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

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

@@ -1,117 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.DefaultSpaces = void 0;
-exports.tryInclude = tryInclude;
-exports.tryIncludeSeq = tryIncludeSeq;
-exports.tryIncludeArray = tryIncludeArray;
-exports.tryIncludeList = tryIncludeList;
-exports.tryIncludeListOpt = tryIncludeListOpt;
-exports.defaultSpaces = defaultSpaces;
-exports.dateTime = dateTime;
-exports.addPropertyToObject = addPropertyToObject;
-exports.resizeArrayOrSingleton = resizeArrayOrSingleton;
-exports.dictionary = dictionary;
-exports.intDictionary = intDictionary;
-const Option_js_1 = require("@fable-org/fable-library-js/Option.js");
-const Types_fs_js_1 = require("../fable_modules/Thoth.Json.Core.0.4.0/Types.fs.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const Encode_fs_js_1 = require("../fable_modules/Thoth.Json.Core.0.4.0/Encode.fs.js");
-const Array_js_1 = require("@fable-org/fable-library-js/Array.js");
-const List_js_1 = require("@fable-org/fable-library-js/List.js");
-const Date_js_1 = require("@fable-org/fable-library-js/Date.js");
-const CollectionUtil_js_1 = require("@fable-org/fable-library-js/CollectionUtil.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-/**
- * Try to encode the given object using the given encoder, or return Encode.nil if the object is null
- */
-function tryInclude(name, encoder, value) {
-    return [name, (0, Option_js_1.map)(encoder, value)];
-}
-/**
- * Try to encode the given object using the given encoder, or return Encode.nil if the object is null
- */
-function tryIncludeSeq(name, encoder, value) {
-    return [name, (0, Seq_js_1.isEmpty)(value) ? undefined : (0, Encode_fs_js_1.seq)((0, Seq_js_1.map)(encoder, value))];
-}
-function tryIncludeArray(name, encoder, value) {
-    let values;
-    return [name, (value.length === 0) ? undefined : ((values = (0, Array_js_1.map)(encoder, value), {
-            Encode(helpers) {
-                const arg = (0, Array_js_1.map)((v) => v.Encode(helpers), values);
-                return helpers.encodeArray(arg);
-            },
-        }))];
-}
-function tryIncludeList(name, encoder, value) {
-    return [name, (0, List_js_1.isEmpty)(value) ? undefined : (0, Encode_fs_js_1.list)((0, List_js_1.map)(encoder, value))];
-}
-function tryIncludeListOpt(name, encoder, value) {
-    let o;
-    return [name, (value != null) ? ((o = (0, Option_js_1.value)(value), (0, List_js_1.isEmpty)(o) ? undefined : (0, Encode_fs_js_1.list)((0, List_js_1.map)(encoder, o)))) : undefined];
-}
-exports.DefaultSpaces = 0;
-function defaultSpaces(spaces) {
-    return (0, Option_js_1.defaultArg)(spaces, exports.DefaultSpaces);
-}
-function dateTime(d) {
-    const value = (0, Array_js_1.item)(0, (0, Date_js_1.toString)(d, "O", {}).split("+"));
-    return {
-        Encode(helpers) {
-            return helpers.encodeString(value);
-        },
-    };
-}
-function addPropertyToObject(name, value, obj) {
-    if (obj.tag === /* Object */ 5) {
-        return (0, Types_fs_js_1.Json_Object)((0, Seq_js_1.append)(obj.fields[0], [[name, value]]));
-    }
-    else {
-        throw new Error("Expected object");
-    }
-}
-function resizeArrayOrSingleton(encoder, values) {
-    if (values.length === 1) {
-        return encoder(values[0]);
-    }
-    else {
-        return (0, Encode_fs_js_1.seq)((0, Seq_js_1.map)(encoder, values));
-    }
-}
-function dictionary(keyEncoder, valueEncoder, values) {
-    if ((0, CollectionUtil_js_1.count)(values) === 0) {
-        return {
-            Encode(helpers) {
-                return helpers.encodeNull();
-            },
-        };
-    }
-    else {
-        return (0, Encode_fs_js_1.seq)((0, Seq_js_1.toArray)((0, Seq_js_1.map)((_arg) => {
-            const activePatternResult = _arg;
-            return (0, Encode_fs_js_1.tuple2)(keyEncoder, valueEncoder, activePatternResult[0], activePatternResult[1]);
-        }, values)));
-    }
-}
-function intDictionary(valueEncoder, values) {
-    if ((0, CollectionUtil_js_1.count)(values) === 0) {
-        return {
-            Encode(helpers) {
-                return helpers.encodeNull();
-            },
-        };
-    }
-    else {
-        return (0, Encode_fs_js_1.seq)((0, Seq_js_1.toArray)((0, Seq_js_1.map)((_arg) => {
-            const activePatternResult = _arg;
-            const k = activePatternResult[0] | 0;
-            if ((k > 2147483647) ? true : (k < -2147483648)) {
-                (0, String_js_1.toFail)((0, String_js_1.printf)("Key %d is out of bounds for Int32"))(k);
-            }
-            return (0, Encode_fs_js_1.tuple2)((value) => ({
-                Encode(helpers_1) {
-                    return helpers_1.encodeSignedIntegralNumber(value);
-                },
-            }), valueEncoder, k, activePatternResult[1]);
-        }, values)));
-    }
-}

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

@@ -1,30 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.encodeID = encodeID;
-exports.encode = encode;
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const MapUtil_js_1 = require("@fable-org/fable-library-js/MapUtil.js");
-function encodeID(id) {
-    const values_1 = [["@id", {
-                Encode(helpers) {
-                    return helpers.encodeString(id);
-                },
-            }]];
-    return {
-        Encode(helpers_1) {
-            const arg = (0, Seq_js_1.map)((tupledArg) => [tupledArg[0], tupledArg[1].Encode(helpers_1)], values_1);
-            return helpers_1.encodeObject(arg);
-        },
-    };
-}
-function encode(genID, encoder, value, table) {
-    const id = genID(value);
-    if (table.has(id)) {
-        return encodeID(id);
-    }
-    else {
-        const v = encoder(value);
-        (0, MapUtil_js_1.addToDict)(table, genID(value), v);
-        return v;
-    }
-}

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

@@ -1,254 +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.ROCrate_encodeRoCrate = ROCrate_encodeRoCrate;
-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 OntologySourceReference_js_1 = require("./OntologySourceReference.js");
-const Publication_js_1 = require("./Publication.js");
-const Person_js_1 = require("./Person.js");
-const Assay_js_1 = require("./Assay.js");
-const ArcTypes_js_1 = require("../Core/ArcTypes.js");
-const Study_js_1 = require("./Study.js");
-const Comment_js_1 = require("./Comment.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const Decode_fs_js_1 = require("../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js");
-const Util_js_1 = require("@fable-org/fable-library-js/Util.js");
-const Date_js_1 = require("@fable-org/fable-library-js/Date.js");
-const isa_investigation_context_js_1 = require("./context/rocrate/isa_investigation_context.js");
-const Identifier_js_1 = require("../Core/Helper/Identifier.js");
-const Seq2_js_1 = require("@fable-org/fable-library-js/Seq2.js");
-const rocrate_context_js_1 = require("./context/rocrate/rocrate_context.js");
-const Decode_js_1 = require("./Decode.js");
-function encoder(inv) {
-    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 = inv.Identifier, {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], (0, Encode_js_1.tryInclude)("Title", (value_1) => ({
-            Encode(helpers_1) {
-                return helpers_1.encodeString(value_1);
-            },
-        }), inv.Title), (0, Encode_js_1.tryInclude)("Description", (value_3) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_3);
-            },
-        }), inv.Description), (0, Encode_js_1.tryInclude)("SubmissionDate", (value_5) => ({
-            Encode(helpers_3) {
-                return helpers_3.encodeString(value_5);
-            },
-        }), inv.SubmissionDate), (0, Encode_js_1.tryInclude)("PublicReleaseDate", (value_7) => ({
-            Encode(helpers_4) {
-                return helpers_4.encodeString(value_7);
-            },
-        }), inv.PublicReleaseDate), (0, Encode_js_1.tryIncludeSeq)("OntologySourceReferences", OntologySourceReference_js_1.encoder, inv.OntologySourceReferences), (0, Encode_js_1.tryIncludeSeq)("Publications", Publication_js_1.encoder, inv.Publications), (0, Encode_js_1.tryIncludeSeq)("Contacts", Person_js_1.encoder, inv.Contacts), (0, Encode_js_1.tryIncludeSeq)("Assays", Assay_js_1.encoder, inv.Assays), (0, Encode_js_1.tryIncludeSeq)("Studies", Study_js_1.encoder, inv.Studies), (0, Encode_js_1.tryIncludeSeq)("RegisteredStudyIdentifiers", (value_9) => ({
-            Encode(helpers_5) {
-                return helpers_5.encodeString(value_9);
-            },
-        }), inv.RegisteredStudyIdentifiers), (0, Encode_js_1.tryIncludeSeq)("Comments", Comment_js_1.encoder, inv.Comments)]));
-    return {
-        Encode(helpers_6) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_6)], values_1);
-            return helpers_6.encodeObject(arg);
-        },
-    };
-}
-exports.decoder = (0, Decode_fs_js_1.object)((get$) => {
-    let objectArg, objectArg_1, objectArg_2, objectArg_3, objectArg_4, arg_11, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8, arg_19, objectArg_9, arg_21, objectArg_10, arg_23, objectArg_11;
-    return new ArcTypes_js_1.ArcInvestigation((objectArg = get$.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$.Optional, objectArg_3.Field("SubmissionDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_4 = get$.Optional, objectArg_4.Field("PublicReleaseDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_11 = (0, Decode_fs_js_1.resizeArray)(OntologySourceReference_js_1.decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("OntologySourceReferences", arg_11)))), (0, Option_js_1.unwrap)((arg_13 = (0, Decode_fs_js_1.resizeArray)(Publication_js_1.decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Publications", arg_13)))), (0, Option_js_1.unwrap)((arg_15 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.decoder), (objectArg_7 = get$.Optional, objectArg_7.Field("Contacts", arg_15)))), (0, Option_js_1.unwrap)((arg_17 = (0, Decode_fs_js_1.resizeArray)(Assay_js_1.decoder), (objectArg_8 = get$.Optional, objectArg_8.Field("Assays", arg_17)))), (0, Option_js_1.unwrap)((arg_19 = (0, Decode_fs_js_1.resizeArray)(Study_js_1.decoder), (objectArg_9 = get$.Optional, objectArg_9.Field("Studies", arg_19)))), undefined, undefined, (0, Option_js_1.unwrap)((arg_21 = (0, Decode_fs_js_1.resizeArray)(Decode_fs_js_1.string), (objectArg_10 = get$.Optional, objectArg_10.Field("RegisteredStudyIdentifiers", arg_21)))), (0, Option_js_1.unwrap)((arg_23 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.decoder), (objectArg_11 = get$.Optional, objectArg_11.Field("Comments", arg_23)))));
-});
-function encoderCompressed(stringTable, oaTable, cellTable, inv) {
-    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 = inv.Identifier, {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], (0, Encode_js_1.tryInclude)("Title", (value_1) => ({
-            Encode(helpers_1) {
-                return helpers_1.encodeString(value_1);
-            },
-        }), inv.Title), (0, Encode_js_1.tryInclude)("Description", (value_3) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_3);
-            },
-        }), inv.Description), (0, Encode_js_1.tryInclude)("SubmissionDate", (value_5) => ({
-            Encode(helpers_3) {
-                return helpers_3.encodeString(value_5);
-            },
-        }), inv.SubmissionDate), (0, Encode_js_1.tryInclude)("PublicReleaseDate", (value_7) => ({
-            Encode(helpers_4) {
-                return helpers_4.encodeString(value_7);
-            },
-        }), inv.PublicReleaseDate), (0, Encode_js_1.tryIncludeSeq)("OntologySourceReferences", OntologySourceReference_js_1.encoder, inv.OntologySourceReferences), (0, Encode_js_1.tryIncludeSeq)("Publications", Publication_js_1.encoder, inv.Publications), (0, Encode_js_1.tryIncludeSeq)("Contacts", Person_js_1.encoder, inv.Contacts), (0, Encode_js_1.tryIncludeSeq)("Assays", (assay) => (0, Assay_js_1.encoderCompressed)(stringTable, oaTable, cellTable, assay), inv.Assays), (0, Encode_js_1.tryIncludeSeq)("Studies", (study) => (0, Study_js_1.encoderCompressed)(stringTable, oaTable, cellTable, study), inv.Studies), (0, Encode_js_1.tryIncludeSeq)("RegisteredStudyIdentifiers", (value_9) => ({
-            Encode(helpers_5) {
-                return helpers_5.encodeString(value_9);
-            },
-        }), inv.RegisteredStudyIdentifiers), (0, Encode_js_1.tryIncludeSeq)("Comments", Comment_js_1.encoder, inv.Comments)]));
-    return {
-        Encode(helpers_6) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_6)], values_1);
-            return helpers_6.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, arg_11, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8, arg_19, objectArg_9, arg_21, objectArg_10, arg_23, objectArg_11;
-        return new ArcTypes_js_1.ArcInvestigation((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("SubmissionDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_4 = get$.Optional, objectArg_4.Field("PublicReleaseDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_11 = (0, Decode_fs_js_1.resizeArray)(OntologySourceReference_js_1.decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("OntologySourceReferences", arg_11)))), (0, Option_js_1.unwrap)((arg_13 = (0, Decode_fs_js_1.resizeArray)(Publication_js_1.decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Publications", arg_13)))), (0, Option_js_1.unwrap)((arg_15 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.decoder), (objectArg_7 = get$.Optional, objectArg_7.Field("Contacts", arg_15)))), (0, Option_js_1.unwrap)((arg_17 = (0, Decode_fs_js_1.resizeArray)((0, Assay_js_1.decoderCompressed)(stringTable, oaTable, cellTable)), (objectArg_8 = get$.Optional, objectArg_8.Field("Assays", arg_17)))), (0, Option_js_1.unwrap)((arg_19 = (0, Decode_fs_js_1.resizeArray)((0, Study_js_1.decoderCompressed)(stringTable, oaTable, cellTable)), (objectArg_9 = get$.Optional, objectArg_9.Field("Studies", arg_19)))), undefined, undefined, (0, Option_js_1.unwrap)((arg_21 = (0, Decode_fs_js_1.resizeArray)(Decode_fs_js_1.string), (objectArg_10 = get$.Optional, objectArg_10.Field("RegisteredStudyIdentifiers", arg_21)))), (0, Option_js_1.unwrap)((arg_23 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.decoder), (objectArg_11 = get$.Optional, objectArg_11.Field("Comments", arg_23)))));
-    });
-}
-function ROCrate_genID(i) {
-    return "./";
-}
-function ROCrate_encoder(oa) {
-    let value, value_3, value_4, value_12, copyOfStruct;
-    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(oa), {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], ["@type", {
-                Encode(helpers_1) {
-                    return helpers_1.encodeString("Investigation");
-                },
-            }], ["additionalType", {
-                Encode(helpers_2) {
-                    return helpers_2.encodeString("Investigation");
-                },
-            }], ["identifier", (value_3 = oa.Identifier, {
-                Encode(helpers_3) {
-                    return helpers_3.encodeString(value_3);
-                },
-            })], ["filename", (value_4 = ArcTypes_js_1.ArcInvestigation.FileName, {
-                Encode(helpers_4) {
-                    return helpers_4.encodeString(value_4);
-                },
-            })], (0, Encode_js_1.tryInclude)("title", (value_5) => ({
-            Encode(helpers_5) {
-                return helpers_5.encodeString(value_5);
-            },
-        }), oa.Title), (0, Encode_js_1.tryInclude)("description", (value_7) => ({
-            Encode(helpers_6) {
-                return helpers_6.encodeString(value_7);
-            },
-        }), oa.Description), (0, Encode_js_1.tryInclude)("submissionDate", (value_9) => ({
-            Encode(helpers_7) {
-                return helpers_7.encodeString(value_9);
-            },
-        }), oa.SubmissionDate), ["publicReleaseDate", (value_12 = (0, Option_js_1.defaultArg)(oa.PublicReleaseDate, (copyOfStruct = (0, Date_js_1.today)(), (0, Date_js_1.toString)(copyOfStruct, "yyyy-MM-dd"))), {
-                Encode(helpers_8) {
-                    return helpers_8.encodeString(value_12);
-                },
-            })], (0, Encode_js_1.tryIncludeSeq)("ontologySourceReferences", OntologySourceReference_js_1.ROCrate_encoder, oa.OntologySourceReferences), (0, Encode_js_1.tryIncludeSeq)("publications", Publication_js_1.ROCrate_encoder, oa.Publications), (0, Encode_js_1.tryIncludeSeq)("people", Person_js_1.ROCrate_encoder, oa.Contacts), (0, Encode_js_1.tryIncludeSeq)("studies", (s) => (0, Study_js_1.ROCrate_encoder)(undefined, s), oa.Studies), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.ROCrate_encoder, oa.Comments), ["@context", isa_investigation_context_js_1.context_jsonvalue]]));
-    return {
-        Encode(helpers_9) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_9)], values_1);
-            return helpers_9.encodeObject(arg);
-        },
-    };
-}
-exports.ROCrate_decoder = (0, Decode_fs_js_1.object)((get$) => {
-    let arg_3, objectArg_1, objectArg_2, objectArg_3, objectArg_4, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8, arg_19, objectArg_9;
-    let identifier;
-    let matchValue;
-    const objectArg = get$.Optional;
-    matchValue = objectArg.Field("identifier", Decode_fs_js_1.string);
-    identifier = ((matchValue == null) ? (0, Identifier_js_1.createMissingIdentifier)() : (0, Option_js_1.value)(matchValue));
-    const patternInput = (0, List_js_1.unzip)((0, Option_js_1.defaultArg)((arg_3 = (0, Decode_fs_js_1.list)(Study_js_1.ROCrate_decoder), (objectArg_1 = get$.Optional, objectArg_1.Field("studies", arg_3))), (0, List_js_1.empty)()));
-    const studiesRaw = patternInput[0];
-    let assays;
-    const collection = (0, Seq2_js_1.distinctBy)((a) => a.Identifier, (0, Seq_js_1.concat)(patternInput[1]), {
-        Equals: (x, y) => (x === y),
-        GetHashCode: Util_js_1.stringHash,
-    });
-    assays = Array.from(collection);
-    const studies = Array.from(studiesRaw);
-    let studyIdentifiers;
-    const collection_1 = (0, Seq_js_1.map)((a_1) => a_1.Identifier, studiesRaw);
-    studyIdentifiers = Array.from(collection_1);
-    return new ArcTypes_js_1.ArcInvestigation(identifier, (0, Option_js_1.unwrap)((objectArg_2 = get$.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("submissionDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_5 = get$.Optional, objectArg_5.Field("publicReleaseDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_13 = (0, Decode_fs_js_1.resizeArray)(OntologySourceReference_js_1.ROCrate_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("ontologySourceReferences", arg_13)))), (0, Option_js_1.unwrap)((arg_15 = (0, Decode_fs_js_1.resizeArray)(Publication_js_1.ROCrate_decoder), (objectArg_7 = get$.Optional, objectArg_7.Field("publications", arg_15)))), (0, Option_js_1.unwrap)((arg_17 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.ROCrate_decoder), (objectArg_8 = get$.Optional, objectArg_8.Field("people", arg_17)))), assays, studies, undefined, undefined, studyIdentifiers, (0, Option_js_1.unwrap)((arg_19 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.ROCrate_decoder), (objectArg_9 = get$.Optional, objectArg_9.Field("comments", arg_19)))));
-});
-function ROCrate_encodeRoCrate(oa) {
-    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)([(0, Encode_js_1.tryInclude)("@type", (value) => ({
-            Encode(helpers) {
-                return helpers.encodeString(value);
-            },
-        }), "CreativeWork"), (0, Encode_js_1.tryInclude)("@id", (value_2) => ({
-            Encode(helpers_1) {
-                return helpers_1.encodeString(value_2);
-            },
-        }), "ro-crate-metadata.json"), (0, Encode_js_1.tryInclude)("about", ROCrate_encoder, oa), ["conformsTo", rocrate_context_js_1.conformsTo_jsonvalue], ["@context", rocrate_context_js_1.context_jsonvalue]]));
-    return {
-        Encode(helpers_2) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_2)], values_1);
-            return helpers_2.encodeObject(arg);
-        },
-    };
-}
-exports.ISAJson_allowedFields = (0, List_js_1.ofArray)(["@id", "filename", "identifier", "title", "description", "submissionDate", "publicReleaseDate", "ontologySourceReferences", "publications", "people", "studies", "comments", "@type", "@context"]);
-function ISAJson_encoder(idMap, inv) {
-    let value, value_1, value_2;
-    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(inv), {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], ["filename", (value_1 = ArcTypes_js_1.ArcInvestigation.FileName, {
-                Encode(helpers_1) {
-                    return helpers_1.encodeString(value_1);
-                },
-            })], ["identifier", (value_2 = inv.Identifier, {
-                Encode(helpers_2) {
-                    return helpers_2.encodeString(value_2);
-                },
-            })], (0, Encode_js_1.tryInclude)("title", (value_3) => ({
-            Encode(helpers_3) {
-                return helpers_3.encodeString(value_3);
-            },
-        }), inv.Title), (0, Encode_js_1.tryInclude)("description", (value_5) => ({
-            Encode(helpers_4) {
-                return helpers_4.encodeString(value_5);
-            },
-        }), inv.Description), (0, Encode_js_1.tryInclude)("submissionDate", (value_7) => ({
-            Encode(helpers_5) {
-                return helpers_5.encodeString(value_7);
-            },
-        }), inv.SubmissionDate), (0, Encode_js_1.tryInclude)("publicReleaseDate", (value_9) => ({
-            Encode(helpers_6) {
-                return helpers_6.encodeString(value_9);
-            },
-        }), inv.PublicReleaseDate), (0, Encode_js_1.tryIncludeSeq)("ontologySourceReferences", (osr) => (0, OntologySourceReference_js_1.ISAJson_encoder)(idMap, osr), inv.OntologySourceReferences), (0, Encode_js_1.tryIncludeSeq)("publications", (oa) => (0, Publication_js_1.ISAJson_encoder)(idMap, oa), inv.Publications), (0, Encode_js_1.tryIncludeSeq)("people", (person) => (0, Person_js_1.ISAJson_encoder)(idMap, person), inv.Contacts), (0, Encode_js_1.tryIncludeSeq)("studies", (s) => (0, Study_js_1.ISAJson_encoder)(idMap, undefined, s), inv.Studies), (0, Encode_js_1.tryIncludeSeq)("comments", (comment) => (0, Comment_js_1.ISAJson_encoder)(idMap, comment), inv.Comments)]));
-    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.ISAJson_decoder = (0, Decode_js_1.Decode_objectNoAdditionalProperties)(exports.ISAJson_allowedFields, (get$) => {
-    let arg_3, 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;
-    let identifer;
-    let matchValue;
-    const objectArg = get$.Optional;
-    matchValue = objectArg.Field("identifier", Decode_fs_js_1.string);
-    identifer = ((matchValue == null) ? (0, Identifier_js_1.createMissingIdentifier)() : (0, Option_js_1.value)(matchValue));
-    const patternInput = (0, List_js_1.unzip)((0, Option_js_1.defaultArg)((arg_3 = (0, Decode_fs_js_1.list)(Study_js_1.ISAJson_decoder), (objectArg_1 = get$.Optional, objectArg_1.Field("studies", arg_3))), (0, List_js_1.empty)()));
-    const studiesRaw = patternInput[0];
-    let assays;
-    const collection = (0, Seq2_js_1.distinctBy)((a) => a.Identifier, (0, Seq_js_1.concat)(patternInput[1]), {
-        Equals: (x, y) => (x === y),
-        GetHashCode: Util_js_1.stringHash,
-    });
-    assays = Array.from(collection);
-    const studies = Array.from(studiesRaw);
-    let studyIdentifiers;
-    const collection_1 = (0, Seq_js_1.map)((a_1) => a_1.Identifier, studiesRaw);
-    studyIdentifiers = Array.from(collection_1);
-    return new ArcTypes_js_1.ArcInvestigation(identifer, (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$.Optional, objectArg_4.Field("submissionDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_5 = get$.Optional, objectArg_5.Field("publicReleaseDate", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_13 = (0, Decode_fs_js_1.resizeArray)(OntologySourceReference_js_1.ISAJson_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("ontologySourceReferences", arg_13)))), (0, Option_js_1.unwrap)((arg_15 = (0, Decode_fs_js_1.resizeArray)(Publication_js_1.ISAJson_decoder), (objectArg_7 = get$.Optional, objectArg_7.Field("publications", arg_15)))), (0, Option_js_1.unwrap)((arg_17 = (0, Decode_fs_js_1.resizeArray)(Person_js_1.ISAJson_decoder), (objectArg_8 = get$.Optional, objectArg_8.Field("people", arg_17)))), assays, studies, undefined, undefined, studyIdentifiers, (0, Option_js_1.unwrap)((arg_19 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.ISAJson_decoder), (objectArg_9 = get$.Optional, objectArg_9.Field("comments", arg_19)))));
-});

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

@@ -1,207 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.OntologyAnnotation_ISAJson_decoder = exports.OntologyAnnotation_ROCrate_decoderPropertyValue = exports.OntologyAnnotation_ROCrate_decoderDefinedTerm = exports.OntologyAnnotation_decoder = exports.AnnotationValue_decoder = void 0;
-exports.OntologyAnnotation_encoder = OntologyAnnotation_encoder;
-exports.OntologyAnnotation_compressedEncoder = OntologyAnnotation_compressedEncoder;
-exports.OntologyAnnotation_compressedDecoder = OntologyAnnotation_compressedDecoder;
-exports.OntologyAnnotation_ROCrate_genID = OntologyAnnotation_ROCrate_genID;
-exports.OntologyAnnotation_ROCrate_encoderDefinedTerm = OntologyAnnotation_ROCrate_encoderDefinedTerm;
-exports.OntologyAnnotation_ROCrate_encoderPropertyValue = OntologyAnnotation_ROCrate_encoderPropertyValue;
-exports.OntologyAnnotation_ISAJson_encoder = OntologyAnnotation_ISAJson_encoder;
-const Decode_fs_js_1 = require("../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js");
-const Util_js_1 = require("@fable-org/fable-library-js/Util.js");
-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 Comment_js_1 = require("./Comment.js");
-const Seq_js_1 = require("@fable-org/fable-library-js/Seq.js");
-const OntologyAnnotation_js_1 = require("../Core/OntologyAnnotation.js");
-const StringTable_js_1 = require("./StringTable.js");
-const String_js_1 = require("@fable-org/fable-library-js/String.js");
-const URI_js_1 = require("../Core/URI.js");
-const isa_ontology_annotation_context_js_1 = require("./context/rocrate/isa_ontology_annotation_context.js");
-const property_value_context_js_1 = require("./context/rocrate/property_value_context.js");
-const ColumnIndex_js_1 = require("../Core/Process/ColumnIndex.js");
-const IDTable_js_1 = require("./IDTable.js");
-exports.AnnotationValue_decoder = (0, Decode_fs_js_1.oneOf)((0, List_js_1.ofArray)([(0, Decode_fs_js_1.map)(Util_js_1.int32ToString, Decode_fs_js_1.int), (0, Decode_fs_js_1.map)((value_1) => value_1.toString(), Decode_fs_js_1.float), Decode_fs_js_1.string]));
-function OntologyAnnotation_encoder(oa) {
-    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)([(0, Encode_js_1.tryInclude)("annotationValue", (value) => ({
-            Encode(helpers) {
-                return helpers.encodeString(value);
-            },
-        }), oa.Name), (0, Encode_js_1.tryInclude)("termSource", (value_2) => ({
-            Encode(helpers_1) {
-                return helpers_1.encodeString(value_2);
-            },
-        }), oa.TermSourceREF), (0, Encode_js_1.tryInclude)("termAccession", (value_4) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_4);
-            },
-        }), oa.TermAccessionNumber), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.encoder, oa.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.OntologyAnnotation_decoder = (0, Decode_fs_js_1.object)((get$) => {
-    let objectArg, objectArg_1, objectArg_2, arg_7, objectArg_3;
-    return OntologyAnnotation_js_1.OntologyAnnotation.create((0, Option_js_1.unwrap)((objectArg = get$.Optional, objectArg.Field("annotationValue", exports.AnnotationValue_decoder))), (0, Option_js_1.unwrap)((objectArg_1 = get$.Optional, objectArg_1.Field("termSource", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_2 = get$.Optional, objectArg_2.Field("termAccession", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_7 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.decoder), (objectArg_3 = get$.Optional, objectArg_3.Field("comments", arg_7)))));
-});
-function OntologyAnnotation_compressedEncoder(stringTable, oa) {
-    const values_1 = (0, List_js_1.choose)((tupledArg) => (0, Option_js_1.map)((v_1) => [tupledArg[0], v_1], tupledArg[1]), (0, List_js_1.ofArray)([(0, Encode_js_1.tryInclude)("a", (s) => (0, StringTable_js_1.encodeString)(stringTable, s), oa.Name), (0, Encode_js_1.tryInclude)("ts", (s_1) => (0, StringTable_js_1.encodeString)(stringTable, s_1), oa.TermSourceREF), (0, Encode_js_1.tryInclude)("ta", (s_2) => (0, StringTable_js_1.encodeString)(stringTable, s_2), oa.TermAccessionNumber), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.encoder, oa.Comments)]));
-    return {
-        Encode(helpers) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers)], values_1);
-            return helpers.encodeObject(arg);
-        },
-    };
-}
-function OntologyAnnotation_compressedDecoder(stringTable) {
-    return (0, Decode_fs_js_1.object)((get$) => {
-        let arg_1, objectArg, arg_3, objectArg_1, arg_5, objectArg_2, arg_7, objectArg_3;
-        return new OntologyAnnotation_js_1.OntologyAnnotation((0, Option_js_1.unwrap)((arg_1 = (0, StringTable_js_1.decodeString)(stringTable), (objectArg = get$.Optional, objectArg.Field("a", arg_1)))), (0, Option_js_1.unwrap)((arg_3 = (0, StringTable_js_1.decodeString)(stringTable), (objectArg_1 = get$.Optional, objectArg_1.Field("ts", arg_3)))), (0, Option_js_1.unwrap)((arg_5 = (0, StringTable_js_1.decodeString)(stringTable), (objectArg_2 = get$.Optional, objectArg_2.Field("ta", arg_5)))), (0, Option_js_1.unwrap)((arg_7 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.decoder), (objectArg_3 = get$.Optional, objectArg_3.Field("comments", arg_7)))));
-    });
-}
-function OntologyAnnotation_ROCrate_genID(o) {
-    const matchValue = o.TermAccessionNumber;
-    if (matchValue == null) {
-        const matchValue_1 = o.TermSourceREF;
-        if (matchValue_1 == null) {
-            const matchValue_2 = o.Name;
-            if (matchValue_2 == null) {
-                return "#DummyOntologyAnnotation";
-            }
-            else {
-                return "#UserTerm_" + (0, String_js_1.replace)((0, Option_js_1.value)(matchValue_2), " ", "_");
-            }
-        }
-        else {
-            return "#" + (0, String_js_1.replace)((0, Option_js_1.value)(matchValue_1), " ", "_");
-        }
-    }
-    else {
-        return (0, URI_js_1.URIModule_toString)((0, Option_js_1.value)(matchValue));
-    }
-}
-function OntologyAnnotation_ROCrate_encoderDefinedTerm(oa) {
-    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)([["@id", (value = OntologyAnnotation_ROCrate_genID(oa), {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], ["@type", {
-                Encode(helpers_1) {
-                    return helpers_1.encodeString("OntologyAnnotation");
-                },
-            }], (0, Encode_js_1.tryInclude)("annotationValue", (value_2) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_2);
-            },
-        }), oa.Name), (0, Encode_js_1.tryInclude)("termSource", (value_4) => ({
-            Encode(helpers_3) {
-                return helpers_3.encodeString(value_4);
-            },
-        }), oa.TermSourceREF), (0, Encode_js_1.tryInclude)("termAccession", (value_6) => ({
-            Encode(helpers_4) {
-                return helpers_4.encodeString(value_6);
-            },
-        }), oa.TermAccessionNumber), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.ROCrate_encoderDisambiguatingDescription, oa.Comments), ["@context", isa_ontology_annotation_context_js_1.context_jsonvalue]]));
-    return {
-        Encode(helpers_5) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_5)], values_1);
-            return helpers_5.encodeObject(arg);
-        },
-    };
-}
-exports.OntologyAnnotation_ROCrate_decoderDefinedTerm = (0, Decode_fs_js_1.object)((get$) => {
-    let objectArg, objectArg_1, objectArg_2, arg_7, objectArg_3;
-    return OntologyAnnotation_js_1.OntologyAnnotation.create((0, Option_js_1.unwrap)((objectArg = get$.Optional, objectArg.Field("annotationValue", exports.AnnotationValue_decoder))), (0, Option_js_1.unwrap)((objectArg_1 = get$.Optional, objectArg_1.Field("termSource", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((objectArg_2 = get$.Optional, objectArg_2.Field("termAccession", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_7 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.ROCrate_decoderDisambiguatingDescription), (objectArg_3 = get$.Optional, objectArg_3.Field("comments", arg_7)))));
-});
-function OntologyAnnotation_ROCrate_encoderPropertyValue(oa) {
-    let value;
-    const values_1 = (0, List_js_1.choose)((tupledArg) => (0, Option_js_1.map)((v_1) => [tupledArg[0], v_1], tupledArg[1]), (0, List_js_1.ofArray)([["@id", (value = OntologyAnnotation_ROCrate_genID(oa), {
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            })], ["@type", {
-                Encode(helpers_1) {
-                    return helpers_1.encodeString("PropertyValue");
-                },
-            }], (0, Encode_js_1.tryInclude)("category", (value_2) => ({
-            Encode(helpers_2) {
-                return helpers_2.encodeString(value_2);
-            },
-        }), oa.Name), (0, Encode_js_1.tryInclude)("categoryCode", (value_4) => ({
-            Encode(helpers_3) {
-                return helpers_3.encodeString(value_4);
-            },
-        }), oa.TermAccessionNumber), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.ROCrate_encoderDisambiguatingDescription, oa.Comments), ["@context", property_value_context_js_1.context_jsonvalue]]));
-    return {
-        Encode(helpers_4) {
-            const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_4)], values_1);
-            return helpers_4.encodeObject(arg);
-        },
-    };
-}
-exports.OntologyAnnotation_ROCrate_decoderPropertyValue = (0, Decode_fs_js_1.object)((get$) => {
-    let objectArg, objectArg_1, arg_5, objectArg_2;
-    return OntologyAnnotation_js_1.OntologyAnnotation.create((0, Option_js_1.unwrap)((objectArg = get$.Optional, objectArg.Field("category", Decode_fs_js_1.string))), undefined, (0, Option_js_1.unwrap)((objectArg_1 = get$.Optional, objectArg_1.Field("categoryCode", Decode_fs_js_1.string))), (0, Option_js_1.unwrap)((arg_5 = (0, Decode_fs_js_1.resizeArray)(Comment_js_1.ROCrate_decoderDisambiguatingDescription), (objectArg_2 = get$.Optional, objectArg_2.Field("comments", arg_5)))));
-});
-function OntologyAnnotation_ISAJson_encoder(idMap, oa) {
-    const f = (oa_1) => {
-        const comments = (0, Seq_js_1.filter)((c) => {
-            const matchValue = c.Name;
-            let matchResult, n_1;
-            if (matchValue != null) {
-                if ((0, Option_js_1.value)(matchValue) === ColumnIndex_js_1.orderName) {
-                    matchResult = 0;
-                    n_1 = (0, Option_js_1.value)(matchValue);
-                }
-                else {
-                    matchResult = 1;
-                }
-            }
-            else {
-                matchResult = 1;
-            }
-            switch (matchResult) {
-                case 0:
-                    return false;
-                default:
-                    return true;
-            }
-        }, oa_1.Comments);
-        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)([(0, Encode_js_1.tryInclude)("@id", (value) => ({
-                Encode(helpers) {
-                    return helpers.encodeString(value);
-                },
-            }), OntologyAnnotation_ROCrate_genID(oa_1)), (0, Encode_js_1.tryInclude)("annotationValue", (value_2) => ({
-                Encode(helpers_1) {
-                    return helpers_1.encodeString(value_2);
-                },
-            }), oa_1.Name), (0, Encode_js_1.tryInclude)("termSource", (value_4) => ({
-                Encode(helpers_2) {
-                    return helpers_2.encodeString(value_4);
-                },
-            }), oa_1.TermSourceREF), (0, Encode_js_1.tryInclude)("termAccession", (value_6) => ({
-                Encode(helpers_3) {
-                    return helpers_3.encodeString(value_6);
-                },
-            }), oa_1.TermAccessionNumber), (0, Encode_js_1.tryIncludeSeq)("comments", Comment_js_1.encoder, comments)]));
-        return {
-            Encode(helpers_4) {
-                const arg = (0, Seq_js_1.map)((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_4)], values_1);
-                return helpers_4.encodeObject(arg);
-            },
-        };
-    };
-    if (idMap != null) {
-        return (0, IDTable_js_1.encode)(OntologyAnnotation_ROCrate_genID, f, oa, (0, Option_js_1.value)(idMap));
-    }
-    else {
-        return f(oa);
-    }
-}
-exports.OntologyAnnotation_ISAJson_decoder = exports.OntologyAnnotation_decoder;