@nfdi4plants/arctrl 2.5.1 → 3.0.0-alpha.2

package/Core/Data.js

@@ -1,193 +0,0 @@
-import { trimStart, trim, printf, toText } from "../fable_modules/fable-library-js.4.24.0/String.js";
-import { item } from "../fable_modules/fable-library-js.4.24.0/Array.js";
-import { defaultArg, unwrap } from "../fable_modules/fable-library-js.4.24.0/Option.js";
-import { ResizeArray_map } from "./Helper/Collections.js";
-import { hash, boxHashSeq, boxHashOption, boxHashArray } from "./Helper/HashCodes.js";
-import { toString } from "../fable_modules/fable-library-js.4.24.0/Types.js";
-import { DataFile__get_AsString } from "./DataFile.js";
-import { class_type } from "../fable_modules/fable-library-js.4.24.0/Reflection.js";
-
-export function DataAux_nameFromPathAndSelector(path, selector) {
-    return toText(printf("%s#%s"))(path)(selector);
-}
-
-export function DataAux_pathAndSelectorFromName(name) {
-    const name_1 = trim(name, "#");
-    const parts = name_1.split("#");
-    if (parts.length === 2) {
-        return [item(0, parts), item(1, parts)];
-    }
-    else {
-        return [name_1, undefined];
-    }
-}
-
-export class Data {
-    constructor(id, name, dataType, format, selectorFormat, comments) {
-        this._id = id;
-        let patternInput_1;
-        if (name == null) {
-            patternInput_1 = [undefined, undefined];
-        }
-        else {
-            const patternInput = DataAux_pathAndSelectorFromName(name);
-            patternInput_1 = [patternInput[0], patternInput[1]];
-        }
-        this._selector = patternInput_1[1];
-        this._filePath = patternInput_1[0];
-        this._dataType = dataType;
-        this._format = format;
-        this._selectorFormat = selectorFormat;
-        this._comments = defaultArg(comments, []);
-    }
-    get ID() {
-        const this$ = this;
-        return unwrap(this$._id);
-    }
-    set ID(id) {
-        const this$ = this;
-        this$._id = id;
-    }
-    get Name() {
-        let matchValue, matchValue_1, p_1, p, s;
-        const this$ = this;
-        return unwrap((matchValue = this$._filePath, (matchValue_1 = this$._selector, (matchValue == null) ? undefined : ((matchValue_1 == null) ? ((p_1 = matchValue, p_1)) : ((p = matchValue, (s = matchValue_1, DataAux_nameFromPathAndSelector(p, s))))))));
-    }
-    set Name(name) {
-        const this$ = this;
-        if (name == null) {
-            this$._filePath = undefined;
-            this$._selector = undefined;
-        }
-        else {
-            const patternInput = DataAux_pathAndSelectorFromName(name);
-            this$._filePath = patternInput[0];
-            this$._selector = patternInput[1];
-        }
-    }
-    get FilePath() {
-        const this$ = this;
-        return unwrap(this$._filePath);
-    }
-    set FilePath(filePath) {
-        const this$ = this;
-        this$._filePath = filePath;
-    }
-    get Selector() {
-        const this$ = this;
-        return unwrap(this$._selector);
-    }
-    set Selector(selector) {
-        const this$ = this;
-        this$._selector = selector;
-    }
-    get DataType() {
-        const this$ = this;
-        return unwrap(this$._dataType);
-    }
-    set DataType(dataType) {
-        const this$ = this;
-        this$._dataType = dataType;
-    }
-    get Format() {
-        const this$ = this;
-        return unwrap(this$._format);
-    }
-    set Format(format) {
-        const this$ = this;
-        this$._format = format;
-    }
-    get SelectorFormat() {
-        const this$ = this;
-        return unwrap(this$._selectorFormat);
-    }
-    set SelectorFormat(selectorFormat) {
-        const this$ = this;
-        this$._selectorFormat = selectorFormat;
-    }
-    get Comments() {
-        const this$ = this;
-        return this$._comments;
-    }
-    set Comments(comments) {
-        const this$ = this;
-        this$._comments = comments;
-    }
-    static make(id, name, dataType, format, selectorFormat, comments) {
-        return new Data(unwrap(id), unwrap(name), unwrap(dataType), unwrap(format), unwrap(selectorFormat), unwrap(comments));
-    }
-    static create(Id, Name, DataType, Format, SelectorFormat, Comments) {
-        return Data.make(Id, Name, DataType, Format, SelectorFormat, Comments);
-    }
-    static get empty() {
-        return Data.create();
-    }
-    get NameText() {
-        const this$ = this;
-        return defaultArg(this$.Name, "");
-    }
-    GetAbsolutePathForAssay(assayIdentifier, checkExistenceFromRoot) {
-        const this$ = this;
-        const checkExistenceFromRoot_1 = defaultArg(checkExistenceFromRoot, (_arg) => false);
-        const matchValue = this$.FilePath;
-        if (matchValue == null) {
-            throw new Error("Data does not have a file path");
-        }
-        else {
-            const p = matchValue;
-            return ((((checkExistenceFromRoot_1(p) ? true : p.startsWith("assays/")) ? true : p.startsWith("studies/")) ? true : p.startsWith("http:")) ? true : p.startsWith("https:")) ? p : ((`assays/${assayIdentifier}/dataset/`) + trimStart(p, "/"));
-        }
-    }
-    GetAbsolutePathForStudy(studyIdentifier, checkExistenceFromRoot) {
-        const this$ = this;
-        const checkExistenceFromRoot_1 = defaultArg(checkExistenceFromRoot, (_arg) => false);
-        const matchValue = this$.FilePath;
-        if (matchValue == null) {
-            throw new Error("Data does not have a file path");
-        }
-        else {
-            const p = matchValue;
-            return ((((checkExistenceFromRoot_1(p) ? true : p.startsWith("assays/")) ? true : p.startsWith("studies/")) ? true : p.startsWith("http:")) ? true : p.startsWith("https:")) ? p : ((`studies/${studyIdentifier}/resources/`) + trimStart(p, "/"));
-        }
-    }
-    Copy() {
-        const this$ = this;
-        const nextComments = ResizeArray_map((c) => c.Copy(), this$.Comments);
-        return new Data(unwrap(this$.ID), unwrap(this$.Name), unwrap(this$.DataType), unwrap(this$.Format), unwrap(this$.SelectorFormat), nextComments);
-    }
-    GetHashCode() {
-        const this$ = this;
-        return boxHashArray([boxHashOption(this$.ID), boxHashOption(this$.Name), boxHashOption(this$.DataType), boxHashOption(this$.Format), boxHashOption(this$.SelectorFormat), boxHashSeq(this$.Comments)]) | 0;
-    }
-    Equals(obj) {
-        const this$ = this;
-        return hash(this$) === hash(obj);
-    }
-    Print() {
-        const this$ = this;
-        return toString(this$);
-    }
-    PrintCompact() {
-        const this$ = this;
-        const matchValue = this$.DataType;
-        if (matchValue == null) {
-            const arg_2 = this$.NameText;
-            return toText(printf("%s"))(arg_2);
-        }
-        else {
-            const t = matchValue;
-            const arg = this$.NameText;
-            const arg_1 = DataFile__get_AsString(t);
-            return toText(printf("%s [%s]"))(arg)(arg_1);
-        }
-    }
-}
-
-export function Data_$reflection() {
-    return class_type("ARCtrl.Data", undefined, Data);
-}
-
-export function Data_$ctor_5909441C(id, name, dataType, format, selectorFormat, comments) {
-    return new Data(id, name, dataType, format, selectorFormat, comments);
-}
-

package/Core/DataContext.js

@@ -1,139 +0,0 @@
-import { hash, boxHashSeq, boxHashOption, boxHashArray } from "./Helper/HashCodes.js";
-import { unwrap, map } from "../fable_modules/fable-library-js.4.24.0/Option.js";
-import { Value as Value_1 } from "./Value.js";
-import { Data_$reflection, Data } from "./Data.js";
-import { class_type } from "../fable_modules/fable-library-js.4.24.0/Reflection.js";
-import { OntologyAnnotation } from "./OntologyAnnotation.js";
-
-export class DataContext extends Data {
-    constructor(id, name, dataType, format, selectorFormat, explication, unit, objectType, label, description, generatedBy, comments) {
-        super(unwrap(id), unwrap(name), unwrap(dataType), unwrap(format), unwrap(selectorFormat), unwrap(comments));
-        this._explication = explication;
-        this._unit = unit;
-        this._objectType = objectType;
-        this._label = label;
-        this._description = description;
-        this._generatedBy = generatedBy;
-    }
-    GetHashCode() {
-        const this$ = this;
-        return boxHashArray([boxHashOption(this$.ID), boxHashOption(this$.Name), boxHashOption(this$.DataType), boxHashOption(this$.Format), boxHashOption(this$.SelectorFormat), boxHashSeq(this$.Comments), boxHashOption(DataContext__get_Explication(this$)), boxHashOption(DataContext__get_Unit(this$)), boxHashOption(DataContext__get_ObjectType(this$)), boxHashOption(DataContext__get_Label(this$)), boxHashOption(DataContext__get_Description(this$)), boxHashOption(DataContext__get_GeneratedBy(this$))]) | 0;
-    }
-    Equals(obj) {
-        const this$ = this;
-        return hash(this$) === hash(obj);
-    }
-    AlternateName() {
-        const this$ = this;
-        return DataContext__get_Label(this$);
-    }
-    MeasurementMethod() {
-        const this$ = this;
-        return DataContext__get_GeneratedBy(this$);
-    }
-    GetCategory() {
-        const this$ = this;
-        return DataContext__get_Explication(this$);
-    }
-    GetValue() {
-        const this$ = this;
-        return map((Item) => (new Value_1(0, [Item])), DataContext__get_ObjectType(this$));
-    }
-    GetUnit() {
-        const this$ = this;
-        return DataContext__get_Unit(this$);
-    }
-    GetAdditionalType() {
-        return "DataContext";
-    }
-    Description() {
-        const this$ = this;
-        return DataContext__get_Description(this$);
-    }
-}
-
-export function DataContext_$reflection() {
-    return class_type("ARCtrl.DataContext", undefined, DataContext, Data_$reflection());
-}
-
-export function DataContext_$ctor_Z780A8A2A(id, name, dataType, format, selectorFormat, explication, unit, objectType, label, description, generatedBy, comments) {
-    return new DataContext(id, name, dataType, format, selectorFormat, explication, unit, objectType, label, description, generatedBy, comments);
-}
-
-export function DataContext__get_Explication(this$) {
-    return this$._explication;
-}
-
-export function DataContext__set_Explication_279AAFF2(this$, explication) {
-    this$._explication = explication;
-}
-
-export function DataContext__get_Unit(this$) {
-    return this$._unit;
-}
-
-export function DataContext__set_Unit_279AAFF2(this$, unit) {
-    this$._unit = unit;
-}
-
-export function DataContext__get_ObjectType(this$) {
-    return this$._objectType;
-}
-
-export function DataContext__set_ObjectType_279AAFF2(this$, objectType) {
-    this$._objectType = objectType;
-}
-
-export function DataContext__get_Label(this$) {
-    return this$._label;
-}
-
-export function DataContext__set_Label_6DFDD678(this$, label) {
-    this$._label = label;
-}
-
-export function DataContext__get_Description(this$) {
-    return this$._description;
-}
-
-export function DataContext__set_Description_6DFDD678(this$, description) {
-    this$._description = description;
-}
-
-export function DataContext__get_GeneratedBy(this$) {
-    return this$._generatedBy;
-}
-
-export function DataContext__set_GeneratedBy_6DFDD678(this$, generatedBy) {
-    this$._generatedBy = generatedBy;
-}
-
-export function DataContext__AsData(this$) {
-    return new Data(unwrap(this$.ID), unwrap(this$.Name), unwrap(this$.DataType), unwrap(this$.Format), unwrap(this$.SelectorFormat), this$.Comments);
-}
-
-export function DataContext_fromData_Z7B4D7BF5(data, explication, unit, objectType, label, description, generatedBy) {
-    return DataContext_$ctor_Z780A8A2A(unwrap(data.ID), unwrap(data.Name), unwrap(data.DataType), unwrap(data.Format), unwrap(data.SelectorFormat), unwrap(explication), unwrap(unit), unwrap(objectType), unwrap(label), unwrap(description), unwrap(generatedBy), data.Comments);
-}
-
-export function DataContext_createAsPV(alternateName, measurementMethod, description, category, value, unit) {
-    let oa, v;
-    return DataContext_$ctor_Z780A8A2A(undefined, undefined, undefined, undefined, undefined, unwrap(category), unwrap(unit), unwrap((value == null) ? undefined : ((value.tag === 0) ? ((oa = value.fields[0], oa)) : ((v = value, new OntologyAnnotation(v.Text))))), unwrap(alternateName), unwrap(description), unwrap(measurementMethod));
-}
-
-export function DataContext__Copy(this$) {
-    const copy = DataContext_$ctor_Z780A8A2A();
-    copy.ID = this$.ID;
-    copy.Name = this$.Name;
-    copy.DataType = this$.DataType;
-    copy.Format = this$.Format;
-    copy.SelectorFormat = this$.SelectorFormat;
-    DataContext__set_Explication_279AAFF2(copy, DataContext__get_Explication(this$));
-    DataContext__set_Unit_279AAFF2(copy, DataContext__get_Unit(this$));
-    DataContext__set_ObjectType_279AAFF2(copy, DataContext__get_ObjectType(this$));
-    DataContext__set_Description_6DFDD678(copy, DataContext__get_Description(this$));
-    DataContext__set_GeneratedBy_6DFDD678(copy, DataContext__get_GeneratedBy(this$));
-    copy.Comments = this$.Comments;
-    return copy;
-}
-

package/Core/DataFile.js

@@ -1,84 +0,0 @@
-import { Union } from "../fable_modules/fable-library-js.4.24.0/Types.js";
-import { union_type } from "../fable_modules/fable-library-js.4.24.0/Reflection.js";
-
-export class DataFile extends Union {
-    constructor(tag, fields) {
-        super();
-        this.tag = tag;
-        this.fields = fields;
-    }
-    cases() {
-        return ["RawDataFile", "DerivedDataFile", "ImageFile"];
-    }
-}
-
-export function DataFile_$reflection() {
-    return union_type("ARCtrl.DataFile", [], DataFile, () => [[], [], []]);
-}
-
-export function DataFile_get_RawDataFileJson() {
-    return "Raw Data File";
-}
-
-export function DataFile_get_DerivedDataFileJson() {
-    return "Derived Data File";
-}
-
-export function DataFile_get_ImageFileJson() {
-    return "Image File";
-}
-
-export function DataFile__get_AsString(this$) {
-    switch (this$.tag) {
-        case 1:
-            return "Derived Data File";
-        case 2:
-            return "Image File";
-        default:
-            return "Raw Data File";
-    }
-}
-
-export function DataFile_fromString_Z721C83C5(dt) {
-    switch (dt) {
-        case "RawDataFileJson":
-        case "Raw Data File":
-            return new DataFile(0, []);
-        case "DerivedDataFileJson":
-        case "Derived Data File":
-            return new DataFile(1, []);
-        case "ImageFileJson":
-        case "Image File":
-            return new DataFile(2, []);
-        default:
-            throw new Error(`Invalid DataFile type: ${dt}`);
-    }
-}
-
-export function DataFile__get_IsDerivedData(this$) {
-    if (this$.tag === 1) {
-        return true;
-    }
-    else {
-        return false;
-    }
-}
-
-export function DataFile__get_IsRawData(this$) {
-    if (this$.tag === 0) {
-        return true;
-    }
-    else {
-        return false;
-    }
-}
-
-export function DataFile__get_IsImage(this$) {
-    if (this$.tag === 2) {
-        return true;
-    }
-    else {
-        return false;
-    }
-}
-

package/Core/DataMap.js

@@ -1,191 +0,0 @@
-import { CompositeHeader, IOType } from "./Table/CompositeHeader.js";
-import { OntologyAnnotation } from "./OntologyAnnotation.js";
-import { ofArray } from "../fable_modules/fable-library-js.4.24.0/List.js";
-import { iterateIndexed, map } from "../fable_modules/fable-library-js.4.24.0/Seq.js";
-import { CompositeCell } from "./Table/CompositeCell.js";
-import { boxHashSeq, hash } from "./Helper/HashCodes.js";
-import { class_type } from "../fable_modules/fable-library-js.4.24.0/Reflection.js";
-import { DataContext__Copy, DataContext__set_Description_6DFDD678, DataContext__get_Description, DataContext__set_ObjectType_279AAFF2, DataContext__get_ObjectType, DataContext__set_Unit_279AAFF2, DataContext__get_Unit, DataContext__set_Explication_279AAFF2, DataContext__get_Explication } from "./DataContext.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_labelHeader = new CompositeHeader(13, ["Label"]);
-
-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_getOntologyColumn(f, dataContexts) {
-    const collection = map((dc) => {
-        const matchValue = f(dc);
-        if (matchValue == null) {
-            return CompositeCell.emptyTerm;
-        }
-        else {
-            return new CompositeCell(0, [matchValue]);
-        }
-    }, dataContexts);
-    return Array.from(collection);
-}
-
-export function DataMapAux_getStringColumn(f, dataContexts) {
-    const collection = map((dc) => {
-        const matchValue = f(dc);
-        if (matchValue == null) {
-            return CompositeCell.emptyFreeText;
-        }
-        else {
-            return new CompositeCell(1, [matchValue]);
-        }
-    }, dataContexts);
-    return Array.from(collection);
-}
-
-export function DataMapAux_setOntologyColumn(f, column, dataContexts) {
-    iterateIndexed((i, cell) => {
-        if (cell.tag === 0) {
-            f(dataContexts[i], cell.fields[0]);
-        }
-    }, column);
-}
-
-export function DataMapAux_setStringColumn(f, column, dataContexts) {
-    iterateIndexed((i, cell) => {
-        if (cell.tag === 1) {
-            f(dataContexts[i], cell.fields[0]);
-        }
-    }, column);
-}
-
-export function DataMapAux_SanityChecks_rowIndexInBoundaries(row, dataContexts) {
-    if (row < 0) {
-        throw new Error("Row index must be greater or equal to 0.");
-    }
-    if (row >= dataContexts.length) {
-        throw new Error("Row index must be less than the number of rows.");
-    }
-}
-
-export function DataMapAux_SanityChecks_lengthOfNewColumn(newColumn, dataContexts) {
-    if (newColumn.length !== dataContexts.length) {
-        throw new Error("Length of new column does not match length of data contexts.");
-    }
-}
-
-export class DataMap {
-    constructor(dataContexts) {
-        this.staticHash = 0;
-        this["dataContexts@108"] = dataContexts;
-    }
-    Equals(obj) {
-        const this$ = this;
-        return hash(this$) === hash(obj);
-    }
-    GetHashCode() {
-        const this$ = this;
-        return boxHashSeq(this$["dataContexts@108"]) | 0;
-    }
-}
-
-export function DataMap_$reflection() {
-    return class_type("ARCtrl.DataMap", undefined, DataMap);
-}
-
-export function DataMap_$ctor_4E3220A7(dataContexts) {
-    return new DataMap(dataContexts);
-}
-
-export function DataMap__get_StaticHash(this$) {
-    return this$.staticHash;
-}
-
-export function DataMap__set_StaticHash_Z524259A4(this$, value) {
-    this$.staticHash = (value | 0);
-}
-
-export function DataMap__get_DataContexts(this$) {
-    return this$["dataContexts@108"];
-}
-
-export function DataMap_init() {
-    return DataMap_$ctor_4E3220A7([]);
-}
-
-export function DataMap__GetExplicationColumn(this$) {
-    return DataMapAux_getOntologyColumn(DataContext__get_Explication, this$["dataContexts@108"]);
-}
-
-export function DataMap__SetExplicationColumn_C98E589(this$, cells) {
-    DataMapAux_setOntologyColumn((dc, oa) => {
-        DataContext__set_Explication_279AAFF2(dc, oa);
-    }, cells, this$["dataContexts@108"]);
-}
-
-export function DataMap__GetUnitColumn(this$) {
-    return DataMapAux_getOntologyColumn(DataContext__get_Unit, this$["dataContexts@108"]);
-}
-
-export function DataMap__SetUnitColumn_C98E589(this$, cells) {
-    DataMapAux_setOntologyColumn((dc, oa) => {
-        DataContext__set_Unit_279AAFF2(dc, oa);
-    }, cells, this$["dataContexts@108"]);
-}
-
-export function DataMap__GetObjectTypeColumn(this$) {
-    return DataMapAux_getOntologyColumn(DataContext__get_ObjectType, this$["dataContexts@108"]);
-}
-
-export function DataMap__SetDataTypeColumn_C98E589(this$, cells) {
-    DataMapAux_setOntologyColumn((dc, oa) => {
-        DataContext__set_ObjectType_279AAFF2(dc, oa);
-    }, cells, this$["dataContexts@108"]);
-}
-
-export function DataMap__GetLabelColumn(this$) {
-    return DataMapAux_getStringColumn((dc) => dc.Name, this$["dataContexts@108"]);
-}
-
-export function DataMap__SetLabelColumn_C98E589(this$, cells) {
-    DataMapAux_setStringColumn((dc, s) => {
-        dc.Name = s;
-    }, cells, this$["dataContexts@108"]);
-}
-
-export function DataMap__GetDescriptionColumn(this$) {
-    return DataMapAux_getStringColumn(DataContext__get_Description, this$["dataContexts@108"]);
-}
-
-export function DataMap__SetDescriptionColumn_C98E589(this$, cells) {
-    DataMapAux_setStringColumn((dc, s) => {
-        DataContext__set_Description_6DFDD678(dc, s);
-    }, cells, this$["dataContexts@108"]);
-}
-
-export function DataMap__GetDataContext_Z58338566(this$, row, SkipValidation) {
-    DataMapAux_SanityChecks_rowIndexInBoundaries(row, this$["dataContexts@108"]);
-    return this$["dataContexts@108"][row];
-}
-
-export function DataMap_getDataContext_Z58338566(row, SkipValidation) {
-    return (dm) => DataMap__GetDataContext_Z58338566(dm, row, SkipValidation);
-}
-
-export function DataMap__Copy(this$) {
-    let collection;
-    return DataMap_$ctor_4E3220A7((collection = map(DataContext__Copy, this$["dataContexts@108"]), Array.from(collection)));
-}
-