npm - @nfdi4plants/arctrl - Versions diffs - 3.0.0-beta.2 → 3.0.0-beta.3 - Mend

@nfdi4plants/arctrl 3.0.0-beta.2 → 3.0.0-beta.3

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Files changed (1439) hide show

package/dist/ts/cjs/ts/Spreadsheet/Metadata/Study.js DELETED Viewed

@@ -1,259 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.StudyInfo = void 0;
-exports.StudyInfo_$reflection = StudyInfo_$reflection;
-exports.StudyInfo_create = StudyInfo_create;
-exports.StudyInfo_get_Labels = StudyInfo_get_Labels;
-exports.StudyInfo_FromSparseTable_3ECCA699 = StudyInfo_FromSparseTable_3ECCA699;
-exports.StudyInfo_ToSparseTable_1680536E = StudyInfo_ToSparseTable_1680536E;
-exports.StudyInfo_fromRows = StudyInfo_fromRows;
-exports.StudyInfo_toRows_1680536E = StudyInfo_toRows_1680536E;
-exports.fromParts = fromParts;
-exports.fromRows = fromRows;
-exports.toRows = toRows;
-const Types_js_1 = require("@fable-org/fable-library-js/Types.js");
-const List_js_1 = require("@fable-org/fable-library-js/List.js");
-const Comment_js_1 = require("../../Core/Comment.js");
-const Util_js_1 = require("@fable-org/fable-library-js/Util.js");
-const Reflection_js_1 = require("@fable-org/fable-library-js/Reflection.js");
-const Comment_js_2 = require("./Comment.js");
-const SparseTable_js_1 = require("./SparseTable.js");
-const Identifier_js_1 = require("../../Core/Helper/Identifier.js");
-const MapUtil_js_1 = require("@fable-org/fable-library-js/MapUtil.js");
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const Collections_js_1 = require("../../Core/Helper/Collections.js");
-const Seq2_js_1 = require("@fable-org/fable-library-js/Seq2.js");
-const ArcTypes_js_1 = require("../../Core/ArcTypes.js");
-const DesignDescriptors_js_1 = require("./DesignDescriptors.js");
-const Publication_js_1 = require("./Publication.js");
-const Factors_js_1 = require("./Factors.js");
-const Assays_js_1 = require("./Assays.js");
-const Protocols_js_1 = require("./Protocols.js");
-const Contacts_js_1 = require("./Contacts.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const Conversion_js_1 = require("../../Core/Conversion.js");
-const ProcessSequence_js_1 = require("../../Core/Process/ProcessSequence.js");
-class StudyInfo extends Types_js_1.Record {
-    constructor(Identifier, Title, Description, SubmissionDate, PublicReleaseDate, FileName, Comments) {
-        super();
-        this.Identifier = Identifier;
-        this.Title = Title;
-        this.Description = Description;
-        this.SubmissionDate = SubmissionDate;
-        this.PublicReleaseDate = PublicReleaseDate;
-        this.FileName = FileName;
-        this.Comments = Comments;
-    }
-}
-exports.StudyInfo = StudyInfo;
-function StudyInfo_$reflection() {
-    return (0, Reflection_js_1.record_type)("ARCtrl.Spreadsheet.Studies.StudyInfo", [], StudyInfo, () => [["Identifier", Reflection_js_1.string_type], ["Title", Reflection_js_1.string_type], ["Description", Reflection_js_1.string_type], ["SubmissionDate", Reflection_js_1.string_type], ["PublicReleaseDate", Reflection_js_1.string_type], ["FileName", Reflection_js_1.string_type], ["Comments", (0, Reflection_js_1.list_type)((0, Comment_js_1.Comment$_$reflection)())]]);
-}
-function StudyInfo_create(identifier, title, description, submissionDate, publicReleaseDate, fileName, comments) {
-    return new StudyInfo(identifier, title, description, submissionDate, publicReleaseDate, fileName, comments);
-}
-function StudyInfo_get_Labels() {
-    return (0, List_js_1.ofArray)(["Study Identifier", "Study Title", "Study Description", "Study Submission Date", "Study Public Release Date", "Study File Name"]);
-}
-function StudyInfo_FromSparseTable_3ECCA699(matrix) {
-    const comments = (0, List_js_1.map)((k) => (0, Comment_js_2.Comment_fromString)(k, (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [k, 0])), matrix.CommentKeys);
-    return StudyInfo_create((0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, (0, Identifier_js_1.createMissingIdentifier)(), ["Study Identifier", 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", ["Study Title", 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", ["Study Description", 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", ["Study Submission Date", 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", ["Study Public Release Date", 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", ["Study File Name", 0]), comments);
-}
-function StudyInfo_ToSparseTable_1680536E(study) {
-    const matrix = (0, SparseTable_js_1.SparseTable_Create_Z2192E64B)(undefined, StudyInfo_get_Labels(), undefined, 2);
-    let commentKeys = (0, List_js_1.empty)();
-    const patternInput = study.Identifier.startsWith("MISSING_IDENTIFIER_") ? ["", ""] : [study.Identifier, (0, Identifier_js_1.Study_fileNameFromIdentifier)(study.Identifier)];
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, ["Study Identifier", 1], patternInput[0]);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, ["Study Title", 1], (0, Option_js_1.defaultArg)(study.Title, ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, ["Study Description", 1], (0, Option_js_1.defaultArg)(study.Description, ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, ["Study Submission Date", 1], (0, Option_js_1.defaultArg)(study.SubmissionDate, ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, ["Study Public Release Date", 1], (0, Option_js_1.defaultArg)(study.PublicReleaseDate, ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, ["Study File Name", 1], patternInput[1]);
-    (0, Collections_js_1.ResizeArray_iter)((comment) => {
-        const patternInput_1 = (0, Comment_js_2.Comment_toString)(comment);
-        const n = patternInput_1[0];
-        commentKeys = (0, List_js_1.cons)(n, commentKeys);
-        (0, MapUtil_js_1.addToDict)(matrix.Matrix, [n, 1], patternInput_1[1]);
-    }, study.Comments);
-    return new SparseTable_js_1.SparseTable(matrix.Matrix, matrix.Keys, (0, List_js_1.reverse)((0, Seq2_js_1.List_distinct)(commentKeys, {
-        Equals: (x, y) => (x === y),
-        GetHashCode: Util_js_1.stringHash,
-    })), matrix.ColumnCount);
-}
-function StudyInfo_fromRows(lineNumber, rows) {
-    const tupledArg = (0, SparseTable_js_1.SparseTable_FromRows_Z5579EC29)(rows, StudyInfo_get_Labels(), lineNumber);
-    return [tupledArg[0], tupledArg[1], tupledArg[2], StudyInfo_FromSparseTable_3ECCA699(tupledArg[3])];
-}
-function StudyInfo_toRows_1680536E(study) {
-    return (0, SparseTable_js_1.SparseTable_ToRows_759CAFC1)(StudyInfo_ToSparseTable_1680536E(study));
-}
-/**
- * FACTORS AND PROTOCOLS ARE NOT USED ANYMORE, Lukas, 21.03.24
- */
-function fromParts(studyInfo, designDescriptors, publications, factors, assays, protocols, contacts) {
-    const assayIdentifiers = (0, List_js_1.map)((assay) => assay.Identifier, assays);
-    let arcstudy;
-    const title = (0, Collections_js_1.Option_fromValueWithDefault)("", studyInfo.Title);
-    const description = (0, Collections_js_1.Option_fromValueWithDefault)("", studyInfo.Description);
-    const submissionDate = (0, Collections_js_1.Option_fromValueWithDefault)("", studyInfo.SubmissionDate);
-    const publicReleaseDate = (0, Collections_js_1.Option_fromValueWithDefault)("", studyInfo.PublicReleaseDate);
-    const publications_1 = Array.from(publications);
-    const contacts_1 = Array.from(contacts);
-    const studyDesignDescriptors = Array.from(designDescriptors);
-    const registeredAssayIdentifiers = Array.from(assayIdentifiers);
-    const comments = Array.from(studyInfo.Comments);
-    arcstudy = ArcTypes_js_1.ArcStudy.make(studyInfo.Identifier, title, description, submissionDate, publicReleaseDate, publications_1, contacts_1, studyDesignDescriptors, [], undefined, registeredAssayIdentifiers, comments);
-    if (arcstudy.isEmpty && (arcstudy.Identifier === "")) {
-        return undefined;
-    }
-    else {
-        return [arcstudy, assays];
-    }
-}
-function fromRows(lineNumber, en) {
-    const loop = (lastLine_mut, studyInfo_mut, designDescriptors_mut, publications_mut, factors_mut, assays_mut, protocols_mut, contacts_mut, remarks_mut, lineNumber_1_mut) => {
-        loop: while (true) {
-            const lastLine = lastLine_mut, studyInfo = studyInfo_mut, designDescriptors = designDescriptors_mut, publications = publications_mut, factors = factors_mut, assays = assays_mut, protocols = protocols_mut, contacts = contacts_mut, remarks = remarks_mut, lineNumber_1 = lineNumber_1_mut;
-            let matchResult, k_6, k_7, k_8, k_9, k_10, k_11, k_12;
-            if (lastLine != null) {
-                switch ((0, Option_js_1.value)(lastLine)) {
-                    case "STUDY DESIGN DESCRIPTORS": {
-                        matchResult = 0;
-                        k_6 = (0, Option_js_1.value)(lastLine);
-                        break;
-                    }
-                    case "STUDY PUBLICATIONS": {
-                        matchResult = 1;
-                        k_7 = (0, Option_js_1.value)(lastLine);
-                        break;
-                    }
-                    case "STUDY FACTORS": {
-                        matchResult = 2;
-                        k_8 = (0, Option_js_1.value)(lastLine);
-                        break;
-                    }
-                    case "STUDY ASSAYS": {
-                        matchResult = 3;
-                        k_9 = (0, Option_js_1.value)(lastLine);
-                        break;
-                    }
-                    case "STUDY PROTOCOLS": {
-                        matchResult = 4;
-                        k_10 = (0, Option_js_1.value)(lastLine);
-                        break;
-                    }
-                    case "STUDY CONTACTS": {
-                        matchResult = 5;
-                        k_11 = (0, Option_js_1.value)(lastLine);
-                        break;
-                    }
-                    default: {
-                        matchResult = 6;
-                        k_12 = lastLine;
-                    }
-                }
-            }
-            else {
-                matchResult = 6;
-                k_12 = lastLine;
-            }
-            switch (matchResult) {
-                case 0: {
-                    const patternInput = (0, DesignDescriptors_js_1.fromRows)("Study Design", lineNumber_1 + 1, en);
-                    lastLine_mut = patternInput[0];
-                    studyInfo_mut = studyInfo;
-                    designDescriptors_mut = patternInput[3];
-                    publications_mut = publications;
-                    factors_mut = factors;
-                    assays_mut = assays;
-                    protocols_mut = protocols;
-                    contacts_mut = contacts;
-                    remarks_mut = (0, List_js_1.append)(remarks, patternInput[2]);
-                    lineNumber_1_mut = patternInput[1];
-                    continue loop;
-                }
-                case 1: {
-                    const patternInput_1 = (0, Publication_js_1.fromRows)("Study Publication", lineNumber_1 + 1, en);
-                    lastLine_mut = patternInput_1[0];
-                    studyInfo_mut = studyInfo;
-                    designDescriptors_mut = designDescriptors;
-                    publications_mut = patternInput_1[3];
-                    factors_mut = factors;
-                    assays_mut = assays;
-                    protocols_mut = protocols;
-                    contacts_mut = contacts;
-                    remarks_mut = (0, List_js_1.append)(remarks, patternInput_1[2]);
-                    lineNumber_1_mut = patternInput_1[1];
-                    continue loop;
-                }
-                case 2: {
-                    const patternInput_2 = (0, Factors_js_1.fromRows)("Study Factor", lineNumber_1 + 1, en);
-                    lastLine_mut = patternInput_2[0];
-                    studyInfo_mut = studyInfo;
-                    designDescriptors_mut = designDescriptors;
-                    publications_mut = publications;
-                    factors_mut = patternInput_2[3];
-                    assays_mut = assays;
-                    protocols_mut = protocols;
-                    contacts_mut = contacts;
-                    remarks_mut = (0, List_js_1.append)(remarks, patternInput_2[2]);
-                    lineNumber_1_mut = patternInput_2[1];
-                    continue loop;
-                }
-                case 3: {
-                    const patternInput_3 = (0, Assays_js_1.fromRows)("Study Assay", lineNumber_1 + 1, en);
-                    lastLine_mut = patternInput_3[0];
-                    studyInfo_mut = studyInfo;
-                    designDescriptors_mut = designDescriptors;
-                    publications_mut = publications;
-                    factors_mut = factors;
-                    assays_mut = patternInput_3[3];
-                    protocols_mut = protocols;
-                    contacts_mut = contacts;
-                    remarks_mut = (0, List_js_1.append)(remarks, patternInput_3[2]);
-                    lineNumber_1_mut = patternInput_3[1];
-                    continue loop;
-                }
-                case 4: {
-                    const patternInput_4 = (0, Protocols_js_1.fromRows)("Study Protocol", lineNumber_1 + 1, en);
-                    lastLine_mut = patternInput_4[0];
-                    studyInfo_mut = studyInfo;
-                    designDescriptors_mut = designDescriptors;
-                    publications_mut = publications;
-                    factors_mut = factors;
-                    assays_mut = assays;
-                    protocols_mut = patternInput_4[3];
-                    contacts_mut = contacts;
-                    remarks_mut = (0, List_js_1.append)(remarks, patternInput_4[2]);
-                    lineNumber_1_mut = patternInput_4[1];
-                    continue loop;
-                }
-                case 5: {
-                    const patternInput_5 = (0, Contacts_js_1.fromRows)("Study Person", lineNumber_1 + 1, en);
-                    lastLine_mut = patternInput_5[0];
-                    studyInfo_mut = studyInfo;
-                    designDescriptors_mut = designDescriptors;
-                    publications_mut = publications;
-                    factors_mut = factors;
-                    assays_mut = assays;
-                    protocols_mut = protocols;
-                    contacts_mut = patternInput_5[3];
-                    remarks_mut = (0, List_js_1.append)(remarks, patternInput_5[2]);
-                    lineNumber_1_mut = patternInput_5[1];
-                    continue loop;
-                }
-                default:
-                    return [k_12, lineNumber_1, remarks, fromParts(studyInfo, designDescriptors, publications, factors, assays, protocols, contacts)];
-            }
-            break;
-        }
-    };
-    const patternInput_6 = StudyInfo_fromRows(lineNumber, en);
-    return loop(patternInput_6[0], patternInput_6[3], (0, List_js_1.empty)(), (0, List_js_1.empty)(), (0, List_js_1.empty)(), (0, List_js_1.empty)(), (0, List_js_1.empty)(), (0, List_js_1.empty)(), patternInput_6[2], patternInput_6[1]);
-}
-function toRows(study, assays) {
-    const protocols = (0, List_js_1.ofSeq)((0, Seq_js_1.collect)(Conversion_js_1.ARCtrl_ArcTable__ArcTable_GetProtocols, study.Tables));
-    const factors = (0, List_js_1.ofSeq)((0, Seq_js_1.collect)((f) => (0, ProcessSequence_js_1.getFactors)((0, Conversion_js_1.ARCtrl_ArcTable__ArcTable_GetProcesses)(f)), study.Tables));
-    const assays_1 = (0, Option_js_1.defaultArg)(assays, (0, List_js_1.ofSeq)(study.GetRegisteredAssaysOrIdentifier()));
-    return (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)(StudyInfo_toRows_1680536E(study), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, SparseTable_js_1.SparseRowModule_fromValues)(["STUDY DESIGN DESCRIPTORS"])), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, DesignDescriptors_js_1.toRows)("Study Design", (0, List_js_1.ofSeq)(study.StudyDesignDescriptors)), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, SparseTable_js_1.SparseRowModule_fromValues)(["STUDY PUBLICATIONS"])), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Publication_js_1.toRows)("Study Publication", (0, List_js_1.ofSeq)(study.Publications)), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, SparseTable_js_1.SparseRowModule_fromValues)(["STUDY FACTORS"])), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Factors_js_1.toRows)("Study Factor", factors), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, SparseTable_js_1.SparseRowModule_fromValues)(["STUDY ASSAYS"])), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Assays_js_1.toRows)("Study Assay", assays_1), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, SparseTable_js_1.SparseRowModule_fromValues)(["STUDY PROTOCOLS"])), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Protocols_js_1.toRows)("Study Protocol", protocols), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, SparseTable_js_1.SparseRowModule_fromValues)(["STUDY CONTACTS"])), (0, Seq_js_1.delay)(() => (0, Contacts_js_1.toRows)("Study Person", (0, List_js_1.ofSeq)(study.Contacts)))))))))))))))))))))))))));
-}

package/dist/ts/cjs/ts/Spreadsheet/Metadata/Workflow.js DELETED Viewed

@@ -1,111 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.labels = exports.fileNameLabel = exports.componentsTypeTermSourceREFLabel = exports.componentsTypeTermAccessionNumberLabel = exports.componentsTypeLabel = exports.componentsNameLabel = exports.parametersTermSourceREFLabel = exports.parametersTermAccessionNumberLabel = exports.parametersNameLabel = exports.versionLabel = exports.uriLabel = exports.subWorkflowIdentifiersLabel = exports.typeTermSourceREFLabel = exports.typeTermAccessionNumberLabel = exports.workflowTypeLabel = exports.descriptionLabel = exports.titleLabel = exports.identifierLabel = void 0;
-exports.fromString = fromString;
-exports.fromSparseTable = fromSparseTable;
-exports.toSparseTable = toSparseTable;
-exports.fromRows = fromRows;
-exports.toRows = toRows;
-const List_js_1 = require("@fable-org/fable-library-js/List.js");
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const OntologyAnnotation_js_1 = require("../../Core/OntologyAnnotation.js");
-const Collections_js_1 = require("../../Core/Helper/Collections.js");
-const Conversions_js_1 = require("./Conversions.js");
-const ArcTypes_js_1 = require("../../Core/ArcTypes.js");
-const Identifier_js_1 = require("../../Core/Helper/Identifier.js");
-const Comment_js_1 = require("./Comment.js");
-const SparseTable_js_1 = require("./SparseTable.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-const MapUtil_js_1 = require("@fable-org/fable-library-js/MapUtil.js");
-const Seq2_js_1 = require("@fable-org/fable-library-js/Seq2.js");
-const Util_js_1 = require("@fable-org/fable-library-js/Util.js");
-exports.identifierLabel = "Identifier";
-exports.titleLabel = "Title";
-exports.descriptionLabel = "Description";
-exports.workflowTypeLabel = "Type";
-exports.typeTermAccessionNumberLabel = "Type Term Accession Number";
-exports.typeTermSourceREFLabel = "Type Term Source REF";
-exports.subWorkflowIdentifiersLabel = "Sub Workflow Identifiers";
-exports.uriLabel = "URI";
-exports.versionLabel = "Version";
-exports.parametersNameLabel = "Parameters Name";
-exports.parametersTermAccessionNumberLabel = "Parameters Term Accession Number";
-exports.parametersTermSourceREFLabel = "Parameters Term Source REF";
-exports.componentsNameLabel = "Components Name";
-exports.componentsTypeLabel = "Components Type";
-exports.componentsTypeTermAccessionNumberLabel = "Components Type Term Accession Number";
-exports.componentsTypeTermSourceREFLabel = "Components Type Term Source REF";
-exports.fileNameLabel = "File Name";
-exports.labels = (0, List_js_1.ofArray)([exports.identifierLabel, exports.titleLabel, exports.descriptionLabel, exports.workflowTypeLabel, exports.typeTermAccessionNumberLabel, exports.typeTermSourceREFLabel, exports.subWorkflowIdentifiersLabel, exports.uriLabel, exports.versionLabel, exports.parametersNameLabel, exports.parametersTermAccessionNumberLabel, exports.parametersTermSourceREFLabel, exports.componentsNameLabel, exports.componentsTypeLabel, exports.componentsTypeTermAccessionNumberLabel, exports.componentsTypeTermSourceREFLabel, exports.fileNameLabel]);
-function fromString(identifier, title, description, workflowType, workflowTypeTermAccessionNumber, workflowTypeTermSourceREF, subworkflowIdentifiers, uri, version, parametersName, parametersTermAccessionNumber, parametersTermSourceREF, componentsName, componentsType, componentsTypeTermAccessionNumber, componentsTypeTermSourceREF, fileName, comments) {
-    let matchValue;
-    let subworkflowIdentifiers_2;
-    if (subworkflowIdentifiers == null) {
-        subworkflowIdentifiers_2 = [];
-    }
-    else {
-        const subworkflowIdentifiers_1 = (0, Option_js_1.value)(subworkflowIdentifiers);
-        const collection = (0, Seq_js_1.map)((s) => s.trim(), subworkflowIdentifiers_1.split(";"));
-        subworkflowIdentifiers_2 = Array.from(collection);
-    }
-    let workflowType_1;
-    const v = OntologyAnnotation_js_1.OntologyAnnotation.create((0, Option_js_1.unwrap)(workflowType), (0, Option_js_1.unwrap)(workflowTypeTermSourceREF), (0, Option_js_1.unwrap)(workflowTypeTermAccessionNumber));
-    workflowType_1 = (0, Collections_js_1.Option_fromValueWithDefault)(new OntologyAnnotation_js_1.OntologyAnnotation(), v);
-    let parameters;
-    const collection_1 = (0, Conversions_js_1.ProtocolParameter_fromAggregatedStrings)(";", parametersName, parametersTermSourceREF, parametersTermAccessionNumber);
-    parameters = Array.from(collection_1);
-    let components;
-    const collection_2 = (0, Conversions_js_1.Component_fromAggregatedStrings)(";", componentsName, componentsType, componentsTypeTermSourceREF, componentsTypeTermAccessionNumber);
-    components = Array.from(collection_2);
-    return (0, ArcTypes_js_1.ArcWorkflow_make)((identifier == null) ? ((fileName == null) ? (0, Identifier_js_1.createMissingIdentifier)() : ((matchValue = (0, Identifier_js_1.Workflow_tryIdentifierFromFileName)((0, Option_js_1.value)(fileName)), (matchValue != null) ? (0, Option_js_1.value)(matchValue) : (0, Identifier_js_1.createMissingIdentifier)()))) : (0, Option_js_1.value)(identifier), title, description, workflowType_1, uri, version, subworkflowIdentifiers_2, parameters, components, undefined, [], comments);
-}
-function fromSparseTable(matrix) {
-    const comments = (0, List_js_1.map)((k) => (0, Comment_js_1.Comment_fromString)(k, (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [k, 0])), matrix.CommentKeys);
-    return fromString((0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.identifierLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.titleLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.descriptionLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.workflowTypeLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.typeTermAccessionNumberLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.typeTermSourceREFLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.subWorkflowIdentifiersLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.uriLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.versionLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.parametersNameLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.parametersTermAccessionNumberLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.parametersTermSourceREFLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.componentsNameLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.componentsTypeLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.componentsTypeTermAccessionNumberLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValueDefault_5BAE6133)(matrix, "", [exports.componentsTypeTermSourceREFLabel, 0]), (0, SparseTable_js_1.SparseTable__TryGetValue_11FD62A8)(matrix, [exports.fileNameLabel, 0]), Array.from(comments));
-}
-function toSparseTable(workflow) {
-    const matrix = (0, SparseTable_js_1.SparseTable_Create_Z2192E64B)(undefined, exports.labels, undefined, 2);
-    let commentKeys = (0, List_js_1.empty)();
-    const patternInput = (0, ArcTypes_js_1.ArcWorkflow__get_Identifier)(workflow).startsWith("MISSING_IDENTIFIER_") ? ["", ""] : [(0, ArcTypes_js_1.ArcWorkflow__get_Identifier)(workflow), (0, Identifier_js_1.Workflow_fileNameFromIdentifier)((0, ArcTypes_js_1.ArcWorkflow__get_Identifier)(workflow))];
-    let wt;
-    const tt = (0, Option_js_1.defaultArg)((0, ArcTypes_js_1.ArcWorkflow__get_WorkflowType)(workflow), new OntologyAnnotation_js_1.OntologyAnnotation());
-    wt = OntologyAnnotation_js_1.OntologyAnnotation.toStringObject(tt, true);
-    const pAgg = (0, Conversions_js_1.ProtocolParameter_toAggregatedStrings)(";", (0, List_js_1.ofSeq)((0, ArcTypes_js_1.ArcWorkflow__get_Parameters)(workflow)));
-    const cAgg = (0, Conversions_js_1.Component_toAggregatedStrings)(";", (0, List_js_1.ofSeq)((0, ArcTypes_js_1.ArcWorkflow__get_Components)(workflow)));
-    const subWorkflowsAgg = (0, String_js_1.join)(";", (0, ArcTypes_js_1.ArcWorkflow__get_SubWorkflowIdentifiers)(workflow));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.identifierLabel, 1], patternInput[0]);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.titleLabel, 1], (0, Option_js_1.defaultArg)((0, ArcTypes_js_1.ArcWorkflow__get_Title)(workflow), ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.descriptionLabel, 1], (0, Option_js_1.defaultArg)((0, ArcTypes_js_1.ArcWorkflow__get_Description)(workflow), ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.workflowTypeLabel, 1], wt.TermName);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.typeTermAccessionNumberLabel, 1], wt.TermAccessionNumber);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.typeTermSourceREFLabel, 1], wt.TermSourceREF);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.subWorkflowIdentifiersLabel, 1], subWorkflowsAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.uriLabel, 1], (0, Option_js_1.defaultArg)((0, ArcTypes_js_1.ArcWorkflow__get_URI)(workflow), ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.versionLabel, 1], (0, Option_js_1.defaultArg)((0, ArcTypes_js_1.ArcWorkflow__get_Version)(workflow), ""));
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.parametersNameLabel, 1], pAgg.TermNameAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.parametersTermAccessionNumberLabel, 1], pAgg.TermAccessionNumberAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.parametersTermSourceREFLabel, 1], pAgg.TermSourceREFAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.componentsNameLabel, 1], cAgg.NameAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.componentsTypeLabel, 1], cAgg.TermNameAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.componentsTypeTermAccessionNumberLabel, 1], cAgg.TermAccessionNumberAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.componentsTypeTermSourceREFLabel, 1], cAgg.TermSourceREFAgg);
-    (0, MapUtil_js_1.addToDict)(matrix.Matrix, [exports.fileNameLabel, 1], patternInput[1]);
-    (0, Collections_js_1.ResizeArray_iter)((comment) => {
-        const patternInput_1 = (0, Comment_js_1.Comment_toString)(comment);
-        const n = patternInput_1[0];
-        commentKeys = (0, List_js_1.cons)(n, commentKeys);
-        (0, MapUtil_js_1.addToDict)(matrix.Matrix, [n, 1], patternInput_1[1]);
-    }, (0, ArcTypes_js_1.ArcWorkflow__get_Comments)(workflow));
-    return new SparseTable_js_1.SparseTable(matrix.Matrix, matrix.Keys, (0, List_js_1.reverse)((0, Seq2_js_1.List_distinct)(commentKeys, {
-        Equals: (x, y) => (x === y),
-        GetHashCode: Util_js_1.stringHash,
-    })), matrix.ColumnCount);
-}
-function fromRows(lineNumber, rows) {
-    const tupledArg = (0, SparseTable_js_1.SparseTable_FromRows_Z5579EC29)(rows, exports.labels, lineNumber, "Workflow");
-    return [tupledArg[0], tupledArg[1], tupledArg[2], fromSparseTable(tupledArg[3])];
-}
-function toRows(workflow) {
-    return (0, SparseTable_js_1.SparseTable_ToRows_759CAFC1)(toSparseTable(workflow), "Workflow");
-}

package/dist/ts/cjs/ts/Template.Web.js DELETED Viewed

@@ -1,29 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.WebController = void 0;
-exports.getTemplates = getTemplates;
-exports.WebController_$reflection = WebController_$reflection;
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const AsyncBuilder_js_1 = require("@fable-org/fable-library-js/AsyncBuilder.js");
-const WebRequest_js_1 = require("./WebRequest/WebRequest.js");
-const Templates_js_1 = require("./JsonIO/Table/Templates.js");
-const Async_js_1 = require("@fable-org/fable-library-js/Async.js");
-const Reflection_js_1 = require("@fable-org/fable-library-js/Reflection.js");
-function getTemplates(url) {
-    const url_1 = (0, Option_js_1.defaultArg)(url, "https://github.com/nfdi4plants/Swate-templates/releases/download/latest/templates_v2.0.0.json");
-    return AsyncBuilder_js_1.singleton.Delay(() => AsyncBuilder_js_1.singleton.Bind((0, WebRequest_js_1.downloadFile)(url_1), (_arg) => {
-        const mapResult = (0, Templates_js_1.Templates_fromJsonString)(_arg);
-        return AsyncBuilder_js_1.singleton.Return(mapResult);
-    }));
-}
-class WebController {
-    constructor() {
-    }
-    static getTemplates(url) {
-        return (0, Async_js_1.startAsPromise)(AsyncBuilder_js_1.singleton.Delay(() => AsyncBuilder_js_1.singleton.Bind(getTemplates(url), (_arg) => AsyncBuilder_js_1.singleton.Return(_arg))));
-    }
-}
-exports.WebController = WebController;
-function WebController_$reflection() {
-    return (0, Reflection_js_1.class_type)("ARCtrl.Template.Web.WebController", undefined, WebController);
-}

package/dist/ts/cjs/ts/ValidationPackages/ValidationPackage.js DELETED Viewed

@@ -1,63 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ValidationPackage = void 0;
-exports.ValidationPackage_$reflection = ValidationPackage_$reflection;
-exports.ValidationPackage_$ctor_27AED5E3 = ValidationPackage_$ctor_27AED5E3;
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const Util_js_1 = require("@fable-org/fable-library-js/Util.js");
-const HashCodes_js_1 = require("../Core/Helper/HashCodes.js");
-const Reflection_js_1 = require("@fable-org/fable-library-js/Reflection.js");
-class ValidationPackage {
-    constructor(name, version) {
-        this.version = version;
-        this._name = name;
-        this._version = this.version;
-    }
-    get Name() {
-        const this$ = this;
-        return this$._name;
-    }
-    set Name(name) {
-        const this$ = this;
-        this$._name = name;
-    }
-    get Version() {
-        const this$ = this;
-        return (0, Option_js_1.unwrap)(this$._version);
-    }
-    set Version(version) {
-        const this$ = this;
-        this$._version = version;
-    }
-    static make(name, version) {
-        return new ValidationPackage(name, (0, Option_js_1.unwrap)(version));
-    }
-    Copy() {
-        const this$ = this;
-        const name = this$.Name;
-        const version = this$.Version;
-        return ValidationPackage.make(name, version);
-    }
-    toString() {
-        const this$ = this;
-        return (0, String_js_1.join)("\n", (0, Seq_js_1.toList)((0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)("{"), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)(` Name = ${this$.Name}`), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((this$.version != null) ? (0, Seq_js_1.singleton)(` Version = ${(0, Option_js_1.value)(this$.Version)}`) : (0, Seq_js_1.empty)(), (0, Seq_js_1.delay)(() => (0, Seq_js_1.singleton)("}"))))))))));
-    }
-    Equals(obj) {
-        let other_vp;
-        const this$ = this;
-        return (obj instanceof ValidationPackage) && ((other_vp = obj, (other_vp.Name === this$.Name) && (0, Util_js_1.equals)(other_vp.Version, this$.Version)));
-    }
-    GetHashCode() {
-        const this$ = this;
-        return (0, HashCodes_js_1.boxHashArray)([(0, Util_js_1.stringHash)(this$.Name), (0, HashCodes_js_1.boxHashOption)(this$.Version)]) | 0;
-    }
-}
-exports.ValidationPackage = ValidationPackage;
-function ValidationPackage_$reflection() {
-    return (0, Reflection_js_1.class_type)("ARCtrl.ValidationPackages.ValidationPackage", undefined, ValidationPackage);
-}
-function ValidationPackage_$ctor_27AED5E3(name, version) {
-    return new ValidationPackage(name, version);
-}

package/dist/ts/cjs/ts/ValidationPackages/ValidationPackagesConfig.js DELETED Viewed

@@ -1,90 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ValidationPackagesConfig = void 0;
-exports.ValidationPackagesConfig_$reflection = ValidationPackagesConfig_$reflection;
-exports.ValidationPackagesConfig_$ctor_376974AD = ValidationPackagesConfig_$ctor_376974AD;
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const Types_js_1 = require("@fable-org/fable-library-js/Types.js");
-const Array_js_1 = require("@fable-org/fable-library-js/Array.js");
-const Util_js_1 = require("@fable-org/fable-library-js/Util.js");
-const Range_js_1 = require("@fable-org/fable-library-js/Range.js");
-const HashCodes_js_1 = require("../Core/Helper/HashCodes.js");
-const Reflection_js_1 = require("@fable-org/fable-library-js/Reflection.js");
-class ValidationPackagesConfig {
-    constructor(validation_packages, arc_specification) {
-        this._arc_specification = arc_specification;
-        this._validation_packages = validation_packages;
-    }
-    get ValidationPackages() {
-        const this$ = this;
-        return this$._validation_packages;
-    }
-    set ValidationPackages(validation_packages) {
-        const this$ = this;
-        this$._validation_packages = validation_packages;
-    }
-    get ARCSpecification() {
-        const this$ = this;
-        return (0, Option_js_1.unwrap)(this$._arc_specification);
-    }
-    set ARCSpecification(arc_specification) {
-        const this$ = this;
-        this$._arc_specification = arc_specification;
-    }
-    static make(validation_packages, arc_specification) {
-        return new ValidationPackagesConfig(validation_packages, (0, Option_js_1.unwrap)(arc_specification));
-    }
-    Copy() {
-        const this$ = this;
-        const validation_packages = this$.ValidationPackages;
-        const arc_specification = this$.ARCSpecification;
-        return ValidationPackagesConfig.make(validation_packages, arc_specification);
-    }
-    toString() {
-        const this$ = this;
-        return (0, String_js_1.join)("\n", (0, Seq_js_1.toList)((0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)("{"), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((this$.ARCSpecification != null) ? (0, Seq_js_1.singleton)(` ARCSpecification = ${(0, Option_js_1.value)(this$.ARCSpecification)}`) : (0, Seq_js_1.empty)(), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)(" ValidationPackages = ["), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)((0, String_js_1.join)(`;${"\n"}`, (0, Seq_js_1.map)(Types_js_1.toString, this$.ValidationPackages))), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)("]"), (0, Seq_js_1.delay)(() => (0, Seq_js_1.singleton)("}"))))))))))))));
-    }
-    StructurallyEquals(other) {
-        const this$ = this;
-        const sort = (arg) => (0, Array_js_1.sortBy)((vp) => [vp.Name, vp.Version], Array.from(arg), {
-            Compare: Util_js_1.compareArrays,
-        });
-        if ((0, Util_js_1.equals)(this$.ARCSpecification, other.ARCSpecification)) {
-            const a = sort(this$.ValidationPackages);
-            const b = sort(other.ValidationPackages);
-            return ((0, Seq_js_1.length)(a) === (0, Seq_js_1.length)(b)) && (0, Seq_js_1.fold)((acc, e) => {
-                if (acc) {
-                    return e;
-                }
-                else {
-                    return false;
-                }
-            }, true, (0, Seq_js_1.toList)((0, Seq_js_1.delay)(() => (0, Seq_js_1.map)((i) => (0, Util_js_1.equals)((0, Seq_js_1.item)(i, a), (0, Seq_js_1.item)(i, b)), (0, Range_js_1.rangeDouble)(0, 1, (0, Seq_js_1.length)(a) - 1)))));
-        }
-        else {
-            return false;
-        }
-    }
-    ReferenceEquals(other) {
-        const this$ = this;
-        return this$ === other;
-    }
-    Equals(other) {
-        let other_vp;
-        const this$ = this;
-        return (other instanceof ValidationPackagesConfig) && ((other_vp = other, this$.StructurallyEquals(other_vp)));
-    }
-    GetHashCode() {
-        const this$ = this;
-        return (0, HashCodes_js_1.boxHashArray)([(0, HashCodes_js_1.boxHashOption)(this$.ARCSpecification), (0, HashCodes_js_1.boxHashSeq)(this$.ValidationPackages)]) | 0;
-    }
-}
-exports.ValidationPackagesConfig = ValidationPackagesConfig;
-function ValidationPackagesConfig_$reflection() {
-    return (0, Reflection_js_1.class_type)("ARCtrl.ValidationPackages.ValidationPackagesConfig", undefined, ValidationPackagesConfig);
-}
-function ValidationPackagesConfig_$ctor_376974AD(validation_packages, arc_specification) {
-    return new ValidationPackagesConfig(validation_packages, arc_specification);
-}

package/dist/ts/cjs/ts/WebRequest/WebRequest.Node.js DELETED Viewed

@@ -1,17 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.isNode = isNode;
-exports.downloadFile = downloadFile;
-const Async_js_1 = require("@fable-org/fable-library-js/Async.js");
-const Fetch_fs_js_1 = require("../fable_modules/Fable.Fetch.2.6.0/Fetch.fs.js");
-const List_js_1 = require("@fable-org/fable-library-js/List.js");
-function isNode() {
-    return typeof process !== "undefined" &&
-        process.versions != null &&
-        process.versions.node != null;
-    ;
-}
-function downloadFile(url) {
-    let pr_1, pr;
-    return (0, Async_js_1.awaitPromise)((pr_1 = ((pr = (0, Fetch_fs_js_1.fetch$)(url, (0, List_js_1.empty)()), pr.then((res) => res.text()))), pr_1.then((txt) => txt)));
-}

package/dist/ts/cjs/ts/WebRequest/WebRequest.js DELETED Viewed

@@ -1,20 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.downloadFile = downloadFile;
-const WebRequest_Node_js_1 = require("./WebRequest.Node.js");
-const AsyncBuilder_js_1 = require("@fable-org/fable-library-js/AsyncBuilder.js");
-const Http_fs_js_1 = require("../fable_modules/Fable.SimpleHttp.3.5.0/Http.fs.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-require("isomorphic-fetch");
-function downloadFile(url) {
-    if ((0, WebRequest_Node_js_1.isNode)()) {
-        return (0, WebRequest_Node_js_1.downloadFile)(url);
-    }
-    else {
-        return AsyncBuilder_js_1.singleton.Delay(() => AsyncBuilder_js_1.singleton.Bind((0, Http_fs_js_1.Http_get)(url), (_arg) => {
-            const statusCode = _arg[0] | 0;
-            const responseText = _arg[1];
-            return AsyncBuilder_js_1.singleton.Return((statusCode === 200) ? responseText : (0, String_js_1.toFail)((0, String_js_1.printf)("Status %d => %s"))(statusCode)(responseText));
-        }));
-    }
-}