@nfdi4plants/arctrl 2.0.1 → 2.1.0-alpha.2

package/Spreadsheet/Metadata/Assays.js

@@ -1,31 +1,31 @@
-import { reverse, cons, iterateIndexed, empty, map as map_1, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterateIndexed, empty, map as map_1, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { OntologyAnnotation } from "../../Core/OntologyAnnotation.js";
+import { defaultArg, map, unwrap } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { ResizeArray_iter, Option_fromValueWithDefault } from "../../Core/Helper/Collections.js";
-import { unwrap, defaultArg, map } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
 import { JsonTypes_composeTechnologyPlatform, JsonTypes_decomposeTechnologyPlatform } from "../../Core/Conversion.js";
 import { ArcAssay } from "../../Core/ArcTypes.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { Assay_fileNameFromIdentifier, removeMissingIdentifier, Assay_identifierFromFileName, createMissingIdentifier } from "../../Core/Helper/Identifier.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export const labels = ofArray(["Measurement Type", "Measurement Type Term Accession Number", "Measurement Type Term Source REF", "Technology Type", "Technology Type Term Accession Number", "Technology Type Term Source REF", "Technology Platform", "File Name"]);
 
 export function fromString(measurementType, measurementTypeTermSourceREF, measurementTypeTermAccessionNumber, technologyType, technologyTypeTermSourceREF, technologyTypeTermAccessionNumber, technologyPlatform, fileName, comments) {
-    const measurementType_1 = OntologyAnnotation.create(measurementType, measurementTypeTermSourceREF, measurementTypeTermAccessionNumber);
-    const technologyType_1 = OntologyAnnotation.create(technologyType, technologyTypeTermSourceREF, technologyTypeTermAccessionNumber);
+    const measurementType_1 = OntologyAnnotation.create(unwrap(measurementType), unwrap(measurementTypeTermSourceREF), unwrap(measurementTypeTermAccessionNumber));
+    const technologyType_1 = OntologyAnnotation.create(unwrap(technologyType), unwrap(technologyTypeTermSourceREF), unwrap(technologyTypeTermAccessionNumber));
     const measurementType_2 = Option_fromValueWithDefault(new OntologyAnnotation(), measurementType_1);
     const technologyType_2 = Option_fromValueWithDefault(new OntologyAnnotation(), technologyType_1);
     const technologyPlatform_1 = map(JsonTypes_decomposeTechnologyPlatform, technologyPlatform);
-    return ArcAssay.make(fileName, measurementType_2, technologyType_2, technologyPlatform_1, [], void 0, [], comments);
+    return ArcAssay.make(fileName, measurementType_2, technologyType_2, technologyPlatform_1, [], undefined, [], comments);
 }
 
 export function fromSparseTable(matrix) {
     if ((matrix.ColumnCount === 0) && (length(matrix.CommentKeys) !== 0)) {
         const comments = SparseTable_GetEmptyComments_3ECCA699(matrix);
-        return singleton(ArcAssay.create(createMissingIdentifier(), void 0, void 0, void 0, void 0, void 0, void 0, comments));
+        return singleton(ArcAssay.create(createMissingIdentifier(), undefined, undefined, undefined, undefined, undefined, undefined, comments));
     }
     else {
         return initialize(matrix.ColumnCount, (i) => {
@@ -38,10 +38,10 @@ export function fromSparseTable(matrix) {
 }
 
 export function toSparseTable(assays) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, labels, void 0, length(assays) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, labels, undefined, length(assays) + 1);
     let commentKeys = empty();
     iterateIndexed((i, a) => {
-        const processedFileName = (a.Identifier.indexOf("MISSING_IDENTIFIER_") === 0) ? removeMissingIdentifier(a.Identifier) : Assay_fileNameFromIdentifier(a.Identifier);
+        const processedFileName = a.Identifier.startsWith("MISSING_IDENTIFIER_") ? removeMissingIdentifier(a.Identifier) : Assay_fileNameFromIdentifier(a.Identifier);
         const i_1 = (i + 1) | 0;
         let mt_1;
         const mt = defaultArg(a.MeasurementType, new OntologyAnnotation());

package/Spreadsheet/Metadata/Comment.js

@@ -1,8 +1,8 @@
 import { ActivePatterns_$007CRegex$007C_$007C } from "../../Core/Helper/Regex.js";
-import { printf, toText } from "../../fable_modules/fable-library-js.4.16.0/String.js";
+import { printf, toText } from "../../fable_modules/fable-library-js.4.22.0/String.js";
 import { Option_fromValueWithDefault } from "./Conversions.js";
 import { Comment$ } from "../../Core/Comment.js";
-import { bind, defaultArg } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+import { bind, defaultArg } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 
 export const Comment_commentValueKey = "commentValue";
 
@@ -22,14 +22,14 @@ export function Comment_$007CComment$007C_$007C(key) {
             const r_1 = activePatternResult_1;
             const v = (r_1.groups && r_1.groups[Comment_commentValueKey]) || "";
             if (v === "<>") {
-                return void 0;
+                return undefined;
             }
             else {
                 return v;
             }
         }
         else {
-            return void 0;
+            return undefined;
         }
     }
 }
@@ -60,7 +60,7 @@ export function Remark_$007CRemark$007C_$007C(key) {
             return (r.groups && r.groups[Remark_remarkValueKey]) || "";
         }
         else {
-            return void 0;
+            return undefined;
         }
     }, key);
 }

package/Spreadsheet/Metadata/Contacts.js

@@ -1,14 +1,14 @@
-import { reverse, cons, iterateIndexed, empty, map, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterateIndexed, empty, map, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { Person_setCommentFromORCID, Person_setOrcidFromComments } from "../../Core/Conversion.js";
 import { OntologyAnnotation_toAggregatedStrings, OntologyAnnotation_fromAggregatedStrings } from "./Conversions.js";
 import { Person } from "../../Core/Person.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { unwrap, defaultArg } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { unwrap, defaultArg } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { ResizeArray_iter } from "../../Core/Helper/Collections.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export const lastNameLabel = "Last Name";
 
@@ -36,7 +36,7 @@ export const labels = ofArray([lastNameLabel, firstNameLabel, midInitialsLabel,
 
 export function fromString(lastName, firstName, midInitials, email, phone, fax, address, affiliation, role, rolesTermAccessionNumber, rolesTermSourceREF, comments) {
     let roles_1;
-    return Person_setOrcidFromComments((roles_1 = OntologyAnnotation_fromAggregatedStrings(";", role, rolesTermSourceREF, rolesTermAccessionNumber), Person.make(void 0, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles_1, comments)));
+    return Person_setOrcidFromComments((roles_1 = OntologyAnnotation_fromAggregatedStrings(";", role, rolesTermSourceREF, rolesTermAccessionNumber), Person.make(undefined, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles_1, comments)));
 }
 
 export function fromSparseTable(matrix) {
@@ -56,7 +56,7 @@ export function fromSparseTable(matrix) {
 }
 
 export function toSparseTable(persons) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, labels, void 0, length(persons) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, labels, undefined, length(persons) + 1);
     let commentKeys = empty();
     iterateIndexed((i, p) => {
         const i_1 = (i + 1) | 0;

package/Spreadsheet/Metadata/Conversions.js

@@ -1,9 +1,9 @@
-import { equals } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
-import { defaultArg, value, some } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
-import { equalsWith, fill, map3, fold } from "../../fable_modules/fable-library-js.4.16.0/Array.js";
-import { toText, printf, toFail } from "../../fable_modules/fable-library-js.4.16.0/String.js";
+import { equals } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
+import { defaultArg, value, some } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
+import { equalsWith, fill, map3, fold } from "../../fable_modules/fable-library-js.4.22.0/Array.js";
+import { toText, printf, toFail } from "../../fable_modules/fable-library-js.4.22.0/String.js";
 import { OntologyAnnotation } from "../../Core/OntologyAnnotation.js";
-import { map, fold as fold_1, ofArray, empty } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { map, fold as fold_1, ofArray, empty } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { Array_map4 } from "../CollectionAux.js";
 import { Component_toStringObject_Z685B8F25, Component_fromISAString_7C9A7CF8 } from "../../Core/Process/Component.js";
 import { ResizeArray_map } from "../../Core/Helper/Collections.js";
@@ -14,7 +14,7 @@ import { ProtocolParameter } from "../../Core/Process/ProtocolParameter.js";
  */
 export function Option_fromValueWithDefault(d, v) {
     if (equals(d, v)) {
-        return void 0;
+        return undefined;
     }
     else {
         return some(v);
@@ -151,7 +151,7 @@ export function Component_toAggregatedStrings(separator, cs) {
  * Returns a list of ISAJson ProtocolParameter objects from ISATab aggregated strings
  */
 export function ProtocolParameter_fromAggregatedStrings(separator, terms, source, accessions) {
-    return ResizeArray_map((arg) => ((parameterName) => ProtocolParameter.make(void 0, parameterName))(arg), OntologyAnnotation_fromAggregatedStrings(separator, terms, source, accessions));
+    return ResizeArray_map((arg) => ((parameterName) => ProtocolParameter.make(undefined, parameterName))(arg), OntologyAnnotation_fromAggregatedStrings(separator, terms, source, accessions));
 }
 
 /**

package/Spreadsheet/Metadata/DesignDescriptors.js

@@ -1,4 +1,4 @@
-import { ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { toRows as toRows_1, fromRows as fromRows_1, toSparseTable as toSparseTable_1, fromSparseTable as fromSparseTable_1 } from "./OntologyAnnotation.js";
 
 export const designTypeLabel = "Type";

package/Spreadsheet/Metadata/Factors.js

@@ -1,13 +1,13 @@
-import { reverse, cons, iterateIndexed, empty, map, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterateIndexed, empty, map, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { OntologyAnnotation } from "../../Core/OntologyAnnotation.js";
+import { defaultArg, unwrap } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { ResizeArray_iter, Option_fromValueWithDefault } from "../../Core/Helper/Collections.js";
 import { Factor } from "../../Core/Process/Factor.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { defaultArg } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export const nameLabel = "Name";
 
@@ -20,7 +20,7 @@ export const typeTermSourceREFLabel = "Type Term Source REF";
 export const labels = ofArray([nameLabel, factorTypeLabel, typeTermAccessionNumberLabel, typeTermSourceREFLabel]);
 
 export function fromString(name, designType, typeTermSourceREF, typeTermAccessionNumber, comments) {
-    const factorType = OntologyAnnotation.create(designType, typeTermSourceREF, typeTermAccessionNumber);
+    const factorType = OntologyAnnotation.create(unwrap(designType), unwrap(typeTermSourceREF), unwrap(typeTermAccessionNumber));
     const factorType_1 = Option_fromValueWithDefault(new OntologyAnnotation(), factorType);
     const comments_1 = Option_fromValueWithDefault([], comments);
     return Factor.make(name, factorType_1, comments_1);
@@ -29,7 +29,7 @@ export function fromString(name, designType, typeTermSourceREF, typeTermAccessio
 export function fromSparseTable(matrix) {
     if ((matrix.ColumnCount === 0) && (length(matrix.CommentKeys) !== 0)) {
         const comments = SparseTable_GetEmptyComments_3ECCA699(matrix);
-        return singleton(Factor.create(void 0, void 0, comments));
+        return singleton(Factor.create(undefined, undefined, comments));
     }
     else {
         return initialize(matrix.ColumnCount, (i) => {
@@ -42,7 +42,7 @@ export function fromSparseTable(matrix) {
 }
 
 export function toSparseTable(factors) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, labels, void 0, length(factors) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, labels, undefined, length(factors) + 1);
     let commentKeys = empty();
     iterateIndexed((i, f) => {
         const i_1 = (i + 1) | 0;

package/Spreadsheet/Metadata/OntologyAnnotation.js

@@ -1,12 +1,12 @@
-import { reverse, cons, iterateIndexed, empty, ofArray, map, initialize, singleton, length } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterateIndexed, empty, ofArray, map, initialize, singleton, length } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { OntologyAnnotation } from "../../Core/OntologyAnnotation.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { unwrap } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
+import { unwrap } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
 import { ResizeArray_iter } from "../../Core/Helper/Collections.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export function fromSparseTable(label, labelTSR, labelTAN, matrix) {
     let returnVal;
@@ -25,7 +25,7 @@ export function fromSparseTable(label, labelTSR, labelTAN, matrix) {
 }
 
 export function toSparseTable(label, labelTSR, labelTAN, designs) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, ofArray([label, labelTAN, labelTSR]), void 0, length(designs) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, ofArray([label, labelTAN, labelTSR]), undefined, length(designs) + 1);
     let commentKeys = empty();
     iterateIndexed((i, d) => {
         const i_1 = (i + 1) | 0;

package/Spreadsheet/Metadata/OntologySourceReference.js

@@ -1,12 +1,12 @@
-import { reverse, cons, iterateIndexed, empty, map, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterateIndexed, empty, map, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { OntologySourceReference } from "../../Core/OntologySourceReference.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { defaultArg } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { defaultArg } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { ResizeArray_iter } from "../../Core/Helper/Collections.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export const nameLabel = "Term Source Name";
 
@@ -39,7 +39,7 @@ export function fromSparseTable(matrix) {
 }
 
 export function toSparseTable(ontologySources) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, labels, void 0, length(ontologySources) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, labels, undefined, length(ontologySources) + 1);
     let commentKeys = empty();
     iterateIndexed((i, o) => {
         const i_1 = (i + 1) | 0;

package/Spreadsheet/Metadata/Protocols.js

@@ -1,14 +1,14 @@
-import { reverse, cons, iterate, iterateIndexed, map as map_1, initialize, singleton, length, empty, ofSeq, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterate, iterateIndexed, map as map_1, initialize, singleton, length, empty, ofSeq, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { OntologyAnnotation } from "../../Core/OntologyAnnotation.js";
+import { defaultArg, map, unwrap } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { Component_toAggregatedStrings, ProtocolParameter_toAggregatedStrings, Option_fromValueWithDefault, Component_fromAggregatedStrings, ProtocolParameter_fromAggregatedStrings } from "./Conversions.js";
 import { Protocol_create_Z414665E7, Protocol_make } from "../../Core/Process/Protocol.js";
-import { defaultArg, map } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
 import { URIModule_fromString } from "../../Core/URI.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export const nameLabel = "Name";
 
@@ -41,15 +41,15 @@ export const componentsTypeTermSourceREFLabel = "Components Type Term Source REF
 export const labels = ofArray([nameLabel, protocolTypeLabel, typeTermAccessionNumberLabel, typeTermSourceREFLabel, descriptionLabel, uriLabel, versionLabel, parametersNameLabel, parametersTermAccessionNumberLabel, parametersTermSourceREFLabel, componentsNameLabel, componentsTypeLabel, componentsTypeTermAccessionNumberLabel, componentsTypeTermSourceREFLabel]);
 
 export function fromString(name, protocolType, typeTermAccessionNumber, typeTermSourceREF, description, uri, version, parametersName, parametersTermAccessionNumber, parametersTermSourceREF, componentsName, componentsType, componentsTypeTermAccessionNumber, componentsTypeTermSourceREF, comments) {
-    const protocolType_1 = OntologyAnnotation.create(protocolType, typeTermSourceREF, typeTermAccessionNumber);
+    const protocolType_1 = OntologyAnnotation.create(unwrap(protocolType), unwrap(typeTermSourceREF), unwrap(typeTermAccessionNumber));
     const parameters = ofSeq(ProtocolParameter_fromAggregatedStrings(";", parametersName, parametersTermSourceREF, parametersTermAccessionNumber));
     const components = Component_fromAggregatedStrings(";", componentsName, componentsType, componentsTypeTermSourceREF, componentsTypeTermAccessionNumber);
-    return Protocol_make(void 0, map(URIModule_fromString, name), Option_fromValueWithDefault(new OntologyAnnotation(), protocolType_1), description, map(URIModule_fromString, uri), version, Option_fromValueWithDefault(empty(), parameters), Option_fromValueWithDefault(empty(), components), Option_fromValueWithDefault(empty(), comments));
+    return Protocol_make(undefined, map(URIModule_fromString, name), Option_fromValueWithDefault(new OntologyAnnotation(), protocolType_1), description, map(URIModule_fromString, uri), version, Option_fromValueWithDefault(empty(), parameters), Option_fromValueWithDefault(empty(), components), Option_fromValueWithDefault(empty(), comments));
 }
 
 export function fromSparseTable(matrix) {
     if ((matrix.ColumnCount === 0) && (length(matrix.CommentKeys) !== 0)) {
-        return singleton(Protocol_create_Z414665E7(void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, ofSeq(SparseTable_GetEmptyComments_3ECCA699(matrix))));
+        return singleton(Protocol_create_Z414665E7(undefined, undefined, undefined, undefined, undefined, undefined, undefined, undefined, ofSeq(SparseTable_GetEmptyComments_3ECCA699(matrix))));
     }
     else {
         return initialize(matrix.ColumnCount, (i) => {
@@ -60,7 +60,7 @@ export function fromSparseTable(matrix) {
 }
 
 export function toSparseTable(protocols) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, labels, void 0, length(protocols) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, labels, undefined, length(protocols) + 1);
     let commentKeys = empty();
     iterateIndexed((i, p) => {
         const i_1 = (i + 1) | 0;

package/Spreadsheet/Metadata/Publication.js

@@ -1,14 +1,14 @@
-import { reverse, cons, iterateIndexed, empty, map as map_1, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { reverse, cons, iterateIndexed, empty, map as map_1, initialize, singleton, length, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { OntologyAnnotation } from "../../Core/OntologyAnnotation.js";
-import { defaultArg, map } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+import { defaultArg, map, unwrap } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { URIModule_fromString } from "../../Core/URI.js";
 import { ResizeArray_iter, Option_fromValueWithDefault } from "../../Core/Helper/Collections.js";
 import { Publication } from "../../Core/Publication.js";
 import { SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValue_11FD62A8, SparseTable__TryGetValueDefault_5BAE6133, SparseTable_GetEmptyComments_3ECCA699 } from "./SparseTable.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 
 export const pubMedIDLabel = "PubMed ID";
 
@@ -27,7 +27,7 @@ export const statusTermSourceREFLabel = "Status Term Source REF";
 export const labels = ofArray([pubMedIDLabel, doiLabel, authorListLabel, titleLabel, statusLabel, statusTermAccessionNumberLabel, statusTermSourceREFLabel]);
 
 export function fromString(pubMedID, doi, author, title, status, statusTermSourceREF, statusTermAccessionNumber, comments) {
-    const status_1 = new OntologyAnnotation(status, statusTermSourceREF, statusTermAccessionNumber);
+    const status_1 = new OntologyAnnotation(unwrap(status), unwrap(statusTermSourceREF), unwrap(statusTermAccessionNumber));
     const pubMedID_1 = map(URIModule_fromString, pubMedID);
     const status_2 = Option_fromValueWithDefault(new OntologyAnnotation(), status_1);
     return Publication.make(pubMedID_1, doi, author, title, status_2, comments);
@@ -50,7 +50,7 @@ export function fromSparseTable(matrix) {
 }
 
 export function toSparseTable(publications) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, labels, void 0, length(publications) + 1);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, labels, undefined, length(publications) + 1);
     let commentKeys = empty();
     iterateIndexed((i, p) => {
         const i_1 = (i + 1) | 0;

package/Spreadsheet/Metadata/SparseTable.js

@@ -1,21 +1,21 @@
-import { append as append_1, delay, tryItem, length as length_1, isEmpty, iterate, fold, tryPick, maxBy, initialize, choose, map, indexed } from "../../fable_modules/fable-library-js.4.16.0/Seq.js";
-import { defaultArg, map as map_1 } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
-import { tryFind, ofSeq } from "../../fable_modules/fable-library-js.4.16.0/Map.js";
-import { arrayHash, equalArrays, equals, comparePrimitives } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
-import { RowBuilder_get_Empty, RowBuilder__Combine_19F30600, RowBuilder_$ctor } from "../../fable_modules/FsSpreadsheet.6.2.0/DSL/RowBuilder.fs.js";
-import { CellBuilder_$ctor, CellBuilder__AsCellElement_6F87C2ED } from "../../fable_modules/FsSpreadsheet.6.2.0/DSL/CellBuilder.fs.js";
-import { Messages_format, SheetEntity$1_some_2B595 } from "../../fable_modules/FsSpreadsheet.6.2.0/DSL/Types.fs.js";
-import { DataType } from "../../fable_modules/FsSpreadsheet.6.2.0/Cells/FsCell.fs.js";
-import { map as map_2, initialize as initialize_1, exists, find, cons, append, empty, singleton } from "../../fable_modules/fable-library-js.4.16.0/List.js";
-import { ColumnIndex, RowElement } from "../../fable_modules/FsSpreadsheet.6.2.0/DSL/Types.fs.js";
-import { FsRangeAddress_$ctor_7E77A4A0 } from "../../fable_modules/FsSpreadsheet.6.2.0/Ranges/FsRangeAddress.fs.js";
-import { FsAddress_$ctor_Z37302880 } from "../../fable_modules/FsSpreadsheet.6.2.0/FsAddress.fs.js";
-import { Record } from "../../fable_modules/fable-library-js.4.16.0/Types.js";
-import { record_type, list_type, class_type, tuple_type, int32_type, string_type } from "../../fable_modules/fable-library-js.4.16.0/Reflection.js";
+import { append as append_1, delay, tryItem, length as length_1, isEmpty, iterate, fold, tryPick, maxBy, initialize, choose, map, indexed } from "../../fable_modules/fable-library-js.4.22.0/Seq.js";
+import { defaultArg, map as map_1 } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
+import { tryFind, ofSeq } from "../../fable_modules/fable-library-js.4.22.0/Map.js";
+import { arrayHash, equalArrays, equals, comparePrimitives } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
+import { RowBuilder_get_Empty, RowBuilder__Combine_19F30600, RowBuilder_$ctor } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/DSL/RowBuilder.fs.js";
+import { CellBuilder_$ctor, CellBuilder__AsCellElement_6F87C2ED } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/DSL/CellBuilder.fs.js";
+import { Messages_format, SheetEntity$1_some_2B595 } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/DSL/Types.fs.js";
+import { DataType } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/Cells/FsCell.fs.js";
+import { map as map_2, initialize as initialize_1, exists, find, cons, append, empty, singleton } from "../../fable_modules/fable-library-js.4.22.0/List.js";
+import { ColumnIndex, RowElement } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/DSL/Types.fs.js";
+import { FsRangeAddress_$ctor_7E77A4A0 } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/Ranges/FsRangeAddress.fs.js";
+import { FsAddress_$ctor_Z37302880 } from "../../fable_modules/FsSpreadsheet.6.3.0-alpha.4/FsAddress.fs.js";
+import { Record } from "../../fable_modules/fable-library-js.4.22.0/Types.js";
+import { record_type, list_type, class_type, tuple_type, int32_type, string_type } from "../../fable_modules/fable-library-js.4.22.0/Reflection.js";
 import { Seq_trySkip, Dictionary_tryGetValue } from "../CollectionAux.js";
-import { addToDict, getItemFromDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { Dictionary } from "../../fable_modules/fable-library-js.4.16.0/MutableMap.js";
-import { printf, toFail } from "../../fable_modules/fable-library-js.4.16.0/String.js";
+import { addToDict, getItemFromDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { Dictionary } from "../../fable_modules/fable-library-js.4.22.0/MutableMap.js";
+import { printf, toFail } from "../../fable_modules/fable-library-js.4.22.0/String.js";
 import { Comment$, Remark } from "../../Core/Comment.js";
 import { Comment_wrapCommentKey, Comment_$007CComment$007C_$007C, Remark_$007CRemark$007C_$007C } from "./Comment.js";
 
@@ -43,7 +43,7 @@ export function SparseRowModule_getAllValues(i) {
 export function SparseRowModule_fromFsRow(r) {
     return choose((c) => {
         if (equals(c.Value, "")) {
-            return void 0;
+            return undefined;
         }
         else {
             return [c.ColumnNumber - 1, c.ValueAsString()];
@@ -57,7 +57,7 @@ export function SparseRowModule_tryGetValueAt(i, vs) {
             return tupledArg[1];
         }
         else {
-            return void 0;
+            return undefined;
         }
     }, vs);
 }
@@ -428,13 +428,13 @@ export function SparseTable_FromRows_Z5579EC29(en, labels, lineNumber, prefix) {
                                 case 2:
                                     return [k_4, lineNumber_1, remarks, matrix];
                                 default:
-                                    return [void 0, lineNumber_1, remarks, matrix];
+                                    return [undefined, lineNumber_1, remarks, matrix];
                             }
                         }
                     }
                 }
                 else {
-                    return [void 0, lineNumber_1, remarks, matrix];
+                    return [undefined, lineNumber_1, remarks, matrix];
                 }
                 break;
             }

package/Spreadsheet/Metadata/Study.js

@@ -1,15 +1,15 @@
-import { Record } from "../../fable_modules/fable-library-js.4.16.0/Types.js";
-import { record_type, list_type, string_type } from "../../fable_modules/fable-library-js.4.16.0/Reflection.js";
+import { Record } from "../../fable_modules/fable-library-js.4.22.0/Types.js";
+import { record_type, list_type, string_type } from "../../fable_modules/fable-library-js.4.22.0/Reflection.js";
 import { Comment$_$reflection } from "../../Core/Comment.js";
-import { ofSeq, append, reverse, cons, empty, map, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { ofSeq, append, reverse, cons, empty, map, ofArray } from "../../fable_modules/fable-library-js.4.22.0/List.js";
 import { Comment_toString, Comment_fromString } from "./Comment.js";
 import { SparseRowModule_fromValues, SparseTable_ToRows_759CAFC1, SparseTable_FromRows_Z5579EC29, SparseTable, SparseTable_Create_Z2192E64B, SparseTable__TryGetValueDefault_5BAE6133 } from "./SparseTable.js";
 import { Study_fileNameFromIdentifier, createMissingIdentifier } from "../../Core/Helper/Identifier.js";
-import { addToDict } from "../../fable_modules/fable-library-js.4.16.0/MapUtil.js";
-import { defaultArg } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+import { addToDict } from "../../fable_modules/fable-library-js.4.22.0/MapUtil.js";
+import { defaultArg } from "../../fable_modules/fable-library-js.4.22.0/Option.js";
 import { Option_fromValueWithDefault, ResizeArray_iter } from "../../Core/Helper/Collections.js";
-import { List_distinct } from "../../fable_modules/fable-library-js.4.16.0/Seq2.js";
-import { stringHash } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { List_distinct } from "../../fable_modules/fable-library-js.4.22.0/Seq2.js";
+import { stringHash } from "../../fable_modules/fable-library-js.4.22.0/Util.js";
 import { ArcStudy } from "../../Core/ArcTypes.js";
 import { toRows as toRows_1, fromRows as fromRows_1 } from "./DesignDescriptors.js";
 import { toRows as toRows_2, fromRows as fromRows_2 } from "./Publication.js";
@@ -17,7 +17,7 @@ import { toRows as toRows_3, fromRows as fromRows_3 } from "./Factors.js";
 import { toRows as toRows_4, fromRows as fromRows_4 } from "./Assays.js";
 import { toRows as toRows_5, fromRows as fromRows_5 } from "./Protocols.js";
 import { toRows as toRows_6, fromRows as fromRows_6 } from "./Contacts.js";
-import { singleton, append as append_1, delay, collect } from "../../fable_modules/fable-library-js.4.16.0/Seq.js";
+import { singleton, append as append_1, delay, collect } from "../../fable_modules/fable-library-js.4.22.0/Seq.js";
 import { ARCtrl_ArcTable__ArcTable_GetProcesses, ARCtrl_ArcTable__ArcTable_GetProtocols } from "../../Core/Conversion.js";
 import { getFactors } from "../../Core/Process/ProcessSequence.js";
 
@@ -52,9 +52,9 @@ export function StudyInfo_FromSparseTable_3ECCA699(matrix) {
 }
 
 export function StudyInfo_ToSparseTable_1680536E(study) {
-    const matrix = SparseTable_Create_Z2192E64B(void 0, StudyInfo_get_Labels(), void 0, 2);
+    const matrix = SparseTable_Create_Z2192E64B(undefined, StudyInfo_get_Labels(), undefined, 2);
     let commentKeys = empty();
-    const patternInput = (study.Identifier.indexOf("MISSING_IDENTIFIER_") === 0) ? ["", ""] : [study.Identifier, Study_fileNameFromIdentifier(study.Identifier)];
+    const patternInput = study.Identifier.startsWith("MISSING_IDENTIFIER_") ? ["", ""] : [study.Identifier, Study_fileNameFromIdentifier(study.Identifier)];
     addToDict(matrix.Matrix, ["Study Identifier", 1], patternInput[0]);
     addToDict(matrix.Matrix, ["Study Title", 1], defaultArg(study.Title, ""));
     addToDict(matrix.Matrix, ["Study Description", 1], defaultArg(study.Description, ""));
@@ -97,9 +97,9 @@ export function fromParts(studyInfo, designDescriptors, publications, factors, a
     const studyDesignDescriptors = Array.from(designDescriptors);
     const registeredAssayIdentifiers = Array.from(assayIdentifiers);
     const comments = Array.from(studyInfo.Comments);
-    arcstudy = ArcStudy.make(studyInfo.Identifier, title, description, submissionDate, publicReleaseDate, publications_1, contacts_1, studyDesignDescriptors, [], void 0, registeredAssayIdentifiers, comments);
+    arcstudy = ArcStudy.make(studyInfo.Identifier, title, description, submissionDate, publicReleaseDate, publications_1, contacts_1, studyDesignDescriptors, [], undefined, registeredAssayIdentifiers, comments);
     if (arcstudy.isEmpty && (arcstudy.Identifier === "")) {
-        return void 0;
+        return undefined;
     }
     else {
         return [arcstudy, assays];