@nfdi4plants/arctrl 1.0.0-beta.1 → 1.0.0-beta.2

package/ISA/ISA/ArcTypes/ArcTypes.js

@@ -1,26 +1,26 @@
-import { map as map_1, defaultArg, unwrap } from "../../../fable_modules/fable-library.4.1.4/Option.js";
-import { concat, collect, append as append_4, tryFind, removeAt, tryFindIndex, item, map as map_2, delay, toList, fold, length, forAll, contains, filter, toArray } from "../../../fable_modules/fable-library.4.1.4/Seq.js";
-import { defaultOf, safeHash, equals, disposeSafe, getEnumerator, stringHash } from "../../../fable_modules/fable-library.4.1.4/Util.js";
-import { addRangeInPlace, tryFind as tryFind_1, removeInPlace, equalsWith, append as append_3, contains as contains_1, map } from "../../../fable_modules/fable-library.4.1.4/Array.js";
-import { distinctBy, Array_distinct } from "../../../fable_modules/fable-library.4.1.4/Seq2.js";
-import { printf, toText } from "../../../fable_modules/fable-library.4.1.4/String.js";
-import { create, match } from "../../../fable_modules/fable-library.4.1.4/RegExp.js";
+import { map as map_1, defaultArg, unwrap } from "../../../fable_modules/fable-library.4.4.1/Option.js";
+import { concat, collect, append as append_4, tryFind, removeAt, tryFindIndex, item as item_1, map as map_2, delay, toList, fold, length, forAll, contains, filter, toArray } from "../../../fable_modules/fable-library.4.4.1/Seq.js";
+import { defaultOf, safeHash, equals, disposeSafe, getEnumerator, stringHash } from "../../../fable_modules/fable-library.4.4.1/Util.js";
+import { addRangeInPlace, tryFind as tryFind_1, removeInPlace, equalsWith, append as append_3, contains as contains_1, map } from "../../../fable_modules/fable-library.4.4.1/Array.js";
+import { distinctBy, Array_distinct } from "../../../fable_modules/fable-library.4.4.1/Seq2.js";
+import { printf, toText } from "../../../fable_modules/fable-library.4.4.1/String.js";
+import { create, match } from "../../../fable_modules/fable-library.4.4.1/RegExp.js";
 import { OntologyAnnotation } from "../JsonTypes/OntologyAnnotation.js";
 import { Value_fromString_Z721C83C5, Value__get_Text } from "../JsonTypes/Value.js";
 import { AnnotationValue } from "../JsonTypes/AnnotationValue.js";
 import { ArcTablesAux_applyIOMap, ArcTablesAux_getIOMap, ArcTables_$reflection, ArcTables } from "./ArcTables.js";
 import { AssayMaterials_get_empty, AssayMaterials_create_Z253F0553 } from "../JsonTypes/AssayMaterials.js";
 import { HashCodes_boxHashOption, HashCodes_boxHashArray, Option_fromValueWithDefault } from "../Helper.js";
-import { unzip, ofSeq, map as map_3, toArray as toArray_1, ofArray, empty } from "../../../fable_modules/fable-library.4.1.4/List.js";
+import { unzip, ofSeq, map as map_3, toArray as toArray_1, ofArray, empty } from "../../../fable_modules/fable-library.4.4.1/List.js";
 import { getSources, getProtocols, getUnits, getCharacteristics, getData, getMaterials, getSamples } from "../JsonTypes/ProcessSequence.js";
 import { Assay_create_3D372A24 } from "../JsonTypes/Assay.js";
 import { Study_identifierFromFileName, Study_fileNameFromIdentifier, Assay_identifierFromFileName, createMissingIdentifier, Assay_fileNameFromIdentifier, isMissingIdentifier } from "../Identifier.js";
-import { rangeDouble } from "../../../fable_modules/fable-library.4.1.4/Range.js";
-import { class_type } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
+import { rangeDouble } from "../../../fable_modules/fable-library.4.4.1/Range.js";
+import { class_type } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
 import { StudyMaterials_get_empty, StudyMaterials_create_1BE9FA55 } from "../JsonTypes/StudyMaterials.js";
 import { Study_create_Z2D28E954 } from "../JsonTypes/Study.js";
 import { Investigation_create_4AD66BBE } from "../JsonTypes/Investigation.js";
-import { FSharpRef } from "../../../fable_modules/fable-library.4.1.4/Types.js";
+import { FSharpRef } from "../../../fable_modules/fable-library.4.4.1/Types.js";
 
 export class ArcAssay extends ArcTables {
     constructor(identifier, measurementType, technologyType, technologyPlatform, tables, performers, comments) {
@@ -357,11 +357,11 @@ export class ArcAssay extends ArcTables {
         }
         const nextComments = map((c) => c.Copy(), this$.Comments);
         const nextPerformers = map((c_1) => c_1.Copy(), this$.Performers);
-        const arg = this$.Identifier;
-        const arg_1 = this$.MeasurementType;
-        const arg_2 = this$.TechnologyType;
-        const arg_3 = this$.TechnologyPlatform;
-        return ArcAssay.make(arg, arg_1, arg_2, arg_3, nextTables, nextPerformers, nextComments);
+        const identifier = this$.Identifier;
+        const measurementType = this$.MeasurementType;
+        const technologyType = this$.TechnologyType;
+        const technologyPlatform = this$.TechnologyPlatform;
+        return ArcAssay.make(identifier, measurementType, technologyType, technologyPlatform, nextTables, nextPerformers, nextComments);
     }
     UpdateBy(assay, onlyReplaceExisting, appendSequences) {
         const this$ = this;
@@ -444,8 +444,8 @@ export class ArcAssay extends ArcTables {
         const r = match(create("(?<value>[^\\(]+) \\((?<ontology>[^(]*:[^)]*)\\)"), name);
         if (r != null) {
             let oa;
-            const arg = (r.groups && r.groups.ontology) || "";
-            oa = OntologyAnnotation.fromTermAnnotation(arg);
+            const termAnnotation = (r.groups && r.groups.ontology) || "";
+            oa = OntologyAnnotation.fromTermAnnotation(termAnnotation);
             return new OntologyAnnotation(oa.ID, new AnnotationValue(0, [Value__get_Text(Value_fromString_Z721C83C5((r.groups && r.groups.value) || ""))]), oa.TermSourceREF, oa.TermAccessionNumber, oa.Comments);
         }
         else {
@@ -488,17 +488,17 @@ export class ArcAssay extends ArcTables {
         let assayMaterials;
         const v_2 = AssayMaterials_create_Z253F0553(unwrap(Option_fromValueWithDefault(empty(), getSamples(processSeq))), unwrap(Option_fromValueWithDefault(empty(), getMaterials(processSeq))));
         assayMaterials = Option_fromValueWithDefault(AssayMaterials_get_empty(), v_2);
-        return Assay_create_3D372A24(void 0, unwrap(isMissingIdentifier(this$.Identifier) ? void 0 : Assay_fileNameFromIdentifier(this$.Identifier)), unwrap(this$.MeasurementType), unwrap(this$.TechnologyType), unwrap(map_1((arg) => ArcAssay.composeTechnologyPlatform(arg), this$.TechnologyPlatform)), unwrap(Option_fromValueWithDefault(empty(), getData(processSeq))), unwrap(assayMaterials), unwrap(Option_fromValueWithDefault(empty(), getCharacteristics(processSeq))), unwrap(Option_fromValueWithDefault(empty(), getUnits(processSeq))), unwrap(Option_fromValueWithDefault(empty(), processSeq)), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.Comments))));
+        return Assay_create_3D372A24(void 0, unwrap(isMissingIdentifier(this$.Identifier) ? void 0 : Assay_fileNameFromIdentifier(this$.Identifier)), unwrap(this$.MeasurementType), unwrap(this$.TechnologyType), unwrap(map_1((tp) => ArcAssay.composeTechnologyPlatform(tp), this$.TechnologyPlatform)), unwrap(Option_fromValueWithDefault(empty(), getData(processSeq))), unwrap(assayMaterials), unwrap(Option_fromValueWithDefault(empty(), getCharacteristics(processSeq))), unwrap(Option_fromValueWithDefault(empty(), getUnits(processSeq))), unwrap(Option_fromValueWithDefault(empty(), processSeq)), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.Comments))));
     }
     static fromAssay(a) {
-        const tables = map_1((arg_1) => {
-            const t = ArcTables.fromProcesses(arg_1);
+        const tables = map_1((arg) => {
+            const t = ArcTables.fromProcesses(arg);
             return t.Tables;
         }, a.ProcessSequence);
         let identifer;
         const matchValue = a.FileName;
         identifer = ((matchValue == null) ? createMissingIdentifier() : Assay_identifierFromFileName(matchValue));
-        return ArcAssay.create(identifer, unwrap(map_1((x) => x.Copy(), a.MeasurementType)), unwrap(map_1((x_1) => x_1.Copy(), a.TechnologyType)), unwrap(map_1((arg_2) => ArcAssay.decomposeTechnologyPlatform(arg_2), a.TechnologyPlatform)), unwrap(tables), void 0, unwrap(map_1(toArray_1, a.Comments)));
+        return ArcAssay.create(identifer, unwrap(map_1((x) => x.Copy(), a.MeasurementType)), unwrap(map_1((x_1) => x_1.Copy(), a.TechnologyType)), unwrap(map_1((name) => ArcAssay.decomposeTechnologyPlatform(name), a.TechnologyPlatform)), unwrap(tables), void 0, unwrap(map_1(toArray_1, a.Comments)));
     }
     StructurallyEquals(other) {
         let a, b, a_1, b_1, a_2, b_2;
@@ -510,21 +510,21 @@ export class ArcAssay extends ArcTables {
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_1) => equals(item(i_1, a), item(i_1, b)), rangeDouble(0, 1, length(a) - 1))))))), (a_1 = this$.Performers, (b_1 = other.Performers, (length(a_1) === length(b_1)) && fold((acc_1, e_1) => {
+        }, true, toList(delay(() => map_2((i_1) => equals(item_1(i_1, a), item_1(i_1, b)), rangeDouble(0, 1, length(a) - 1))))))), (a_1 = this$.Performers, (b_1 = other.Performers, (length(a_1) === length(b_1)) && fold((acc_1, e_1) => {
             if (acc_1) {
                 return e_1;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_2) => equals(item(i_2, a_1), item(i_2, b_1)), rangeDouble(0, 1, length(a_1) - 1))))))), (a_2 = this$.Comments, (b_2 = other.Comments, (length(a_2) === length(b_2)) && fold((acc_2, e_2) => {
+        }, true, toList(delay(() => map_2((i_2) => equals(item_1(i_2, a_1), item_1(i_2, b_1)), rangeDouble(0, 1, length(a_1) - 1))))))), (a_2 = this$.Comments, (b_2 = other.Comments, (length(a_2) === length(b_2)) && fold((acc_2, e_2) => {
             if (acc_2) {
                 return e_2;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_3) => equals(item(i_3, a_2), item(i_3, b_2)), rangeDouble(0, 1, length(a_2) - 1)))))))]);
+        }, true, toList(delay(() => map_2((i_3) => equals(item_1(i_3, a_2), item_1(i_3, b_2)), rangeDouble(0, 1, length(a_2) - 1)))))))]);
     }
     ReferenceEquals(other) {
         const this$ = this;
@@ -812,8 +812,8 @@ export class ArcStudy extends ArcTables {
         const this$ = this;
         const matchValue = this$.Investigation;
         if (matchValue == null) {
-            const arg = map_2((identifier) => ArcAssay.init(identifier), this$.RegisteredAssayIdentifiers);
-            return Array.from(arg);
+            const collection = map_2((identifier) => ArcAssay.init(identifier), this$.RegisteredAssayIdentifiers);
+            return Array.from(collection);
         }
         else {
             const i = matchValue;
@@ -1071,12 +1071,12 @@ export class ArcStudy extends ArcTables {
         const nextContacts = map((c_2) => c_2.Copy(), this$.Contacts);
         const nextPublications = map((c_3) => c_3.Copy(), this$.Publications);
         const nextStudyDesignDescriptors = map((c_4) => c_4.Copy(), this$.StudyDesignDescriptors);
-        const arg = this$.Identifier;
-        const arg_1 = this$.Title;
-        const arg_2 = this$.Description;
-        const arg_3 = this$.SubmissionDate;
-        const arg_4 = this$.PublicReleaseDate;
-        return ArcStudy.make(arg, arg_1, arg_2, arg_3, arg_4, nextPublications, nextContacts, nextStudyDesignDescriptors, nextTables, nextAssayIdentifiers, nextFactors, nextComments);
+        const identifier = this$.Identifier;
+        const title = this$.Title;
+        const description = this$.Description;
+        const submissionDate = this$.SubmissionDate;
+        const publicReleaseDate = this$.PublicReleaseDate;
+        return ArcStudy.make(identifier, title, description, submissionDate, publicReleaseDate, nextPublications, nextContacts, nextStudyDesignDescriptors, nextTables, nextAssayIdentifiers, nextFactors, nextComments);
     }
     UpdateReferenceByStudyFile(study, onlyReplaceExisting, keepUnusedRefTables) {
         const this$ = this;
@@ -1128,20 +1128,20 @@ export class ArcStudy extends ArcTables {
         return Study_create_Z2D28E954(void 0, unwrap(patternInput[1]), unwrap(patternInput[0]), unwrap(this$.Title), unwrap(this$.Description), unwrap(this$.SubmissionDate), unwrap(this$.PublicReleaseDate), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.Publications))), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.Contacts))), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.StudyDesignDescriptors))), unwrap(protocols), unwrap(studyMaterials), unwrap(Option_fromValueWithDefault(empty(), processSeq)), unwrap(Option_fromValueWithDefault(empty(), assays)), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.Factors))), unwrap(Option_fromValueWithDefault(empty(), getCharacteristics(processSeq))), unwrap(Option_fromValueWithDefault(empty(), getUnits(processSeq))), unwrap(Option_fromValueWithDefault(empty(), ofArray(this$.Comments))));
     }
     static fromStudy(s) {
-        const tables = map_1((arg_1) => {
-            const t = ArcTables.fromProcesses(arg_1);
+        const tables = map_1((arg) => {
+            const t = ArcTables.fromProcesses(arg);
             return t.Tables;
         }, s.ProcessSequence);
         let identifer;
         const matchValue = s.FileName;
         identifer = ((matchValue == null) ? createMissingIdentifier() : Study_identifierFromFileName(matchValue));
-        const assays = defaultArg(map_1((arg_4) => {
-            const arg_3 = map_3((arg_2) => ArcAssay.fromAssay(arg_2), arg_4);
-            return Array.from(arg_3);
+        const assays = defaultArg(map_1((arg_1) => {
+            const collection = map_3((a) => ArcAssay.fromAssay(a), arg_1);
+            return Array.from(collection);
         }, s.Assays), []);
         let assaysIdentifiers;
-        const arg_5 = map_2((a) => a.Identifier, assays);
-        assaysIdentifiers = Array.from(arg_5);
+        const collection_1 = map_2((a_1) => a_1.Identifier, assays);
+        assaysIdentifiers = Array.from(collection_1);
         return [ArcStudy.create(identifer, unwrap(s.Title), unwrap(s.Description), unwrap(s.SubmissionDate), unwrap(s.PublicReleaseDate), unwrap(map_1(toArray_1, s.Publications)), unwrap(map_1(toArray_1, s.Contacts)), unwrap(map_1(toArray_1, s.StudyDesignDescriptors)), unwrap(tables), assaysIdentifiers, unwrap(map_1(toArray_1, s.Factors)), unwrap(map_1(toArray_1, s.Comments))), assays];
     }
     StructurallyEquals(other) {
@@ -1154,49 +1154,49 @@ export class ArcStudy extends ArcTables {
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_1) => equals(item(i_1, a), item(i_1, b)), rangeDouble(0, 1, length(a) - 1))))))), (a_1 = this$.Contacts, (b_1 = other.Contacts, (length(a_1) === length(b_1)) && fold((acc_1, e_1) => {
+        }, true, toList(delay(() => map_2((i_1) => equals(item_1(i_1, a), item_1(i_1, b)), rangeDouble(0, 1, length(a) - 1))))))), (a_1 = this$.Contacts, (b_1 = other.Contacts, (length(a_1) === length(b_1)) && fold((acc_1, e_1) => {
             if (acc_1) {
                 return e_1;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_2) => equals(item(i_2, a_1), item(i_2, b_1)), rangeDouble(0, 1, length(a_1) - 1))))))), (a_2 = this$.StudyDesignDescriptors, (b_2 = other.StudyDesignDescriptors, (length(a_2) === length(b_2)) && fold((acc_2, e_2) => {
+        }, true, toList(delay(() => map_2((i_2) => equals(item_1(i_2, a_1), item_1(i_2, b_1)), rangeDouble(0, 1, length(a_1) - 1))))))), (a_2 = this$.StudyDesignDescriptors, (b_2 = other.StudyDesignDescriptors, (length(a_2) === length(b_2)) && fold((acc_2, e_2) => {
             if (acc_2) {
                 return e_2;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_3) => equals(item(i_3, a_2), item(i_3, b_2)), rangeDouble(0, 1, length(a_2) - 1))))))), (a_3 = this$.Tables, (b_3 = other.Tables, (length(a_3) === length(b_3)) && fold((acc_3, e_3) => {
+        }, true, toList(delay(() => map_2((i_3) => equals(item_1(i_3, a_2), item_1(i_3, b_2)), rangeDouble(0, 1, length(a_2) - 1))))))), (a_3 = this$.Tables, (b_3 = other.Tables, (length(a_3) === length(b_3)) && fold((acc_3, e_3) => {
             if (acc_3) {
                 return e_3;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_4) => equals(item(i_4, a_3), item(i_4, b_3)), rangeDouble(0, 1, length(a_3) - 1))))))), (a_4 = this$.RegisteredAssayIdentifiers, (b_4 = other.RegisteredAssayIdentifiers, (length(a_4) === length(b_4)) && fold((acc_4, e_4) => {
+        }, true, toList(delay(() => map_2((i_4) => equals(item_1(i_4, a_3), item_1(i_4, b_3)), rangeDouble(0, 1, length(a_3) - 1))))))), (a_4 = this$.RegisteredAssayIdentifiers, (b_4 = other.RegisteredAssayIdentifiers, (length(a_4) === length(b_4)) && fold((acc_4, e_4) => {
             if (acc_4) {
                 return e_4;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_5) => (item(i_5, a_4) === item(i_5, b_4)), rangeDouble(0, 1, length(a_4) - 1))))))), (a_5 = this$.Factors, (b_5 = other.Factors, (length(a_5) === length(b_5)) && fold((acc_5, e_5) => {
+        }, true, toList(delay(() => map_2((i_5) => (item_1(i_5, a_4) === item_1(i_5, b_4)), rangeDouble(0, 1, length(a_4) - 1))))))), (a_5 = this$.Factors, (b_5 = other.Factors, (length(a_5) === length(b_5)) && fold((acc_5, e_5) => {
             if (acc_5) {
                 return e_5;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_6) => equals(item(i_6, a_5), item(i_6, b_5)), rangeDouble(0, 1, length(a_5) - 1))))))), (a_6 = this$.Comments, (b_6 = other.Comments, (length(a_6) === length(b_6)) && fold((acc_6, e_6) => {
+        }, true, toList(delay(() => map_2((i_6) => equals(item_1(i_6, a_5), item_1(i_6, b_5)), rangeDouble(0, 1, length(a_5) - 1))))))), (a_6 = this$.Comments, (b_6 = other.Comments, (length(a_6) === length(b_6)) && fold((acc_6, e_6) => {
             if (acc_6) {
                 return e_6;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_7) => equals(item(i_7, a_6), item(i_7, b_6)), rangeDouble(0, 1, length(a_6) - 1)))))))]);
+        }, true, toList(delay(() => map_2((i_7) => equals(item_1(i_7, a_6), item_1(i_7, b_6)), rangeDouble(0, 1, length(a_6) - 1)))))))]);
     }
     ReferenceEquals(other) {
         const this$ = this;
@@ -1517,8 +1517,8 @@ export class ArcInvestigation {
     }
     get RegisteredStudies() {
         const this$ = this;
-        const arg = map_2((identifier) => this$.GetStudy(identifier), this$.RegisteredStudyIdentifiers);
-        return Array.from(arg);
+        const collection = map_2((identifier) => this$.GetStudy(identifier), this$.RegisteredStudyIdentifiers);
+        return Array.from(collection);
     }
     get StudyCount() {
         const this$ = this;
@@ -1830,9 +1830,9 @@ export class ArcInvestigation {
         };
     }
     UpdateIOTypeByEntityID() {
-        let arg;
+        let collection;
         const this$ = this;
-        const ioMap = ArcTablesAux_getIOMap((arg = toList(delay(() => append_4(collect((study) => study.Tables, this$.Studies), delay(() => collect((assay) => assay.Tables, this$.Assays))))), Array.from(arg)));
+        const ioMap = ArcTablesAux_getIOMap((collection = toList(delay(() => append_4(collect((study) => study.Tables, this$.Studies), delay(() => collect((assay) => assay.Tables, this$.Assays))))), Array.from(collection)));
         let enumerator = getEnumerator(this$.Studies);
         try {
             while (enumerator["System.Collections.IEnumerator.MoveNext"]()) {
@@ -1897,18 +1897,18 @@ export class ArcInvestigation {
         let identifer;
         const matchValue = i.Identifier;
         identifer = ((matchValue == null) ? createMissingIdentifier() : matchValue);
-        const patternInput = unzip(map_3((arg) => ArcStudy.fromStudy(arg), defaultArg(i.Studies, empty())));
+        const patternInput = unzip(map_3((s) => ArcStudy.fromStudy(s), defaultArg(i.Studies, empty())));
         const studiesRaw = patternInput[0];
         const studies = Array.from(studiesRaw);
         let studyIdentifiers;
-        const arg_1 = map_2((a) => a.Identifier, studiesRaw);
-        studyIdentifiers = Array.from(arg_1);
+        const collection = map_2((a) => a.Identifier, studiesRaw);
+        studyIdentifiers = Array.from(collection);
         let assays;
-        const arg_2 = distinctBy((a_1) => a_1.Identifier, concat(patternInput[1]), {
+        const collection_1 = distinctBy((a_1) => a_1.Identifier, concat(patternInput[1]), {
             Equals: (x, y) => (x === y),
             GetHashCode: stringHash,
         });
-        assays = Array.from(arg_2);
+        assays = Array.from(collection_1);
         return ArcInvestigation.create(identifer, i.Title, i.Description, i.SubmissionDate, i.PublicReleaseDate, void 0, map_1(toArray_1, i.Publications), map_1(toArray_1, i.Contacts), assays, studies, studyIdentifiers, map_1(toArray_1, i.Comments));
     }
     StructurallyEquals(other) {
@@ -1921,56 +1921,56 @@ export class ArcInvestigation {
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_1) => equals(item(i_1, a), item(i_1, b)), rangeDouble(0, 1, length(a) - 1))))))), (a_1 = this$.Contacts, (b_1 = other.Contacts, (length(a_1) === length(b_1)) && fold((acc_1, e_1) => {
+        }, true, toList(delay(() => map_2((i_1) => equals(item_1(i_1, a), item_1(i_1, b)), rangeDouble(0, 1, length(a) - 1))))))), (a_1 = this$.Contacts, (b_1 = other.Contacts, (length(a_1) === length(b_1)) && fold((acc_1, e_1) => {
             if (acc_1) {
                 return e_1;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_2) => equals(item(i_2, a_1), item(i_2, b_1)), rangeDouble(0, 1, length(a_1) - 1))))))), (a_2 = this$.OntologySourceReferences, (b_2 = other.OntologySourceReferences, (length(a_2) === length(b_2)) && fold((acc_2, e_2) => {
+        }, true, toList(delay(() => map_2((i_2) => equals(item_1(i_2, a_1), item_1(i_2, b_1)), rangeDouble(0, 1, length(a_1) - 1))))))), (a_2 = this$.OntologySourceReferences, (b_2 = other.OntologySourceReferences, (length(a_2) === length(b_2)) && fold((acc_2, e_2) => {
             if (acc_2) {
                 return e_2;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_3) => equals(item(i_3, a_2), item(i_3, b_2)), rangeDouble(0, 1, length(a_2) - 1))))))), (a_3 = this$.Assays, (b_3 = other.Assays, (length(a_3) === length(b_3)) && fold((acc_3, e_3) => {
+        }, true, toList(delay(() => map_2((i_3) => equals(item_1(i_3, a_2), item_1(i_3, b_2)), rangeDouble(0, 1, length(a_2) - 1))))))), (a_3 = this$.Assays, (b_3 = other.Assays, (length(a_3) === length(b_3)) && fold((acc_3, e_3) => {
             if (acc_3) {
                 return e_3;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_4) => equals(item(i_4, a_3), item(i_4, b_3)), rangeDouble(0, 1, length(a_3) - 1))))))), (a_4 = this$.Studies, (b_4 = other.Studies, (length(a_4) === length(b_4)) && fold((acc_4, e_4) => {
+        }, true, toList(delay(() => map_2((i_4) => equals(item_1(i_4, a_3), item_1(i_4, b_3)), rangeDouble(0, 1, length(a_3) - 1))))))), (a_4 = this$.Studies, (b_4 = other.Studies, (length(a_4) === length(b_4)) && fold((acc_4, e_4) => {
             if (acc_4) {
                 return e_4;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_5) => equals(item(i_5, a_4), item(i_5, b_4)), rangeDouble(0, 1, length(a_4) - 1))))))), (a_5 = this$.RegisteredStudyIdentifiers, (b_5 = other.RegisteredStudyIdentifiers, (length(a_5) === length(b_5)) && fold((acc_5, e_5) => {
+        }, true, toList(delay(() => map_2((i_5) => equals(item_1(i_5, a_4), item_1(i_5, b_4)), rangeDouble(0, 1, length(a_4) - 1))))))), (a_5 = this$.RegisteredStudyIdentifiers, (b_5 = other.RegisteredStudyIdentifiers, (length(a_5) === length(b_5)) && fold((acc_5, e_5) => {
             if (acc_5) {
                 return e_5;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_6) => (item(i_6, a_5) === item(i_6, b_5)), rangeDouble(0, 1, length(a_5) - 1))))))), (a_6 = this$.Comments, (b_6 = other.Comments, (length(a_6) === length(b_6)) && fold((acc_6, e_6) => {
+        }, true, toList(delay(() => map_2((i_6) => (item_1(i_6, a_5) === item_1(i_6, b_5)), rangeDouble(0, 1, length(a_5) - 1))))))), (a_6 = this$.Comments, (b_6 = other.Comments, (length(a_6) === length(b_6)) && fold((acc_6, e_6) => {
             if (acc_6) {
                 return e_6;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_7) => equals(item(i_7, a_6), item(i_7, b_6)), rangeDouble(0, 1, length(a_6) - 1))))))), (a_7 = this$.Remarks, (b_7 = other.Remarks, (length(a_7) === length(b_7)) && fold((acc_7, e_7) => {
+        }, true, toList(delay(() => map_2((i_7) => equals(item_1(i_7, a_6), item_1(i_7, b_6)), rangeDouble(0, 1, length(a_6) - 1))))))), (a_7 = this$.Remarks, (b_7 = other.Remarks, (length(a_7) === length(b_7)) && fold((acc_7, e_7) => {
             if (acc_7) {
                 return e_7;
             }
             else {
                 return false;
             }
-        }, true, toList(delay(() => map_2((i_8) => equals(item(i_8, a_7), item(i_8, b_7)), rangeDouble(0, 1, length(a_7) - 1)))))))]);
+        }, true, toList(delay(() => map_2((i_8) => equals(item_1(i_8, a_7), item_1(i_8, b_7)), rangeDouble(0, 1, length(a_7) - 1)))))))]);
     }
     ReferenceEquals(other) {
         const this$ = this;

package/ISA/ISA/ArcTypes/CompositeCell.js

@@ -1,9 +1,9 @@
-import { int32ToString } from "../../../fable_modules/fable-library.4.1.4/Util.js";
-import { defaultArg } from "../../../fable_modules/fable-library.4.1.4/Option.js";
+import { int32ToString } from "../../../fable_modules/fable-library.4.4.1/Util.js";
+import { defaultArg } from "../../../fable_modules/fable-library.4.4.1/Option.js";
 import { OntologyAnnotation_$reflection, OntologyAnnotation } from "../JsonTypes/OntologyAnnotation.js";
 import { AnnotationValue } from "../JsonTypes/AnnotationValue.js";
-import { Union } from "../../../fable_modules/fable-library.4.1.4/Types.js";
-import { union_type, string_type } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
+import { Union } from "../../../fable_modules/fable-library.4.4.1/Types.js";
+import { union_type, string_type } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
 
 export class CompositeCell extends Union {
     constructor(tag, fields) {

package/ISA/ISA/ArcTypes/CompositeColumn.js

@@ -1,9 +1,9 @@
-import { defaultArg } from "../../../fable_modules/fable-library.4.1.4/Option.js";
-import { empty, singleton, collect, delay, toArray } from "../../../fable_modules/fable-library.4.1.4/Seq.js";
-import { Record } from "../../../fable_modules/fable-library.4.1.4/Types.js";
+import { defaultArg } from "../../../fable_modules/fable-library.4.4.1/Option.js";
+import { empty, singleton, collect, delay, toArray } from "../../../fable_modules/fable-library.4.4.1/Seq.js";
+import { Record } from "../../../fable_modules/fable-library.4.4.1/Types.js";
 import { CompositeHeader_$reflection } from "./CompositeHeader.js";
 import { CompositeCell_$reflection } from "./CompositeCell.js";
-import { record_type, array_type } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
+import { record_type, array_type } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
 
 export class CompositeColumn extends Record {
     constructor(Header, Cells) {

package/ISA/ISA/ArcTypes/CompositeHeader.js

@@ -1,9 +1,9 @@
-import { map } from "../../../fable_modules/fable-library.4.1.4/Array.js";
-import { union_type, string_type, getUnionCases, name } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
-import { Union, toString } from "../../../fable_modules/fable-library.4.1.4/Types.js";
+import { map } from "../../../fable_modules/fable-library.4.4.1/Array.js";
+import { union_type, string_type, getUnionCases, name } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
+import { Union, toString } from "../../../fable_modules/fable-library.4.4.1/Types.js";
 import { ActivePatterns_$007CTermColumn$007C_$007C, Pattern_OutputPattern, Pattern_InputPattern, ActivePatterns_$007CRegex$007C_$007C, tryParseIOTypeHeader } from "../Regex.js";
-import { equals } from "../../../fable_modules/fable-library.4.1.4/Util.js";
-import { printf, toFail } from "../../../fable_modules/fable-library.4.1.4/String.js";
+import { equals } from "../../../fable_modules/fable-library.4.4.1/Util.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.4.1/String.js";
 import { OntologyAnnotation_$reflection, OntologyAnnotation } from "../JsonTypes/OntologyAnnotation.js";
 import { ProtocolParameter_create_Z6C54B221 } from "../JsonTypes/ProtocolParameter.js";
 import { Factor } from "../JsonTypes/Factor.js";

package/ISA/ISA/ArcTypes/CompositeRow.js

@@ -1,4 +1,4 @@
-import { fold } from "../../../fable_modules/fable-library.4.1.4/Seq.js";
+import { fold } from "../../../fable_modules/fable-library.4.4.1/Seq.js";
 import { Protocol_create_Z7DFD6E67, Protocol_addComponent, Protocol_addParameter, Protocol_setName, Protocol_setDescription, Protocol_setUri, Protocol_setVersion, Protocol_setProtocolType } from "../JsonTypes/Protocol.js";
 import { ProtocolParameter_create_Z6C54B221 } from "../JsonTypes/ProtocolParameter.js";
 import { Component_create_61502994 } from "../JsonTypes/Component.js";

package/ISA/ISA/Builder/Types.js

@@ -1,15 +1,15 @@
-import { Union } from "../../../fable_modules/fable-library.4.1.4/Types.js";
-import { list_type, union_type, string_type } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
+import { Union } from "../../../fable_modules/fable-library.4.4.1/Types.js";
+import { list_type, union_type, string_type } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
 import { OntologyAnnotation_$reflection } from "../JsonTypes/OntologyAnnotation.js";
 import { Protocol_get_empty, Protocol } from "../JsonTypes/Protocol.js";
 import { ProcessParameterValue_$reflection } from "../JsonTypes/ProcessParameterValue.js";
 import { MaterialAttributeValue_$reflection } from "../JsonTypes/MaterialAttributeValue.js";
 import { FactorValue_$reflection } from "../JsonTypes/FactorValue.js";
-import { map as map_1, exists, fold, singleton, empty, append } from "../../../fable_modules/fable-library.4.1.4/List.js";
-import { map, value as value_4, defaultArg } from "../../../fable_modules/fable-library.4.1.4/Option.js";
+import { map as map_1, exists, fold, singleton, empty, append } from "../../../fable_modules/fable-library.4.4.1/List.js";
+import { map, value as value_4, defaultArg } from "../../../fable_modules/fable-library.4.4.1/Option.js";
 import { Process_get_empty, Process } from "../JsonTypes/Process.js";
 import { Assay_get_empty, Assay } from "../JsonTypes/Assay.js";
-import { printf, toFail } from "../../../fable_modules/fable-library.4.1.4/String.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.4.1/String.js";
 import { Study } from "../JsonTypes/Study.js";
 
 export class ProtocolTransformation extends Union {

package/ISA/ISA/Fable.js

@@ -1,8 +1,8 @@
-import { toString } from "../../fable_modules/fable-library.4.1.4/Types.js";
-import { append } from "../../fable_modules/fable-library.4.1.4/List.js";
-import { append as append_1 } from "../../fable_modules/fable-library.4.1.4/Array.js";
-import { Array_distinct, List_distinct } from "../../fable_modules/fable-library.4.1.4/Seq2.js";
-import { structuralHash, equals } from "../../fable_modules/fable-library.4.1.4/Util.js";
+import { toString } from "../../fable_modules/fable-library.4.4.1/Types.js";
+import { append } from "../../fable_modules/fable-library.4.4.1/List.js";
+import { append as append_1 } from "../../fable_modules/fable-library.4.4.1/Array.js";
+import { Array_distinct, List_distinct } from "../../fable_modules/fable-library.4.4.1/Seq2.js";
+import { structuralHash, equals } from "../../fable_modules/fable-library.4.4.1/Util.js";
 
 export function isMap_generic(l1) {
     let copyOfStruct;

package/ISA/ISA/Helper.js

@@ -1,13 +1,13 @@
-import { some, value as value_1 } from "../../fable_modules/fable-library.4.1.4/Option.js";
-import { isIterable, defaultOf, structuralHash, equals, numberHash, identityHash } from "../../fable_modules/fable-library.4.1.4/Util.js";
-import { exactlyOne, partition, fold } from "../../fable_modules/fable-library.4.1.4/Array.js";
-import { empty, singleton, append, head, tail, isEmpty } from "../../fable_modules/fable-library.4.1.4/List.js";
-import { Dictionary } from "../../fable_modules/fable-library.4.1.4/MutableMap.js";
-import { isEmpty as isEmpty_1, iterate } from "../../fable_modules/fable-library.4.1.4/Seq.js";
-import { tryGetValue, addToDict } from "../../fable_modules/fable-library.4.1.4/MapUtil.js";
-import { Union, toString, FSharpRef } from "../../fable_modules/fable-library.4.1.4/Types.js";
+import { some, value as value_1 } from "../../fable_modules/fable-library.4.4.1/Option.js";
+import { isIterable, defaultOf, structuralHash, equals, numberHash, identityHash } from "../../fable_modules/fable-library.4.4.1/Util.js";
+import { exactlyOne, partition, fold } from "../../fable_modules/fable-library.4.4.1/Array.js";
+import { empty, singleton, append, head, tail, isEmpty } from "../../fable_modules/fable-library.4.4.1/List.js";
+import { Dictionary } from "../../fable_modules/fable-library.4.4.1/MutableMap.js";
+import { isEmpty as isEmpty_1, iterate } from "../../fable_modules/fable-library.4.4.1/Seq.js";
+import { tryGetValue, addToDict } from "../../fable_modules/fable-library.4.4.1/MapUtil.js";
+import { Union, toString, FSharpRef } from "../../fable_modules/fable-library.4.4.1/Types.js";
 import { append_generic, distinct_generic, isList_generic, isMap_generic } from "./Fable.js";
-import { union_type, makeUnion, option_type, makeGenericType, getUnionCases, name, obj_type } from "../../fable_modules/fable-library.4.1.4/Reflection.js";
+import { union_type, makeUnion, option_type, makeGenericType, getUnionCases, name, obj_type } from "../../fable_modules/fable-library.4.4.1/Reflection.js";
 
 export function HashCodes_boxHashOption(a) {
     let copyOfStruct, copyOfStruct_1;

package/ISA/ISA/Identifier.js

@@ -1,5 +1,5 @@
-import { match, isMatch } from "../../fable_modules/fable-library.4.1.4/RegExp.js";
-import { newGuid } from "../../fable_modules/fable-library.4.1.4/Guid.js";
+import { match, isMatch } from "../../fable_modules/fable-library.4.4.1/RegExp.js";
+import { newGuid } from "../../fable_modules/fable-library.4.4.1/Guid.js";
 import { combineMany } from "../../FileSystem/Path.js";
 
 export function checkValidCharacters(identifier) {

package/ISA/ISA/JsonTypes/AnnotationValue.js

@@ -1,8 +1,8 @@
-import { Union } from "../../../fable_modules/fable-library.4.1.4/Types.js";
-import { union_type, int32_type, float64_type, string_type } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
-import { parse } from "../../../fable_modules/fable-library.4.1.4/Double.js";
-import { parse as parse_1 } from "../../../fable_modules/fable-library.4.1.4/Int32.js";
-import { int32ToString } from "../../../fable_modules/fable-library.4.1.4/Util.js";
+import { Union } from "../../../fable_modules/fable-library.4.4.1/Types.js";
+import { union_type, int32_type, float64_type, string_type } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
+import { parse } from "../../../fable_modules/fable-library.4.4.1/Double.js";
+import { parse as parse_1 } from "../../../fable_modules/fable-library.4.4.1/Int32.js";
+import { int32ToString } from "../../../fable_modules/fable-library.4.4.1/Util.js";
 
 export class AnnotationValue extends Union {
     constructor(tag, fields) {

package/ISA/ISA/JsonTypes/Assay.js

@@ -1,22 +1,22 @@
-import { Record } from "../../../fable_modules/fable-library.4.1.4/Types.js";
-import { getRecordFields, makeRecord, record_type, list_type, option_type, string_type } from "../../../fable_modules/fable-library.4.1.4/Reflection.js";
+import { Record } from "../../../fable_modules/fable-library.4.4.1/Types.js";
+import { getRecordFields, makeRecord, record_type, list_type, option_type, string_type } from "../../../fable_modules/fable-library.4.4.1/Reflection.js";
 import { OntologyAnnotation_$reflection } from "./OntologyAnnotation.js";
 import { Data_$reflection } from "./Data.js";
 import { AssayMaterials_get_empty, AssayMaterials_make, AssayMaterials_$reflection } from "./AssayMaterials.js";
 import { MaterialAttribute_$reflection } from "./MaterialAttribute.js";
 import { Process_$reflection } from "./Process.js";
 import { Comment$_$reflection } from "./Comment.js";
-import { empty, filter, map, singleton, append, exists, tryFind } from "../../../fable_modules/fable-library.4.1.4/List.js";
-import { safeHash, structuralHash, equals } from "../../../fable_modules/fable-library.4.1.4/Util.js";
-import { map2 as map2_2 } from "../../../fable_modules/fable-library.4.1.4/Array.js";
+import { empty, filter, map, singleton, append, exists, tryFind } from "../../../fable_modules/fable-library.4.4.1/List.js";
+import { safeHash, structuralHash, equals } from "../../../fable_modules/fable-library.4.4.1/Util.js";
+import { map2 as map2_2 } from "../../../fable_modules/fable-library.4.4.1/Array.js";
 import { Dict_tryFind, Dict_ofSeqWithMerge, Update_updateOnlyByExistingAppend, Update_updateOnlyByExisting, Update_updateAppend } from "../Helper.js";
 import { Option_fromValueWithDefault, Update_UpdateOptions, Option_mapDefault } from "../Helper.js";
 import { updateProtocols, getProtocols, getFactors, getOutputsWithFactorBy, getOutputsWithCharacteristicBy, getInputsWithCharacteristicBy, getParameters, getOutputsWithParameterBy, getInputsWithParameterBy, getMaterials, getSamples, getSources, getCharacteristics, getUnits, getData } from "./ProcessSequence.js";
-import { map as map_1, defaultArg } from "../../../fable_modules/fable-library.4.1.4/Option.js";
-import { List_distinct } from "../../../fable_modules/fable-library.4.1.4/Seq2.js";
+import { map as map_1, defaultArg } from "../../../fable_modules/fable-library.4.4.1/Option.js";
+import { List_distinct } from "../../../fable_modules/fable-library.4.4.1/Seq2.js";
 import { Sample_$reflection } from "./Sample.js";
 import { Material_$reflection } from "./Material.js";
-import { toFail } from "../../../fable_modules/fable-library.4.1.4/String.js";
+import { toFail } from "../../../fable_modules/fable-library.4.4.1/String.js";
 
 export class Assay extends Record {
     constructor(ID, FileName, MeasurementType, TechnologyType, TechnologyPlatform, DataFiles, Materials, CharacteristicCategories, UnitCategories, ProcessSequence, Comments) {
@@ -148,10 +148,10 @@ export function Assay_getData_722A269D(assay) {
     const list1 = defaultArg(assay.DataFiles, empty());
     const list2 = processSequenceData;
     try {
-        const map1 = Dict_ofSeqWithMerge((arg, arg_1) => {
+        const map1 = Dict_ofSeqWithMerge((recordType_, recordType__1) => {
             const this$ = updateOptions;
-            const recordType_1 = arg;
-            const recordType_2 = arg_1;
+            const recordType_1 = recordType_;
+            const recordType_2 = recordType__1;
             switch (this$.tag) {
                 case 2:
                     return makeRecord(Data_$reflection(), map2_2(Update_updateAppend, getRecordFields(recordType_1), getRecordFields(recordType_2)));
@@ -163,10 +163,10 @@ export function Assay_getData_722A269D(assay) {
                     return recordType_2;
             }
         }, map((v) => [mapping(v), v], list1));
-        const map2 = Dict_ofSeqWithMerge((arg_2, arg_3) => {
+        const map2 = Dict_ofSeqWithMerge((recordType__2, recordType__3) => {
             const this$_1 = updateOptions;
-            const recordType_1_1 = arg_2;
-            const recordType_2_1 = arg_3;
+            const recordType_1_1 = recordType__2;
+            const recordType_2_1 = recordType__3;
             switch (this$_1.tag) {
                 case 2:
                     return makeRecord(Data_$reflection(), map2_2(Update_updateAppend, getRecordFields(recordType_1_1), getRecordFields(recordType_2_1)));
@@ -373,10 +373,10 @@ export function Assay_getMaterials_722A269D(assay) {
         const list1 = defaultArg(mat.Samples, empty());
         const list2 = processSequenceSamples;
         try {
-            const map1 = Dict_ofSeqWithMerge((arg, arg_1) => {
+            const map1 = Dict_ofSeqWithMerge((recordType_, recordType__1) => {
                 const this$ = updateOptions;
-                const recordType_1 = arg;
-                const recordType_2 = arg_1;
+                const recordType_1 = recordType_;
+                const recordType_2 = recordType__1;
                 switch (this$.tag) {
                     case 2:
                         return makeRecord(Sample_$reflection(), map2_2(Update_updateAppend, getRecordFields(recordType_1), getRecordFields(recordType_2)));
@@ -388,10 +388,10 @@ export function Assay_getMaterials_722A269D(assay) {
                         return recordType_2;
                 }
             }, map((v) => [mapping(v), v], list1));
-            const map2 = Dict_ofSeqWithMerge((arg_2, arg_3) => {
+            const map2 = Dict_ofSeqWithMerge((recordType__2, recordType__3) => {
                 const this$_1 = updateOptions;
-                const recordType_1_1 = arg_2;
-                const recordType_2_1 = arg_3;
+                const recordType_1_1 = recordType__2;
+                const recordType_2_1 = recordType__3;
                 switch (this$_1.tag) {
                     case 2:
                         return makeRecord(Sample_$reflection(), map2_2(Update_updateAppend, getRecordFields(recordType_1_1), getRecordFields(recordType_2_1)));
@@ -451,10 +451,10 @@ ${err.message}`);
         const list1_1 = defaultArg(mat.OtherMaterials, empty());
         const list2_1 = processSequenceMaterials;
         try {
-            const map1_1 = Dict_ofSeqWithMerge((arg_6, arg_1_1) => {
+            const map1_1 = Dict_ofSeqWithMerge((recordType__6, recordType__1_1) => {
                 const this$_3 = updateOptions_1;
-                const recordType_1_3 = arg_6;
-                const recordType_2_3 = arg_1_1;
+                const recordType_1_3 = recordType__6;
+                const recordType_2_3 = recordType__1_1;
                 switch (this$_3.tag) {
                     case 2:
                         return makeRecord(Material_$reflection(), map2_2(Update_updateAppend, getRecordFields(recordType_1_3), getRecordFields(recordType_2_3)));
@@ -466,10 +466,10 @@ ${err.message}`);
                         return recordType_2_3;
                 }
             }, map((v_2) => [mapping_5(v_2), v_2], list1_1));
-            const map2_1 = Dict_ofSeqWithMerge((arg_2_1, arg_3_1) => {
+            const map2_1 = Dict_ofSeqWithMerge((recordType__2_1, recordType__3_1) => {
                 const this$_4 = updateOptions_1;
-                const recordType_1_4 = arg_2_1;
-                const recordType_2_4 = arg_3_1;
+                const recordType_1_4 = recordType__2_1;
+                const recordType_2_4 = recordType__3_1;
                 switch (this$_4.tag) {
                     case 2:
                         return makeRecord(Material_$reflection(), map2_2(Update_updateAppend, getRecordFields(recordType_1_4), getRecordFields(recordType_2_4)));