
|
68
75
|
}
|
|
69
76
|
class Conversion {
|
|
@@ -104,4 +111,4 @@ function Conversion_$reflection() {
|
|
|
104
111
|
return class_type("ARCtrl.Conversion.TypeExtensions.Conversion", void 0, Conversion);
|
|
105
112
|
}
|
|
106
113
|
|
|
107
|
-
export { ARCtrl_ArcAssay__ArcAssay_ToROCrateAssay_1695DD5C, ARCtrl_ArcAssay__ArcAssay_fromROCrateAssay_Static_Z6839B9E8, ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B, ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8, ARCtrl_ArcRun__ArcRun_ToROCrateRun_1695DD5C, ARCtrl_ArcRun__ArcRun_fromROCrateRun_Static_Z6839B9E8, ARCtrl_ArcStudy__ArcStudy_ToROCrateStudy_1695DD5C, ARCtrl_ArcStudy__ArcStudy_fromROCrateStudy_Static_Z6839B9E8, ARCtrl_ArcWorkflow__ArcWorkflow_ToROCrateWorkflow_1695DD5C, ARCtrl_ArcWorkflow__ArcWorkflow_fromROCrateWorkflow_Static_Z6839B9E8,
|
|
114
|
+
export { ARCtrl_ArcAssay__ArcAssay_ToROCrateAssay_1695DD5C, ARCtrl_ArcAssay__ArcAssay_fromROCrateAssay_Static_Z6839B9E8, ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B, ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8, ARCtrl_ArcRun__ArcRun_ToROCrateRun_1695DD5C, ARCtrl_ArcRun__ArcRun_fromROCrateRun_Static_Z6839B9E8, ARCtrl_ArcStudy__ArcStudy_ToROCrateStudy_1695DD5C, ARCtrl_ArcStudy__ArcStudy_fromROCrateStudy_Static_Z6839B9E8, ARCtrl_ArcWorkflow__ArcWorkflow_ToROCrateWorkflow_1695DD5C, ARCtrl_ArcWorkflow__ArcWorkflow_fromROCrateWorkflow_Static_Z6839B9E8, Conversion, Conversion_$reflection, Dataset, Dataset_$reflection, Dataset_fromArcAssay_1501C0F8, Dataset_fromArcInvestigation_Z720BD3FF, Dataset_fromArcRun_Z3EFAF6F8, Dataset_fromArcStudy_1680536E, Dataset_fromArcWorkflow_Z1C75CB0E, Dataset_toArcAssay_Z6839B9E8, Dataset_toArcInvestigation_Z6839B9E8, Dataset_toArcRun_Z6839B9E8, Dataset_toArcStudy_Z6839B9E8, Dataset_toArcWorkflow_Z6839B9E8 };
|