@nfdi4plants/arctrl 3.0.0-beta.2 → 3.0.0-beta.4

package/dist/ts/cjs/ts/FileSystem/FileSystemTree.js

@@ -1,322 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.FileSystemTree = void 0;
-exports.FileSystemTree_File = FileSystemTree_File;
-exports.FileSystemTree_Folder = FileSystemTree_Folder;
-exports.FileSystemTree_$reflection = FileSystemTree_$reflection;
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const Array_js_1 = require("@fable-org/fable-library-js/Array.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.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");
-const Path_js_1 = require("./Path.js");
-const List_js_1 = require("@fable-org/fable-library-js/List.js");
-const Types_js_1 = require("@fable-org/fable-library-js/Types.js");
-const Reflection_js_1 = require("@fable-org/fable-library-js/Reflection.js");
-function FileSystemTree_File(name) {
-    return new FileSystemTree(0, [name]);
-}
-function FileSystemTree_Folder(name, children) {
-    return new FileSystemTree(1, [name, children]);
-}
-class FileSystemTree extends Types_js_1.Union {
-    constructor(tag, fields) {
-        super();
-        this.tag = tag;
-        this.fields = fields;
-    }
-    cases() {
-        return ["File", "Folder"];
-    }
-    get Name() {
-        const this$ = this;
-        let n;
-        if (this$.tag === /* Folder */ 1) {
-            n = this$.fields[0];
-        }
-        else {
-            n = this$.fields[0];
-        }
-        return n;
-    }
-    get isFolder() {
-        const this$ = this;
-        return this$.tag === /* Folder */ 1;
-    }
-    get isFile() {
-        const this$ = this;
-        return this$.tag === /* File */ 0;
-    }
-    static get ROOT_NAME() {
-        return "root";
-    }
-    static createFile(name) {
-        return FileSystemTree_File(name);
-    }
-    static createFolder(name, children) {
-        return FileSystemTree_Folder(name, (0, Option_js_1.defaultArg)(children, []));
-    }
-    static createRootFolder(children) {
-        return FileSystemTree_Folder(FileSystemTree.ROOT_NAME, children);
-    }
-    TryGetChildByName(name) {
-        const this$ = this;
-        return (this$.tag === /* File */ 0) ? undefined : (0, Array_js_1.tryFind)((c) => (c.Name === name), this$.fields[1]);
-    }
-    static tryGetChildByName(name) {
-        return (fst) => fst.TryGetChildByName(name);
-    }
-    ContainsChildWithName(name) {
-        const this$ = this;
-        if (this$.tag === /* File */ 0) {
-            return false;
-        }
-        else {
-            const array = this$.fields[1];
-            return array.some((c) => (c.Name === name));
-        }
-    }
-    static containsChildWithName(name) {
-        return (fst) => fst.ContainsChildWithName(name);
-    }
-    AddFile(path) {
-        const this$ = this;
-        const existingPaths = this$.ToFilePaths();
-        const filePaths = (0, Seq_js_1.toArray)((0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((0, Seq_js_1.singleton)(path), (0, Seq_js_1.delay)(() => existingPaths))));
-        return FileSystemTree.fromFilePaths(filePaths);
-    }
-    static addFile(path) {
-        return (tree) => tree.AddFile(path);
-    }
-    static fromFilePaths(paths) {
-        const loop = (paths_1, parent) => {
-            const files = (0, Array_js_1.map)((arg) => {
-                const name = (0, Array_js_1.head)(arg);
-                return FileSystemTree.createFile(name);
-            }, paths_1.filter((p) => (p.length === 1)));
-            const folders = (0, Array_js_1.map)((tupledArg) => {
-                const parent_1 = FileSystemTree.createFolder(tupledArg[0], []);
-                return loop((0, Array_js_1.map)(Array_js_1.tail, tupledArg[1]), parent_1);
-            }, (0, Seq2_js_1.Array_groupBy)(Array_js_1.head, paths_1.filter((p_1) => (p_1.length > 1)), {
-                Equals: (x_3, y_2) => (x_3 === y_2),
-                GetHashCode: Util_js_1.stringHash,
-            }));
-            if (parent.tag === /* Folder */ 1) {
-                const name_1 = parent.fields[0];
-                return FileSystemTree.createFolder(name_1, (0, Seq_js_1.toArray)((0, Seq_js_1.delay)(() => (0, Seq_js_1.append)(files, (0, Seq_js_1.delay)(() => folders)))));
-            }
-            else {
-                return parent;
-            }
-        };
-        return loop((0, Seq2_js_1.Array_distinct)((0, Array_js_1.map)(Path_js_1.split, paths), {
-            Equals: (x, y) => (0, Array_js_1.equalsWith)((x_1, y_1) => (x_1 === y_1), x, y),
-            GetHashCode: Util_js_1.arrayHash,
-        }), FileSystemTree.createFolder(FileSystemTree.ROOT_NAME, []));
-    }
-    ToFilePaths(removeRoot) {
-        const this$ = this;
-        const res = [];
-        const loop = (output, parent) => {
-            if (parent.tag === /* Folder */ 1) {
-                const n_1 = parent.fields[0];
-                const array = parent.fields[1];
-                array.forEach((filest) => {
-                    loop((0, List_js_1.cons)(n_1, output), filest);
-                });
-            }
-            else {
-                const item = (0, Path_js_1.combineMany)((0, List_js_1.toArray)((0, List_js_1.reverse)((0, List_js_1.cons)(parent.fields[0], output))));
-                void (res.push(item));
-            }
-        };
-        if ((0, Option_js_1.defaultArg)(removeRoot, true)) {
-            if (this$.tag === /* File */ 0) {
-                const n_2 = this$.fields[0];
-                void (res.push(n_2));
-            }
-            else {
-                const children_1 = this$.fields[1];
-                const action_1 = (0, Util_js_1.curry2)(loop)((0, List_js_1.empty)());
-                children_1.forEach(action_1);
-            }
-        }
-        else {
-            loop((0, List_js_1.empty)(), this$);
-        }
-        return Array.from(res);
-    }
-    static toFilePaths(removeRoot) {
-        return (root) => root.ToFilePaths((0, Option_js_1.unwrap)(removeRoot));
-    }
-    FilterFiles(predicate) {
-        const this$ = this;
-        const loop = (parent) => {
-            if (parent.tag === /* Folder */ 1) {
-                return FileSystemTree_Folder(parent.fields[0], (0, Array_js_1.choose)(loop, parent.fields[1]));
-            }
-            else {
-                const n = parent.fields[0];
-                if (predicate(n)) {
-                    return FileSystemTree_File(n);
-                }
-                else {
-                    return undefined;
-                }
-            }
-        };
-        return loop(this$);
-    }
-    static filterFiles(predicate) {
-        return (tree) => tree.FilterFiles(predicate);
-    }
-    FilterFolders(predicate) {
-        const this$ = this;
-        const loop = (parent) => {
-            if (parent.tag === /* Folder */ 1) {
-                const n_1 = parent.fields[0];
-                const children = parent.fields[1];
-                if (predicate(n_1)) {
-                    return FileSystemTree_Folder(n_1, (0, Array_js_1.choose)(loop, children));
-                }
-                else {
-                    return undefined;
-                }
-            }
-            else {
-                return FileSystemTree_File(parent.fields[0]);
-            }
-        };
-        return loop(this$);
-    }
-    static filterFolders(predicate) {
-        return (tree) => tree.FilterFolders(predicate);
-    }
-    Filter(predicate) {
-        const this$ = this;
-        const loop = (parent) => {
-            if (parent.tag === /* Folder */ 1) {
-                const n_1 = parent.fields[0];
-                const children = parent.fields[1];
-                if (predicate(n_1)) {
-                    const filteredChildren = (0, Array_js_1.choose)(loop, children);
-                    if (filteredChildren.length === 0) {
-                        return undefined;
-                    }
-                    else {
-                        return FileSystemTree_Folder(n_1, filteredChildren);
-                    }
-                }
-                else {
-                    return undefined;
-                }
-            }
-            else {
-                const n = parent.fields[0];
-                if (predicate(n)) {
-                    return FileSystemTree_File(n);
-                }
-                else {
-                    return undefined;
-                }
-            }
-        };
-        return loop(this$);
-    }
-    static filter(predicate) {
-        return (tree) => tree.Filter(predicate);
-    }
-    Union(otherFST) {
-        let array_1;
-        const this$ = this;
-        const paths = (0, Seq2_js_1.Array_distinct)((array_1 = this$.ToFilePaths(), (0, Array_js_1.append)(otherFST.ToFilePaths(), array_1)), {
-            Equals: (x, y) => (x === y),
-            GetHashCode: Util_js_1.stringHash,
-        });
-        return FileSystemTree.fromFilePaths(paths);
-    }
-    Copy() {
-        const this$ = this;
-        return (this$.tag === /* File */ 0) ? FileSystemTree_File(this$.fields[0]) : FileSystemTree_Folder(this$.fields[0], (0, Array_js_1.map)((c) => c.Copy(), this$.fields[1]));
-    }
-    static createGitKeepFile() {
-        return FileSystemTree.createFile(".gitkeep");
-    }
-    static createReadmeFile() {
-        return FileSystemTree.createFile("README.md");
-    }
-    static createEmptyFolder(name) {
-        return FileSystemTree.createFolder(name, [FileSystemTree.createGitKeepFile()]);
-    }
-    static createAssayFolder(assayName, hasDataMap) {
-        const hasDataMap_1 = (0, Option_js_1.defaultArg)(hasDataMap, false);
-        const dataset = FileSystemTree.createEmptyFolder("dataset");
-        const protocols = FileSystemTree.createEmptyFolder("protocols");
-        const readme = FileSystemTree.createReadmeFile();
-        const assayFile = FileSystemTree.createFile("isa.assay.xlsx");
-        if (hasDataMap_1) {
-            const dataMapFile = FileSystemTree.createFile("isa.datamap.xlsx");
-            return FileSystemTree.createFolder(assayName, [dataset, protocols, assayFile, readme, dataMapFile]);
-        }
-        else {
-            return FileSystemTree.createFolder(assayName, [dataset, protocols, assayFile, readme]);
-        }
-    }
-    static createStudyFolder(studyName, hasDataMap) {
-        const hasDataMap_1 = (0, Option_js_1.defaultArg)(hasDataMap, false);
-        const resources = FileSystemTree.createEmptyFolder("resources");
-        const protocols = FileSystemTree.createEmptyFolder("protocols");
-        const readme = FileSystemTree.createReadmeFile();
-        const studyFile = FileSystemTree.createFile("isa.study.xlsx");
-        if (hasDataMap_1) {
-            const dataMapFile = FileSystemTree.createFile("isa.datamap.xlsx");
-            return FileSystemTree.createFolder(studyName, [resources, protocols, studyFile, readme, dataMapFile]);
-        }
-        else {
-            return FileSystemTree.createFolder(studyName, [resources, protocols, studyFile, readme]);
-        }
-    }
-    static createWorkflowFolder(workflowName, hasDataMap) {
-        const hasDataMap_1 = (0, Option_js_1.defaultArg)(hasDataMap, false);
-        const readme = FileSystemTree.createReadmeFile();
-        const workflowFile = FileSystemTree.createFile("isa.workflow.xlsx");
-        if (hasDataMap_1) {
-            const dataMapFile = FileSystemTree.createFile("isa.datamap.xlsx");
-            return FileSystemTree.createFolder(workflowName, [workflowFile, readme, dataMapFile]);
-        }
-        else {
-            return FileSystemTree.createFolder(workflowName, [workflowFile, readme]);
-        }
-    }
-    static createRunFolder(runName, hasDataMap) {
-        const hasDataMap_1 = (0, Option_js_1.defaultArg)(hasDataMap, false);
-        const readme = FileSystemTree.createReadmeFile();
-        const runFile = FileSystemTree.createFile("isa.run.xlsx");
-        if (hasDataMap_1) {
-            const dataMapFile = FileSystemTree.createFile("isa.datamap.xlsx");
-            return FileSystemTree.createFolder(runName, [runFile, readme, dataMapFile]);
-        }
-        else {
-            return FileSystemTree.createFolder(runName, [runFile, readme]);
-        }
-    }
-    static createInvestigationFile() {
-        return FileSystemTree.createFile("isa.investigation.xlsx");
-    }
-    static createAssaysFolder(assays) {
-        return FileSystemTree.createFolder("assays", (0, Array_js_1.append)([FileSystemTree.createGitKeepFile()], assays));
-    }
-    static createStudiesFolder(studies) {
-        return FileSystemTree.createFolder("studies", (0, Array_js_1.append)([FileSystemTree.createGitKeepFile()], studies));
-    }
-    static createWorkflowsFolder(workflows) {
-        return FileSystemTree.createFolder("workflows", (0, Array_js_1.append)([FileSystemTree.createGitKeepFile()], workflows));
-    }
-    static createRunsFolder(runs) {
-        return FileSystemTree.createFolder("runs", (0, Array_js_1.append)([FileSystemTree.createGitKeepFile()], runs));
-    }
-}
-exports.FileSystemTree = FileSystemTree;
-function FileSystemTree_$reflection() {
-    return (0, Reflection_js_1.union_type)("ARCtrl.FileSystem.FileSystemTree", [], FileSystemTree, () => [[["name", Reflection_js_1.string_type]], [["name", Reflection_js_1.string_type], ["children", (0, Reflection_js_1.array_type)(FileSystemTree_$reflection())]]]);
-}

package/dist/ts/cjs/ts/FileSystem/Path.js

@@ -1,63 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.seperators = void 0;
-exports.split = split;
-exports.combine = combine;
-exports.combineMany = combineMany;
-exports.getFileName = getFileName;
-exports.isFile = isFile;
-exports.getAssayFolderPath = getAssayFolderPath;
-exports.getStudyFolderPath = getStudyFolderPath;
-exports.getWorkflowFolderPath = getWorkflowFolderPath;
-exports.getRunFolderPath = getRunFolderPath;
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-const Array_js_1 = require("@fable-org/fable-library-js/Array.js");
-exports.seperators = ["/", "\\"];
-function split(path) {
-    const array = (0, String_js_1.split)(path, exports.seperators, undefined, 3);
-    return array.filter((p) => {
-        if (p !== "") {
-            return p !== ".";
-        }
-        else {
-            return false;
-        }
-    });
-}
-function combine(path1, path2) {
-    return ((0, String_js_1.trimEnd)(path1, ...exports.seperators) + "/") + (0, String_js_1.trimStart)(path2, ...exports.seperators);
-}
-function combineMany(paths) {
-    return (0, String_js_1.join)("/", (0, Array_js_1.mapIndexed)((i, p) => {
-        if (i === 0) {
-            return (0, String_js_1.trimEnd)(p, ...exports.seperators);
-        }
-        else if (i === (paths.length - 1)) {
-            return (0, String_js_1.trimStart)(p, ...exports.seperators);
-        }
-        else {
-            return (0, String_js_1.trim)(p, ...exports.seperators);
-        }
-    }, paths));
-}
-function getFileName(path) {
-    return (0, Array_js_1.last)(split(path));
-}
-/**
- * Checks if `path` points to a file with the name `fileName`
- */
-function isFile(fileName, path) {
-    return getFileName(path) === fileName;
-}
-function getAssayFolderPath(assayIdentifier) {
-    return combine("assays", assayIdentifier);
-}
-function getStudyFolderPath(studyIdentifier) {
-    return combine("studies", studyIdentifier);
-}
-function getWorkflowFolderPath(workflowIdentifier) {
-    return combine("workflows", workflowIdentifier);
-}
-function getRunFolderPath(runIdentifier) {
-    return combine("runs", runIdentifier);
-}

package/dist/ts/cjs/ts/Json/Assay.js

@@ -1,234 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ISAJson_decoder = exports.ISAJson_allowedFields = exports.ROCrate_decoder = exports.decoder = void 0;
-exports.encoder = encoder;
-exports.encoderCompressed = encoderCompressed;
-exports.decoderCompressed = decoderCompressed;
-exports.ROCrate_genID = ROCrate_genID;
-exports.ROCrate_encoder = ROCrate_encoder;
-exports.ISAJson_encoder = ISAJson_encoder;
-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 Encode_js_1 = require("./Encode.js");
-const OntologyAnnotation_js_1 = require("./OntologyAnnotation.js");
-const DataMap_js_1 = require("./DataMap/DataMap.js");
-const ArcTable_js_1 = require("./Table/ArcTable.js");
-const Person_js_1 = require("./Person.js");
-const Comment_js_1 = require("./Comment.js");
-const Comment_js_2 = require("../Core/Comment.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const ArcTypes_js_1 = require("../Core/ArcTypes.js");
-const Decode_fs_js_1 = require("../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-const Identifier_js_1 = require("../Core/Helper/Identifier.js");
-const Conversion_js_1 = require("../Core/Conversion.js");
-const ProcessSequence_js_1 = require("../Core/Process/ProcessSequence.js");
-const Encode_fs_js_1 = require("../fable_modules/Thoth.Json.Core.0.4.0/Encode.fs.js");
-const Data_js_1 = require("./Data.js");
-const Process_js_1 = require("./Process/Process.js");
-const isa_assay_context_js_1 = require("./context/rocrate/isa_assay_context.js");
-const MaterialAttribute_js_1 = require("./Process/MaterialAttribute.js");
-const AssayMaterials_js_1 = require("./Process/AssayMaterials.js");
-const Collections_js_1 = require("../Core/Helper/Collections.js");
-const IDTable_js_1 = require("./IDTable.js");
-const Decode_js_1 = require("./Decode.js");
-function encoder(assay) {
-    let value;
-    const values_1 = (0, List_js_1.choose)((tupledArg) => (0, Option_js_1.map)((v_1) => [tupledArg[0], v_1], tupledArg[1]), (0, List_js_1.ofArray)([["Identifier", (value = assay.Identifier, {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], (0, Encode_js_1.tryInclude)("Title", (value_1) => ({
-            Encode(helpers_1) {
-                return helpers_1.encodeString(value_1);
-            },
-        }), assay.Title), (0, Encode_js_1.tryInclude)("Description", (value_3) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_3);
-            },
-        }), assay.Description), (0, Encode_js_1.tryInclude)("MeasurementType", OntologyAnnotation_js_1.OntologyAnnotation_encoder, assay.MeasurementType), (0, Encode_js_1.tryInclude)("TechnologyType", OntologyAnnotation_js_1.OntologyAnnotation_encoder, assay.TechnologyType), (0, Encode_js_1.tryInclude)("TechnologyPlatform", OntologyAnnotation_js_1.OntologyAnnotation_encoder, assay.TechnologyPlatform), (0, Encode_js_1.tryInclude)("DataMap", DataMap_js_1.encoder, assay.DataMap), (0, Encode_js_1.tryIncludeSeq)("Tables", ArcTable_js_1.encoder, assay.Tables), (0, Encode_js_1.tryIncludeSeq)("Performers", Person_js_1.encoder, assay.Performers), (0, Encode_js_1.tryIncludeSeq)("Comments", Comment_js_1.encoder, assay.Comments)]));
-    return {
-        Encode(helpers_3) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_3)], values_1);
-            return helpers_3.encodeObject(arg);
-        },
-    };
-}
-exports.decoder = (0, Decode_fs_js_1.object)((get$) => {
-    let objectArg, objectArg_1, objectArg_2, objectArg_3, objectArg_4, objectArg_5, arg_13, objectArg_6, objectArg_7, arg_17, objectArg_8, arg_19, objectArg_9;
-    return ArcTypes_js_1.ArcAssay.create((objectArg = get$.Required, objectArg.Field("Identifier", Decode_fs_js_1.string)), (0, Option_js_1.unwrap)((objectArg_1 = get$.Optional, objectArg_1.Field("Title", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_2 = get$.Optional, objectArg_2.Field("Description", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_3 = get$.Optional, objectArg_3.Field("MeasurementType", OntologyAnnotation_js_1.OntologyAnnotation_decoder))), (0, Option_js_1.unwrap)((objectArg_4 = get$.Optional, objectArg_4.Field("TechnologyType", OntologyAnnotation_js_1.OntologyAnnotation_decoder))), (0, Option_js_1.unwrap)((objectArg_5 = get$.Optional, objectArg_5.Field("TechnologyPlatform", OntologyAnnotation_js_1.OntologyAnnotation_decoder))), (0, Option_js_1.unwrap)((arg_13 = (0, Decode_fs_js_1.resizeArray)(ArcTable_js_1.decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Tables", arg_13)))), (0, Option_js_1.unwrap)((objectArg_7 = get$.Optional, objectArg_7.Field("DataMap", DataMap_js_1.decoder))), (0, Option_js_1.unwrap)((arg_17 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.decoder), (objectArg_8 = get$.Optional, objectArg_8.Field("Performers", arg_17)))), (0, Option_js_1.unwrap)((arg_19 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.decoder), (objectArg_9 = get$.Optional, objectArg_9.Field("Comments", arg_19)))));
-});
-function encoderCompressed(stringTable, oaTable, cellTable, assay) {
-    let value;
-    const values_1 = (0, List_js_1.choose)((tupledArg) => (0, Option_js_1.map)((v_1) => [tupledArg[0], v_1], tupledArg[1]), (0, List_js_1.ofArray)([["Identifier", (value = assay.Identifier, {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], (0, Encode_js_1.tryInclude)("Title", (value_1) => ({
-            Encode(helpers_1) {
-                return helpers_1.encodeString(value_1);
-            },
-        }), assay.Title), (0, Encode_js_1.tryInclude)("Description", (value_3) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_3);
-            },
-        }), assay.Description), (0, Encode_js_1.tryInclude)("MeasurementType", OntologyAnnotation_js_1.OntologyAnnotation_encoder, assay.MeasurementType), (0, Encode_js_1.tryInclude)("TechnologyType", OntologyAnnotation_js_1.OntologyAnnotation_encoder, assay.TechnologyType), (0, Encode_js_1.tryInclude)("TechnologyPlatform", OntologyAnnotation_js_1.OntologyAnnotation_encoder, assay.TechnologyPlatform), (0, Encode_js_1.tryIncludeSeq)("Tables", (table) => (0, ArcTable_js_1.encoderCompressed)(stringTable, oaTable, cellTable, table), assay.Tables), (0, Encode_js_1.tryInclude)("DataMap", (dm) => (0, DataMap_js_1.encoderCompressed)(stringTable, oaTable, cellTable, dm), assay.DataMap), (0, Encode_js_1.tryIncludeSeq)("Performers", Person_js_1.encoder, assay.Performers), (0, Encode_js_1.tryIncludeSeq)("Comments", Comment_js_1.encoder, assay.Comments)]));
-    return {
-        Encode(helpers_3) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_3)], values_1);
-            return helpers_3.encodeObject(arg);
-        },
-    };
-}
-function decoderCompressed(stringTable, oaTable, cellTable) {
-    return (0, Decode_fs_js_1.object)((get$) => {
-        let objectArg, objectArg_1, objectArg_2, objectArg_3, objectArg_4, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8, arg_19, objectArg_9;
-        return ArcTypes_js_1.ArcAssay.create((objectArg = get$.Required, objectArg.Field("Identifier", Decode_fs_js_1.string)), (0, Option_js_1.unwrap)((objectArg_1 = get$.Optional, objectArg_1.Field("Title", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_2 = get$.Optional, objectArg_2.Field("Description", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_3 = get$.Optional, objectArg_3.Field("MeasurementType", OntologyAnnotation_js_1.OntologyAnnotation_decoder))), (0, Option_js_1.unwrap)((objectArg_4 = get$.Optional, objectArg_4.Field("TechnologyType", OntologyAnnotation_js_1.OntologyAnnotation_decoder))), (0, Option_js_1.unwrap)((objectArg_5 = get$.Optional, objectArg_5.Field("TechnologyPlatform", OntologyAnnotation_js_1.OntologyAnnotation_decoder))), (0, Option_js_1.unwrap)((arg_13 = (0, Decode_fs_js_1.resizeArray)((0, ArcTable_js_1.decoderCompressed)(stringTable, oaTable, cellTable)), (objectArg_6 = get$.Optional, objectArg_6.Field("Tables", arg_13)))), (0, Option_js_1.unwrap)((arg_15 = (0, DataMap_js_1.decoderCompressed)(stringTable, oaTable, cellTable), (objectArg_7 = get$.Optional, objectArg_7.Field("DataMap", arg_15)))), (0, Option_js_1.unwrap)((arg_17 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.decoder), (objectArg_8 = get$.Optional, objectArg_8.Field("Performers", arg_17)))), (0, Option_js_1.unwrap)((arg_19 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.decoder), (objectArg_9 = get$.Optional, objectArg_9.Field("Comments", arg_19)))));
-    });
-}
-function ROCrate_genID(a) {
-    const matchValue = a.Identifier;
-    if (matchValue === "") {
-        return "#EmptyAssay";
-    }
-    else {
-        return `assays/${(0, String_js_1.replace)(matchValue, " ", "_")}/`;
-    }
-}
-function ROCrate_encoder(studyName, a) {
-    let value, value_3, assayName;
-    const fileName = (0, Identifier_js_1.Assay_fileNameFromIdentifier)(a.Identifier);
-    const processes = (0, Conversion_js_1.ARCtrl_ArcTables__ArcTables_GetProcesses)(a);
-    const dataFiles = (0, ProcessSequence_js_1.getData)(processes);
-    const values_1 = (0, List_js_1.choose)((tupledArg) => (0, Option_js_1.map)((v_1) => [tupledArg[0], v_1], tupledArg[1]), (0, List_js_1.ofArray)([["@id", (value = ROCrate_genID(a), {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], ["@type", (0, Encode_fs_js_1.list)((0, List_js_1.singleton)({
-                Encode(helpers_1) {
-                    return helpers_1.encodeString("Assay");
-                },
-            }))], ["additionalType", {
-                Encode(helpers_2) {
-                    return helpers_2.encodeString("Assay");
-                },
-            }], ["identifier", (value_3 = a.Identifier, {
-                Encode(helpers_3) {
-                    return helpers_3.encodeString(value_3);
-                },
-            })], ["filename", {
-                Encode(helpers_4) {
-                    return helpers_4.encodeString(fileName);
-                },
-            }], (0, Encode_js_1.tryInclude)("title", (value_5) => ({
-            Encode(helpers_5) {
-                return helpers_5.encodeString(value_5);
-            },
-        }), a.Title), (0, Encode_js_1.tryInclude)("description", (value_7) => ({
-            Encode(helpers_6) {
-                return helpers_6.encodeString(value_7);
-            },
-        }), a.Description), (0, Encode_js_1.tryInclude)("measurementType", OntologyAnnotation_js_1.OntologyAnnotation_ROCrate_encoderPropertyValue, a.MeasurementType), (0, Encode_js_1.tryInclude)("technologyType", OntologyAnnotation_js_1.OntologyAnnotation_ROCrate_encoderDefinedTerm, a.TechnologyType), (0, Encode_js_1.tryInclude)("technologyPlatform", OntologyAnnotation_js_1.OntologyAnnotation_ROCrate_encoderDefinedTerm, a.TechnologyPlatform), (0, Encode_js_1.tryIncludeSeq)("performers", Person_js_1.ROCrate_encoder, a.Performers), (0, Encode_js_1.tryIncludeList)("dataFiles", Data_js_1.ROCrate_encoder, dataFiles), (0, Encode_js_1.tryIncludeList)("processSequence", (assayName = a.Identifier, (oa_5) => (0, Process_js_1.ROCrate_encoder)(studyName, assayName, oa_5)), processes), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.ROCrate_encoder, a.Comments), ["@context", isa_assay_context_js_1.context_jsonvalue]]));
-    return {
-        Encode(helpers_7) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_7)], values_1);
-            return helpers_7.encodeObject(arg);
-        },
-    };
-}
-exports.ROCrate_decoder = (0, Decode_fs_js_1.object)((get$) => {
-    let objectArg, arg_3, objectArg_1, objectArg_2, objectArg_3, objectArg_4, objectArg_5, objectArg_6, arg_16, objectArg_7, arg_18, objectArg_8;
-    const identifier = (0, Option_js_1.defaultArg)((objectArg = get$.Optional, objectArg.Field("identifier", Decode_fs_js_1.string)), (0, Identifier_js_1.createMissingIdentifier)());
-    const tables = (0, Option_js_1.map)((arg_4) => {
-        const a = (0, Conversion_js_1.ARCtrl_ArcTables__ArcTables_fromProcesses_Static_62A3309D)(arg_4);
-        return a.Tables;
-    }, (arg_3 = (0, Decode_fs_js_1.list)(Process_js_1.ROCrate_decoder), (objectArg_1 = get$.Optional, objectArg_1.Field("processSequence", arg_3))));
-    return new ArcTypes_js_1.ArcAssay(identifier, (0, Option_js_1.unwrap)((objectArg_2 = get$.Optional, objectArg_2.Field("title", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_3 = get$.Optional, objectArg_3.Field("description", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_4 = get$.Optional, objectArg_4.Field("measurementType", OntologyAnnotation_js_1.OntologyAnnotation_ROCrate_decoderPropertyValue))), (0, Option_js_1.unwrap)((objectArg_5 = get$.Optional, objectArg_5.Field("technologyType", OntologyAnnotation_js_1.OntologyAnnotation_ROCrate_decoderDefinedTerm))), (0, Option_js_1.unwrap)((objectArg_6 = get$.Optional, objectArg_6.Field("technologyPlatform", OntologyAnnotation_js_1.OntologyAnnotation_ROCrate_decoderDefinedTerm))), (0, Option_js_1.unwrap)(tables), undefined, (0, Option_js_1.unwrap)((arg_16 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.ROCrate_decoder), (objectArg_7 = get$.Optional, objectArg_7.Field("performers", arg_16)))), (0, Option_js_1.unwrap)((arg_18 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.ROCrate_decoder), (objectArg_8 = get$.Optional, objectArg_8.Field("comments", arg_18)))));
-});
-function ISAJson_encoder(studyName, idMap, a) {
-    const f = (a_1) => {
-        let assayName;
-        const fileName = (0, Identifier_js_1.Assay_fileNameFromIdentifier)(a_1.Identifier);
-        const processes = (0, Conversion_js_1.ARCtrl_ArcTables__ArcTables_GetProcesses)(a_1);
-        const encodedUnits = (0, Encode_js_1.tryIncludeList)("unitCategories", (oa) => (0, OntologyAnnotation_js_1.OntologyAnnotation_ISAJson_encoder)(idMap, oa), (0, ProcessSequence_js_1.getUnits)(processes));
-        const encodedCharacteristics = (0, Encode_js_1.tryIncludeList)("characteristicCategories", (value_1) => (0, MaterialAttribute_js_1.encoder)(idMap, value_1), (0, ProcessSequence_js_1.getCharacteristics)(processes));
-        const encodedMaterials = (0, Encode_js_1.tryInclude)("materials", (ps) => (0, AssayMaterials_js_1.encoder)(idMap, ps), (0, Collections_js_1.Option_fromValueWithDefault)((0, List_js_1.empty)(), processes));
-        const encocedDataFiles = (0, Encode_js_1.tryIncludeList)("dataFiles", (oa_1) => (0, Data_js_1.ISAJson_encoder)(idMap, oa_1), (0, ProcessSequence_js_1.getData)(processes));
-        const units = (0, ProcessSequence_js_1.getUnits)(processes);
-        const comments = (0, Seq_js_1.toList)((0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((a_1.Comments.length > 0) ? a_1.Comments : (0, Seq_js_1.empty)(), (0, Seq_js_1.delay)(() => (0, Seq_js_1.append)((a_1.Title != null) ? (0, Seq_js_1.singleton)(Comment_js_2.Comment$.create("title", (0, Option_js_1.value)(a_1.Title))) : (0, Seq_js_1.empty)(), (0, Seq_js_1.delay)(() => ((a_1.Description != null) ? (0, Seq_js_1.singleton)(Comment_js_2.Comment$.create("description", (0, Option_js_1.value)(a_1.Description))) : (0, Seq_js_1.empty)())))))));
-        const values_1 = (0, List_js_1.choose)((tupledArg) => (0, Option_js_1.map)((v_1) => [tupledArg[0], v_1], tupledArg[1]), (0, List_js_1.ofArray)([["filename", {
-                    Encode(helpers) {
-                        return helpers.encodeString(fileName);
-                    },
-                }], (0, Encode_js_1.tryInclude)("@id", (value_5) => ({
-                Encode(helpers_1) {
-                    return helpers_1.encodeString(value_5);
-                },
-            }), ROCrate_genID(a_1)), (0, Encode_js_1.tryInclude)("measurementType", (oa_2) => (0, OntologyAnnotation_js_1.OntologyAnnotation_ISAJson_encoder)(idMap, oa_2), a_1.MeasurementType), (0, Encode_js_1.tryInclude)("technologyType", (oa_3) => (0, OntologyAnnotation_js_1.OntologyAnnotation_ISAJson_encoder)(idMap, oa_3), a_1.TechnologyType), (0, Encode_js_1.tryInclude)("technologyPlatform", (value_7) => ({
-                Encode(helpers_2) {
-                    return helpers_2.encodeString(value_7);
-                },
-            }), (0, Option_js_1.map)(Conversion_js_1.JsonTypes_composeTechnologyPlatform, a_1.TechnologyPlatform)), encocedDataFiles, encodedMaterials, encodedCharacteristics, encodedUnits, (0, Encode_js_1.tryIncludeList)("processSequence", (assayName = a_1.Identifier, (oa_4) => (0, Process_js_1.ISAJson_encoder)(studyName, assayName, idMap, oa_4)), processes), (0, Encode_js_1.tryIncludeSeq)("comments", (comment) => (0, Comment_js_1.ISAJson_encoder)(idMap, comment), comments)]));
-        return {
-            Encode(helpers_3) {
-                const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_3)], values_1);
-                return helpers_3.encodeObject(arg);
-            },
-        };
-    };
-    if (idMap != null) {
-        return (0, IDTable_js_1.encode)(ROCrate_genID, f, a, (0, Option_js_1.value)(idMap));
-    }
-    else {
-        return f(a);
-    }
-}
-exports.ISAJson_allowedFields = (0, List_js_1.ofArray)(["@id", "filename", "measurementType", "technologyType", "technologyPlatform", "dataFiles", "materials", "characteristicCategories", "unitCategories", "processSequence", "comments", "@type", "@context"]);
-exports.ISAJson_decoder = (0, Decode_js_1.Decode_objectNoAdditionalProperties)(exports.ISAJson_allowedFields, (get$) => {
-    let objectArg, arg_3, objectArg_1, objectArg_3, objectArg_4, arg_12, objectArg_5;
-    const identifier = (0, Option_js_1.defaultArg)((0, Option_js_1.bind)(Identifier_js_1.Assay_tryIdentifierFromFileName, (objectArg = get$.Optional, objectArg.Field("filename", Decode_fs_js_1.string))), (0, Identifier_js_1.createMissingIdentifier)());
-    const tables = (0, Option_js_1.map)((arg_4) => {
-        const a = (0, Conversion_js_1.ARCtrl_ArcTables__ArcTables_fromProcesses_Static_62A3309D)(arg_4);
-        return a.Tables;
-    }, (arg_3 = (0, Decode_fs_js_1.list)(Process_js_1.ISAJson_decoder), (objectArg_1 = get$.Optional, objectArg_1.Field("processSequence", arg_3))));
-    let comments;
-    const arg_6 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.ISAJson_decoder);
-    const objectArg_2 = get$.Optional;
-    comments = objectArg_2.Field("comments", arg_6);
-    const title = (0, Option_js_1.bind)((c) => (0, Seq_js_1.tryPick)((x) => {
-        if ((x.Name != null) && ((0, Option_js_1.value)(x.Name) === "title")) {
-            return x.Value;
-        }
-        else {
-            return undefined;
-        }
-    }, c), comments);
-    const description = (0, Option_js_1.bind)((c_1) => (0, Seq_js_1.tryPick)((x_1) => {
-        if ((x_1.Name != null) && ((0, Option_js_1.value)(x_1.Name) === "description")) {
-            return x_1.Value;
-        }
-        else {
-            return undefined;
-        }
-    }, c_1), comments);
-    const comments_1 = (0, Option_js_1.bind)((c_2) => {
-        const matchValue = (0, Collections_js_1.ResizeArray_filter)((x_2) => {
-            if (x_2.Name == null) {
-                return true;
-            }
-            else if ((0, Option_js_1.value)(x_2.Name) !== "title") {
-                return (0, Option_js_1.value)(x_2.Name) !== "description";
-            }
-            else {
-                return false;
-            }
-        }, c_2);
-        if ((0, Seq_js_1.length)(matchValue) === 0) {
-            return undefined;
-        }
-        else {
-            return matchValue;
-        }
-    }, comments);
-    return new ArcTypes_js_1.ArcAssay(identifier, (0, Option_js_1.unwrap)(title), (0, Option_js_1.unwrap)(description), (0, Option_js_1.unwrap)((objectArg_3 = get$.Optional, objectArg_3.Field("measurementType", OntologyAnnotation_js_1.OntologyAnnotation_ISAJson_decoder))), (0, Option_js_1.unwrap)((objectArg_4 = get$.Optional, objectArg_4.Field("technologyType", OntologyAnnotation_js_1.OntologyAnnotation_ISAJson_decoder))), (0, Option_js_1.unwrap)((arg_12 = (0, Decode_fs_js_1.map)(Conversion_js_1.JsonTypes_decomposeTechnologyPlatform, Decode_fs_js_1.string), (objectArg_5 = get$.Optional, objectArg_5.Field("technologyPlatform", arg_12)))), (0, Option_js_1.unwrap)(tables), undefined, undefined, (0, Option_js_1.unwrap)(comments_1));
-});