@nfdi4plants/arctrl 2.0.0-alpha.2 → 2.0.0-alpha.4

package/Core/Table/ArcTableAux.js

@@ -151,7 +151,7 @@ export function SanityChecks_validateColumn(column) {
 }
 
 export function SanityChecks_validate(headers, values, raiseException) {
-    let clo;
+    let clo, clo_1;
     let isValid = true;
     let en = getEnumerator(values);
     while (isValid && en["System.Collections.IEnumerator.MoveNext"]()) {
@@ -162,12 +162,23 @@ export function SanityChecks_validate(headers, values, raiseException) {
         let copyOfStruct_1 = en["System.Collections.Generic.IEnumerator`1.get_Current"]();
         cell = copyOfStruct_1[1];
         const header = headers[matchValue[0]];
-        if (!header.IsTermColumn && !cell.isFreeText) {
+        const headerIsData = header.IsDataColumn;
+        const headerIsFreetext = !header.IsTermColumn && !header.IsDataColumn;
+        const cellIsNotFreetext = !cell.isFreeText;
+        if (headerIsData && (!cell.isData && cellIsNotFreetext)) {
             (raiseException ? ((message) => {
                 throw new Error(message);
             }) : ((clo = toConsole(printf("%s")), (arg) => {
                 clo(arg);
-            })))(`Invalid combination of header \`${header}\` and cell \`${cell}\`.`);
+            })))(`Invalid combination of header \`${header}\` and cell \`${cell}\`. Data header should contain either Data or Freetext cells.`);
+            isValid = false;
+        }
+        if (headerIsFreetext && cellIsNotFreetext) {
+            (raiseException ? ((message_1) => {
+                throw new Error(message_1);
+            }) : ((clo_1 = toConsole(printf("%s")), (arg_1) => {
+                clo_1(arg_1);
+            })))(`Invalid combination of header \`${header}\` and cell \`${cell}\`. Freetext header should not contain non-freetext cells.`);
             isValid = false;
         }
     }

package/Core/Table/CompositeCell.js

@@ -1,5 +1,6 @@
 import { defaultArg } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
 import { OntologyAnnotation_$reflection, OntologyAnnotation } from "../OntologyAnnotation.js";
+import { Data_$reflection, Data } from "../Data.js";
 import { Union } from "../../fable_modules/fable-library-js.4.16.0/Types.js";
 import { union_type, string_type } from "../../fable_modules/fable-library-js.4.16.0/Reflection.js";
 
@@ -10,7 +11,7 @@ export class CompositeCell extends Union {
         this.fields = fields;
     }
     cases() {
-        return ["Term", "FreeText", "Unitized"];
+        return ["Term", "FreeText", "Unitized", "Data"];
     }
     get isUnitized() {
         const this$ = this;
@@ -24,9 +25,13 @@ export class CompositeCell extends Union {
         const this$ = this;
         return this$.tag === 1;
     }
+    get isData() {
+        const this$ = this;
+        return this$.tag === 3;
+    }
     GetEmptyCell() {
         const this$ = this;
-        return (this$.tag === 2) ? CompositeCell.emptyUnitized : ((this$.tag === 1) ? CompositeCell.emptyFreeText : CompositeCell.emptyTerm);
+        return (this$.tag === 2) ? CompositeCell.emptyUnitized : ((this$.tag === 1) ? CompositeCell.emptyFreeText : ((this$.tag === 3) ? CompositeCell.emptyData : CompositeCell.emptyTerm));
     }
     GetContent() {
         const this$ = this;
@@ -39,21 +44,43 @@ export class CompositeCell extends Union {
                 const oa_1 = this$.fields[1];
                 return [this$.fields[0], oa_1.NameText, defaultArg(oa_1.TermSourceREF, ""), defaultArg(oa_1.TermAccessionNumber, "")];
             }
+            case 3: {
+                const d = this$.fields[0];
+                return [defaultArg(d.Name, ""), defaultArg(d.Format, ""), defaultArg(d.SelectorFormat, "")];
+            }
             default:
                 return [this$.fields[0]];
         }
     }
     ToUnitizedCell() {
         const this$ = this;
-        return (this$.tag === 1) ? (new CompositeCell(2, ["", OntologyAnnotation.create(this$.fields[0])])) : ((this$.tag === 0) ? (new CompositeCell(2, ["", this$.fields[0]])) : this$);
+        switch (this$.tag) {
+            case 1:
+                return new CompositeCell(2, ["", OntologyAnnotation.create(this$.fields[0])]);
+            case 0:
+                return new CompositeCell(2, ["", this$.fields[0]]);
+            case 3:
+                throw new Error("Data cell cannot be converted to Unitized cell.");
+            default:
+                return this$;
+        }
     }
     ToTermCell() {
         const this$ = this;
-        return (this$.tag === 2) ? (new CompositeCell(0, [this$.fields[1]])) : ((this$.tag === 1) ? (new CompositeCell(0, [OntologyAnnotation.create(this$.fields[0])])) : this$);
+        switch (this$.tag) {
+            case 2:
+                return new CompositeCell(0, [this$.fields[1]]);
+            case 1:
+                return new CompositeCell(0, [OntologyAnnotation.create(this$.fields[0])]);
+            case 3:
+                throw new Error("Data cell cannot be converted to Term cell.");
+            default:
+                return this$;
+        }
     }
     ToFreeTextCell() {
         const this$ = this;
-        return (this$.tag === 0) ? (new CompositeCell(1, [this$.fields[0].NameText])) : ((this$.tag === 2) ? (new CompositeCell(1, [this$.fields[1].NameText])) : this$);
+        return (this$.tag === 0) ? (new CompositeCell(1, [this$.fields[0].NameText])) : ((this$.tag === 2) ? (new CompositeCell(1, [this$.fields[1].NameText])) : ((this$.tag === 3) ? (new CompositeCell(1, [defaultArg(this$.fields[0].Name, "")])) : this$));
     }
     get AsUnitized() {
         const this$ = this;
@@ -70,7 +97,7 @@ export class CompositeCell extends Union {
             return this$.fields[0];
         }
         else {
-            throw new Error("Not a Swate TermCell.");
+            throw new Error("Not a Term Cell.");
         }
     }
     get AsFreeText() {
@@ -79,7 +106,16 @@ export class CompositeCell extends Union {
             return this$.fields[0];
         }
         else {
-            throw new Error("Not a Swate TermCell.");
+            throw new Error("Not a FreeText Cell.");
+        }
+    }
+    get AsData() {
+        const this$ = this;
+        if (this$.tag === 3) {
+            return this$.fields[0];
+        }
+        else {
+            throw new Error("Not a Data Cell.");
         }
     }
     static createTerm(oa) {
@@ -98,6 +134,12 @@ export class CompositeCell extends Union {
     static createFreeText(value) {
         return new CompositeCell(1, [value]);
     }
+    static createData(d) {
+        return new CompositeCell(3, [d]);
+    }
+    static createDataFromString(value, format, selectorFormat) {
+        return new CompositeCell(3, [Data.create(void 0, value, void 0, format, selectorFormat)]);
+    }
     static get emptyTerm() {
         return new CompositeCell(0, [new OntologyAnnotation()]);
     }
@@ -107,16 +149,28 @@ export class CompositeCell extends Union {
     static get emptyUnitized() {
         return new CompositeCell(2, ["", new OntologyAnnotation()]);
     }
+    static get emptyData() {
+        return new CompositeCell(3, [Data.create()]);
+    }
     UpdateWithOA(oa) {
         const this$ = this;
-        return (this$.tag === 2) ? CompositeCell.createUnitized(this$.fields[0], oa) : ((this$.tag === 1) ? CompositeCell.createFreeText(oa.NameText) : CompositeCell.createTerm(oa));
+        switch (this$.tag) {
+            case 2:
+                return CompositeCell.createUnitized(this$.fields[0], oa);
+            case 1:
+                return CompositeCell.createFreeText(oa.NameText);
+            case 3:
+                throw new Error("Data cell cannot be updated with OntologyAnnotation.");
+            default:
+                return CompositeCell.createTerm(oa);
+        }
     }
     static updateWithOA(oa, cell) {
         return cell.UpdateWithOA(oa);
     }
     toString() {
         const this$ = this;
-        return (this$.tag === 1) ? this$.fields[0] : ((this$.tag === 2) ? (`${this$.fields[0]} ${this$.fields[1].NameText}`) : (`${this$.fields[0].NameText}`));
+        return (this$.tag === 1) ? this$.fields[0] : ((this$.tag === 2) ? (`${this$.fields[0]} ${this$.fields[1].NameText}`) : ((this$.tag === 3) ? (`${this$.fields[0].NameText}`) : (`${this$.fields[0].NameText}`)));
     }
     static term(oa) {
         return new CompositeCell(0, [oa]);
@@ -127,9 +181,12 @@ export class CompositeCell extends Union {
     static unitized(v, oa) {
         return new CompositeCell(2, [v, oa]);
     }
+    static data(d) {
+        return new CompositeCell(3, [d]);
+    }
 }
 
 export function CompositeCell_$reflection() {
-    return union_type("ARCtrl.CompositeCell", [], CompositeCell, () => [[["Item", OntologyAnnotation_$reflection()]], [["Item", string_type]], [["Item1", string_type], ["Item2", OntologyAnnotation_$reflection()]]]);
+    return union_type("ARCtrl.CompositeCell", [], CompositeCell, () => [[["Item", OntologyAnnotation_$reflection()]], [["Item", string_type]], [["Item1", string_type], ["Item2", OntologyAnnotation_$reflection()]], [["Item", Data_$reflection()]]]);
 }
 

package/Core/Table/CompositeColumn.js

@@ -23,6 +23,15 @@ export class CompositeColumn extends Record {
         if (cells.length === 0) {
             return true;
         }
+        else if (header.IsDataColumn && (item(0, cells).isData ? true : item(0, cells).isFreeText)) {
+            return true;
+        }
+        else if (header.IsDataColumn) {
+            if (raiseExeption) {
+                throw new Error(`Invalid combination of header \`${header}\` and cells \`${item(0, cells)}\`, Data header should have either Data or Freetext cells`);
+            }
+            return false;
+        }
         else if (header.IsTermColumn && (item(0, cells).isTerm ? true : item(0, cells).isUnitized)) {
             return true;
         }

package/Core/Table/CompositeHeader.js

@@ -13,10 +13,10 @@ export class IOType extends Union {
         this.fields = fields;
     }
     cases() {
-        return ["Source", "Sample", "RawDataFile", "DerivedDataFile", "ImageFile", "Material", "FreeText"];
+        return ["Source", "Sample", "Data", "Material", "FreeText"];
     }
     static get All() {
-        return [new IOType(0, []), new IOType(1, []), new IOType(2, []), new IOType(3, []), new IOType(4, []), new IOType(5, [])];
+        return [new IOType(0, []), new IOType(1, []), new IOType(2, []), new IOType(3, [])];
     }
     static get Cases() {
         return map((x) => [x.tag, name(x)], getUnionCases(IOType_$reflection()));
@@ -27,7 +27,7 @@ export class IOType extends Union {
             let copyOfStruct;
             return `Input [${(copyOfStruct = x, toString(copyOfStruct))}]`;
         };
-        return (this$.tag === 6) ? stringCreate(this$.fields[0]) : stringCreate(this$);
+        return (this$.tag === 4) ? stringCreate(this$.fields[0]) : stringCreate(this$);
     }
     get asOutput() {
         const this$ = this;
@@ -35,49 +35,17 @@ export class IOType extends Union {
             let copyOfStruct;
             return `Output [${(copyOfStruct = x, toString(copyOfStruct))}]`;
         };
-        return (this$.tag === 6) ? stringCreate(this$.fields[0]) : stringCreate(this$);
+        return (this$.tag === 4) ? stringCreate(this$.fields[0]) : stringCreate(this$);
     }
     Merge(other) {
         const this$ = this;
         switch (this$.tag) {
-            case 4:
-                switch (other.tag) {
-                    case 0:
-                        return new IOType(4, []);
-                    case 2:
-                        return new IOType(4, []);
-                    case 3:
-                        return new IOType(4, []);
-                    case 4:
-                        return new IOType(4, []);
-                    default:
-                        throw new Error(`ImageFile IO column and ${other} can not be merged`);
-                }
-            case 3:
-                switch (other.tag) {
-                    case 0:
-                        return new IOType(3, []);
-                    case 2:
-                        return new IOType(3, []);
-                    case 3:
-                        return new IOType(3, []);
-                    case 4:
-                        return new IOType(4, []);
-                    default:
-                        throw new Error(`DerivedDataFile IO column and ${other} can not be merged`);
-                }
             case 2:
-                switch (other.tag) {
-                    case 0:
-                        return new IOType(2, []);
-                    case 2:
-                        return new IOType(2, []);
-                    case 3:
-                        return new IOType(3, []);
-                    case 4:
-                        return new IOType(4, []);
-                    default:
-                        throw new Error(`RawDataFile IO column and ${other} can not be merged`);
+                if (other.tag === 0) {
+                    return new IOType(2, []);
+                }
+                else {
+                    throw new Error(`Data IO column and ${other} can not be merged`);
                 }
             case 1:
                 switch (other.tag) {
@@ -90,19 +58,19 @@ export class IOType extends Union {
                 }
             case 0:
                 return (other.tag === 0) ? (new IOType(0, [])) : other;
-            case 5:
+            case 3:
                 switch (other.tag) {
                     case 0:
-                        return new IOType(5, []);
-                    case 5:
-                        return new IOType(5, []);
+                        return new IOType(3, []);
+                    case 3:
+                        return new IOType(3, []);
                     default:
                         throw new Error(`Material IO column and ${other} can not be merged`);
                 }
             default:
-                if (other.tag === 6) {
+                if (other.tag === 4) {
                     if (this$.fields[0] === other.fields[0]) {
-                        return new IOType(6, [this$.fields[0]]);
+                        return new IOType(4, [this$.fields[0]]);
                     }
                     else {
                         throw new Error(`FreeText IO column names ${this$.fields[0]} and ${other.fields[0]} do differ`);
@@ -115,10 +83,10 @@ export class IOType extends Union {
     }
     toString() {
         const this$ = this;
-        return (this$.tag === 1) ? "Sample Name" : ((this$.tag === 2) ? "Raw Data File" : ((this$.tag === 3) ? "Derived Data File" : ((this$.tag === 4) ? "Image File" : ((this$.tag === 5) ? "Material" : ((this$.tag === 6) ? this$.fields[0] : "Source Name")))));
+        return (this$.tag === 1) ? "Sample Name" : ((this$.tag === 2) ? "Data" : ((this$.tag === 3) ? "Material" : ((this$.tag === 4) ? this$.fields[0] : "Source Name")));
     }
     static ofString(str) {
-        return (str === "Source") ? (new IOType(0, [])) : ((str === "Source Name") ? (new IOType(0, [])) : ((str === "Sample") ? (new IOType(1, [])) : ((str === "Sample Name") ? (new IOType(1, [])) : ((str === "RawDataFile") ? (new IOType(2, [])) : ((str === "Raw Data File") ? (new IOType(2, [])) : ((str === "DerivedDataFile") ? (new IOType(3, [])) : ((str === "Derived Data File") ? (new IOType(3, [])) : ((str === "ImageFile") ? (new IOType(4, [])) : ((str === "Image File") ? (new IOType(4, [])) : ((str === "Material") ? (new IOType(5, [])) : (new IOType(6, [str]))))))))))));
+        return (str === "Source") ? (new IOType(0, [])) : ((str === "Source Name") ? (new IOType(0, [])) : ((str === "Sample") ? (new IOType(1, [])) : ((str === "Sample Name") ? (new IOType(1, [])) : ((str === "RawDataFile") ? (new IOType(2, [])) : ((str === "Raw Data File") ? (new IOType(2, [])) : ((str === "DerivedDataFile") ? (new IOType(2, [])) : ((str === "Derived Data File") ? (new IOType(2, [])) : ((str === "ImageFile") ? (new IOType(2, [])) : ((str === "Image File") ? (new IOType(2, [])) : ((str === "Data") ? (new IOType(2, [])) : ((str === "Material") ? (new IOType(3, [])) : (new IOType(4, [str])))))))))))));
     }
     static tryOfHeaderString(str) {
         const matchValue = tryParseIOTypeHeader(str);
@@ -173,18 +141,10 @@ export class IOType extends Union {
                     break;
                 }
                 case 3: {
-                    matchResult = 3;
-                    break;
-                }
-                case 4: {
-                    matchResult = 4;
-                    break;
-                }
-                case 5: {
                     matchResult = 5;
                     break;
                 }
-                case 6: {
+                case 4: {
                     matchResult = 6;
                     break;
                 }
@@ -217,25 +177,19 @@ export class IOType extends Union {
     static sample() {
         return new IOType(1, []);
     }
-    static rawDataFile() {
+    static data() {
         return new IOType(2, []);
     }
-    static derivedDataFile() {
-        return new IOType(3, []);
-    }
-    static imageFile() {
-        return new IOType(4, []);
-    }
     static material() {
-        return new IOType(5, []);
+        return new IOType(3, []);
     }
     static freeText(s) {
-        return new IOType(6, [s]);
+        return new IOType(4, [s]);
     }
 }
 
 export function IOType_$reflection() {
-    return union_type("ARCtrl.IOType", [], IOType, () => [[], [], [], [], [], [], [["Item", string_type]]]);
+    return union_type("ARCtrl.IOType", [], IOType, () => [[], [], [], [], [["Item", string_type]]]);
 }
 
 export class CompositeHeader extends Union {
@@ -369,6 +323,42 @@ export class CompositeHeader extends Union {
                 return false;
         }
     }
+    get IsDataColumn() {
+        const this$ = this;
+        let matchResult, anythingElse;
+        switch (this$.tag) {
+            case 11: {
+                if (this$.fields[0].tag === 2) {
+                    matchResult = 0;
+                }
+                else {
+                    matchResult = 1;
+                    anythingElse = this$;
+                }
+                break;
+            }
+            case 12: {
+                if (this$.fields[0].tag === 2) {
+                    matchResult = 0;
+                }
+                else {
+                    matchResult = 1;
+                    anythingElse = this$;
+                }
+                break;
+            }
+            default: {
+                matchResult = 1;
+                anythingElse = this$;
+            }
+        }
+        switch (matchResult) {
+            case 0:
+                return true;
+            default:
+                return false;
+        }
+    }
     get IsFeaturedColumn() {
         const this$ = this;
         return this$.tag === 4;

package/Core/Table/DataMap.js

@@ -0,0 +1,166 @@
+import { CompositeHeader, IOType } from "./CompositeHeader.js";
+import { OntologyAnnotation } from "../OntologyAnnotation.js";
+import { exists as exists_1, ofArray } from "../../fable_modules/fable-library-js.4.16.0/List.js";
+import { exists } from "../../fable_modules/fable-library-js.4.16.0/Seq.js";
+import { arrayHash, equalArrays, safeHash, equals } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { printf, toFail } from "../../fable_modules/fable-library-js.4.16.0/String.js";
+import { SanityChecks_validate } from "./ArcTableAux.js";
+import { ArcTable } from "./ArcTable.js";
+import { class_type } from "../../fable_modules/fable-library-js.4.16.0/Reflection.js";
+import { Dictionary } from "../../fable_modules/fable-library-js.4.16.0/MutableMap.js";
+import { unwrap } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+
+export const DataMapAux_dataHeader = new CompositeHeader(11, [new IOType(2, [])]);
+
+export const DataMapAux_explication = new OntologyAnnotation("Clarification", "NCIT", "http://purl.obolibrary.org/obo/NCIT_C94778");
+
+export const DataMapAux_explicationHeader = new CompositeHeader(3, [DataMapAux_explication]);
+
+export const DataMapAux_unit = new OntologyAnnotation("Unit", "UO", "http://purl.obolibrary.org/obo/UO_0000000");
+
+export const DataMapAux_unitHeader = new CompositeHeader(3, [DataMapAux_unit]);
+
+export const DataMapAux_objectType = new OntologyAnnotation("Data Type", "NCIT", "http://purl.obolibrary.org/obo/NCIT_C42645");
+
+export const DataMapAux_objectTypeHeader = new CompositeHeader(3, [DataMapAux_objectType]);
+
+export const DataMapAux_descriptionHeader = new CompositeHeader(13, ["Description"]);
+
+export const DataMapAux_generatedByHeader = new CompositeHeader(13, ["Generated By"]);
+
+export const DataMapAux_allowedHeaders = ofArray([DataMapAux_dataHeader, DataMapAux_explicationHeader, DataMapAux_unitHeader, DataMapAux_objectTypeHeader, DataMapAux_descriptionHeader, DataMapAux_generatedByHeader]);
+
+export function DataMapAux_validate(headers, values, raiseException) {
+    if (exists((h) => {
+        const hasForeignHeader = !exists_1((ah) => equals(ah, h), DataMapAux_allowedHeaders);
+        if (raiseException && hasForeignHeader) {
+            toFail(printf("Header %O is not allowed in DataMap"))(h);
+        }
+        return hasForeignHeader;
+    }, headers)) {
+        return SanityChecks_validate(headers, values, raiseException);
+    }
+    else {
+        return false;
+    }
+}
+
+export class DataMap {
+    constructor(headers, values) {
+        DataMapAux_validate(headers, values, true);
+        this.table = (new ArcTable("DataMap", headers, values));
+        this.staticHash = 0;
+    }
+    Equals(obj) {
+        let dm;
+        const this$ = this;
+        return (obj instanceof DataMap) && ((dm = obj, equals(DataMap__get_Table(this$), DataMap__get_Table(dm))));
+    }
+    GetHashCode() {
+        const this$ = this;
+        return safeHash(DataMap__get_Table(this$)) | 0;
+    }
+}
+
+export function DataMap_$reflection() {
+    return class_type("ARCtrl.DataMap", void 0, DataMap);
+}
+
+export function DataMap_$ctor_ZD0829CB(headers, values) {
+    return new DataMap(headers, values);
+}
+
+export function DataMap__get_Headers(this$) {
+    return this$.table.Headers;
+}
+
+export function DataMap__get_Values(this$) {
+    return this$.table.Values;
+}
+
+export function DataMap__get_StaticHash(this$) {
+    return this$.staticHash;
+}
+
+export function DataMap__set_StaticHash_Z524259A4(this$, value) {
+    this$.staticHash = (value | 0);
+}
+
+export function DataMap_init() {
+    return DataMap_$ctor_ZD0829CB([], new Dictionary([], {
+        Equals: equalArrays,
+        GetHashCode: arrayHash,
+    }));
+}
+
+export function DataMap__AddColumns_6369C010(this$, columns, skipFillMissing) {
+    columns.forEach((c) => {
+        c.Validate(true);
+    });
+    this$.table.AddColumns(columns, void 0, void 0, unwrap(skipFillMissing));
+    DataMapAux_validate(this$.table.Headers, this$.table.Values, true);
+}
+
+export function DataMap_addColumns_6369C010(columns, skipFillMissing) {
+    return (dm) => {
+        const dm_1 = DataMap__Copy(dm);
+        DataMap__AddColumns_6369C010(dm_1, columns, unwrap(skipFillMissing));
+        return dm_1;
+    };
+}
+
+export function DataMap__get_Table(this$) {
+    return this$.table;
+}
+
+export function DataMap__TryGetCellAt_Z37302880(this$, row, column) {
+    return this$.table.TryGetCellAt(row, column);
+}
+
+export function DataMap__GetExplicationColumn(this$) {
+    return this$.table.GetColumnByHeader(DataMapAux_explicationHeader);
+}
+
+export function DataMap__AddExplicationColumn_C98E589(this$, cells) {
+    this$.table.AddColumn(DataMapAux_explicationHeader, cells);
+}
+
+export function DataMap__GetUnitColumn(this$) {
+    return this$.table.GetColumnByHeader(DataMapAux_unitHeader);
+}
+
+export function DataMap__AddUnitColumn_C98E589(this$, cells) {
+    this$.table.AddColumn(DataMapAux_unitHeader, cells);
+}
+
+export function DataMap__GetDataTypeColumn(this$) {
+    return this$.table.GetColumnByHeader(DataMapAux_objectTypeHeader);
+}
+
+export function DataMap__AddDataTypeColumn_C98E589(this$, cells) {
+    this$.table.AddColumn(DataMapAux_objectTypeHeader, cells);
+}
+
+export function DataMap__GetDescriptionColumn(this$) {
+    return this$.table.GetColumnByHeader(DataMapAux_descriptionHeader);
+}
+
+export function DataMap__AddDescriptionColumn_C98E589(this$, cells) {
+    this$.table.AddColumn(DataMapAux_descriptionHeader, cells);
+}
+
+export function DataMap__GetRow_ABCEF95(this$, row, SkipValidation) {
+    return this$.table.GetRow(row, unwrap(SkipValidation));
+}
+
+export function DataMap_getRow_ABCEF95(row, SkipValidation) {
+    return (dm) => DataMap__GetRow_ABCEF95(dm, row, unwrap(SkipValidation));
+}
+
+export function DataMap__Copy(this$) {
+    return DataMap_$ctor_ZD0829CB(Array.from(DataMap__get_Headers(this$)), new Dictionary(DataMap__get_Values(this$), {
+        Equals: equalArrays,
+        GetHashCode: arrayHash,
+    }));
+}
+

package/FileSystem/FileSystemTree.js

@@ -224,19 +224,33 @@ export class FileSystemTree extends Union {
     static createEmptyFolder(name) {
         return FileSystemTree.createFolder(name, [FileSystemTree.createGitKeepFile()]);
     }
-    static createAssayFolder(assayName) {
+    static createAssayFolder(assayName, hasDataMap) {
+        const hasDataMap_1 = defaultArg(hasDataMap, false);
         const dataset = FileSystemTree.createEmptyFolder("dataset");
         const protocols = FileSystemTree.createEmptyFolder("protocols");
         const readme = FileSystemTree.createReadmeFile();
         const assayFile = FileSystemTree.createFile("isa.assay.xlsx");
-        return FileSystemTree.createFolder(assayName, [dataset, protocols, assayFile, readme]);
+        if (hasDataMap_1) {
+            const dataMapFile = FileSystemTree.createFile("isa.datamap.xlsx");
+            return FileSystemTree.createFolder(assayName, [dataset, protocols, assayFile, readme, dataMapFile]);
+        }
+        else {
+            return FileSystemTree.createFolder(assayName, [dataset, protocols, assayFile, readme]);
+        }
     }
-    static createStudyFolder(studyName) {
+    static createStudyFolder(studyName, hasDataMap) {
+        const hasDataMap_1 = defaultArg(hasDataMap, false);
         const resources = FileSystemTree.createEmptyFolder("resources");
         const protocols = FileSystemTree.createEmptyFolder("protocols");
         const readme = FileSystemTree.createReadmeFile();
         const studyFile = FileSystemTree.createFile("isa.study.xlsx");
-        return FileSystemTree.createFolder(studyName, [resources, protocols, studyFile, readme]);
+        if (hasDataMap_1) {
+            const dataMapFile = FileSystemTree.createFile("isa.datamap.xlsx");
+            return FileSystemTree.createFolder(studyName, [resources, protocols, studyFile, readme, dataMapFile]);
+        }
+        else {
+            return FileSystemTree.createFolder(studyName, [resources, protocols, studyFile, readme]);
+        }
     }
     static createInvestigationFile() {
         return FileSystemTree.createFile("isa.investigation.xlsx");

package/Json/Assay.js

@@ -39,7 +39,7 @@ export function Assay_encoder(assay) {
 
 export const Assay_decoder = object((get$) => {
     let objectArg, objectArg_1, objectArg_2, objectArg_3, arg_9, objectArg_4, arg_11, objectArg_5, arg_13, objectArg_6;
-    return ArcAssay.create((objectArg = get$.Required, objectArg.Field("Identifier", string)), unwrap((objectArg_1 = get$.Optional, objectArg_1.Field("MeasurementType", OntologyAnnotation_decoder))), unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("TechnologyType", OntologyAnnotation_decoder))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("TechnologyPlatform", OntologyAnnotation_decoder))), unwrap((arg_9 = Decode_resizeArray(ArcTable_decoder), (objectArg_4 = get$.Optional, objectArg_4.Field("Tables", arg_9)))), unwrap((arg_11 = Decode_resizeArray(Person_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("Performers", arg_11)))), unwrap((arg_13 = Decode_resizeArray(Comment_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Comments", arg_13)))));
+    return ArcAssay.create((objectArg = get$.Required, objectArg.Field("Identifier", string)), unwrap((objectArg_1 = get$.Optional, objectArg_1.Field("MeasurementType", OntologyAnnotation_decoder))), unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("TechnologyType", OntologyAnnotation_decoder))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("TechnologyPlatform", OntologyAnnotation_decoder))), unwrap((arg_9 = Decode_resizeArray(ArcTable_decoder), (objectArg_4 = get$.Optional, objectArg_4.Field("Tables", arg_9)))), void 0, unwrap((arg_11 = Decode_resizeArray(Person_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("Performers", arg_11)))), unwrap((arg_13 = Decode_resizeArray(Comment_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Comments", arg_13)))));
 });
 
 export function Assay_encoderCompressed(stringTable, oaTable, cellTable, assay) {
@@ -57,7 +57,7 @@ export function Assay_encoderCompressed(stringTable, oaTable, cellTable, assay)
 export function Assay_decoderCompressed(stringTable, oaTable, cellTable) {
     return object((get$) => {
         let objectArg, objectArg_1, objectArg_2, objectArg_3, arg_9, objectArg_4, arg_11, objectArg_5, arg_13, objectArg_6;
-        return ArcAssay.create((objectArg = get$.Required, objectArg.Field("Identifier", string)), unwrap((objectArg_1 = get$.Optional, objectArg_1.Field("MeasurementType", OntologyAnnotation_decoder))), unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("TechnologyType", OntologyAnnotation_decoder))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("TechnologyPlatform", OntologyAnnotation_decoder))), unwrap((arg_9 = Decode_resizeArray(ArcTable_decoderCompressed(stringTable, oaTable, cellTable)), (objectArg_4 = get$.Optional, objectArg_4.Field("Tables", arg_9)))), unwrap((arg_11 = Decode_resizeArray(Person_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("Performers", arg_11)))), unwrap((arg_13 = Decode_resizeArray(Comment_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Comments", arg_13)))));
+        return ArcAssay.create((objectArg = get$.Required, objectArg.Field("Identifier", string)), unwrap((objectArg_1 = get$.Optional, objectArg_1.Field("MeasurementType", OntologyAnnotation_decoder))), unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("TechnologyType", OntologyAnnotation_decoder))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("TechnologyPlatform", OntologyAnnotation_decoder))), unwrap((arg_9 = Decode_resizeArray(ArcTable_decoderCompressed(stringTable, oaTable, cellTable)), (objectArg_4 = get$.Optional, objectArg_4.Field("Tables", arg_9)))), void 0, unwrap((arg_11 = Decode_resizeArray(Person_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("Performers", arg_11)))), unwrap((arg_13 = Decode_resizeArray(Comment_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("Comments", arg_13)))));
     });
 }
 
@@ -94,7 +94,7 @@ export const Assay_ROCrate_decoder = object((get$) => {
         const a = ARCtrl_ArcTables__ArcTables_fromProcesses_Static_62A3309D(arg_4);
         return a.Tables;
     }, (arg_3 = list_2(Process_ROCrate_decoder), (objectArg_1 = get$.Optional, objectArg_1.Field("processSequence", arg_3))));
-    return new ArcAssay(identifier, unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("measurementType", OntologyAnnotation_ROCrate_decoderPropertyValue))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("technologyType", OntologyAnnotation_ROCrate_decoderDefinedTerm))), unwrap((objectArg_4 = get$.Optional, objectArg_4.Field("technologyPlatform", OntologyAnnotation_ROCrate_decoderDefinedTerm))), unwrap(tables), unwrap((arg_12 = Decode_resizeArray(Person_ROCrate_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("performers", arg_12)))), unwrap((arg_14 = Decode_resizeArray(Comment_ROCrate_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("comments", arg_14)))));
+    return new ArcAssay(identifier, unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("measurementType", OntologyAnnotation_ROCrate_decoderPropertyValue))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("technologyType", OntologyAnnotation_ROCrate_decoderDefinedTerm))), unwrap((objectArg_4 = get$.Optional, objectArg_4.Field("technologyPlatform", OntologyAnnotation_ROCrate_decoderDefinedTerm))), unwrap(tables), void 0, unwrap((arg_12 = Decode_resizeArray(Person_ROCrate_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("performers", arg_12)))), unwrap((arg_14 = Decode_resizeArray(Comment_ROCrate_decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("comments", arg_14)))));
 });
 
 export function Assay_ISAJson_encoder(a) {
@@ -123,7 +123,7 @@ export const Assay_ISAJson_decoder = Decode_objectNoAdditionalProperties(Assay_I
         const a = ARCtrl_ArcTables__ArcTables_fromProcesses_Static_62A3309D(arg_4);
         return a.Tables;
     }, (arg_3 = list_2(Process_ISAJson_decoder), (objectArg_1 = get$.Optional, objectArg_1.Field("processSequence", arg_3))));
-    return new ArcAssay(identifier, unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("measurementType", OntologyAnnotation_ISAJson_decoder))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("technologyType", OntologyAnnotation_ISAJson_decoder))), unwrap((arg_10 = map_1(JsonTypes_decomposeTechnologyPlatform, string), (objectArg_4 = get$.Optional, objectArg_4.Field("technologyPlatform", arg_10)))), unwrap(tables), void 0, unwrap((arg_12 = Decode_resizeArray(Comment_ISAJson_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("comments", arg_12)))));
+    return new ArcAssay(identifier, unwrap((objectArg_2 = get$.Optional, objectArg_2.Field("measurementType", OntologyAnnotation_ISAJson_decoder))), unwrap((objectArg_3 = get$.Optional, objectArg_3.Field("technologyType", OntologyAnnotation_ISAJson_decoder))), unwrap((arg_10 = map_1(JsonTypes_decomposeTechnologyPlatform, string), (objectArg_4 = get$.Optional, objectArg_4.Field("technologyPlatform", arg_10)))), unwrap(tables), void 0, void 0, unwrap((arg_12 = Decode_resizeArray(Comment_ISAJson_decoder), (objectArg_5 = get$.Optional, objectArg_5.Field("comments", arg_12)))));
 });
 
 export function ARCtrl_ArcAssay__ArcAssay_fromJsonString_Static_Z721C83C5(s) {