@nfdi4plants/arctrl 1.1.0 → 2.0.0-alpha.1

package/Core/OntologySourceReference.js

@@ -0,0 +1,92 @@
+import { defaultArg, unwrap } from "../fable_modules/fable-library-js.4.16.0/Option.js";
+import { ResizeArray_map } from "./Helper/Collections.js";
+import { boxHashSeq, boxHashOption, boxHashArray } from "./Helper/HashCodes.js";
+import { safeHash } from "../fable_modules/fable-library-js.4.16.0/Util.js";
+import { class_type } from "../fable_modules/fable-library-js.4.16.0/Reflection.js";
+
+export class OntologySourceReference {
+    constructor(description, file, name, version, comments) {
+        this._description = description;
+        this._file = file;
+        this._name = name;
+        this._version = version;
+        this._comments = defaultArg(comments, []);
+    }
+    get Description() {
+        const this$ = this;
+        return unwrap(this$._description);
+    }
+    set Description(description) {
+        const this$ = this;
+        this$._description = description;
+    }
+    get File() {
+        const this$ = this;
+        return unwrap(this$._file);
+    }
+    set File(file) {
+        const this$ = this;
+        this$._file = file;
+    }
+    get Name() {
+        const this$ = this;
+        return unwrap(this$._name);
+    }
+    set Name(name) {
+        const this$ = this;
+        this$._name = name;
+    }
+    get Version() {
+        const this$ = this;
+        return unwrap(this$._version);
+    }
+    set Version(version) {
+        const this$ = this;
+        this$._version = version;
+    }
+    get Comments() {
+        const this$ = this;
+        return this$._comments;
+    }
+    set Comments(comments) {
+        const this$ = this;
+        this$._comments = comments;
+    }
+    static make(description, file, name, version, comments) {
+        return new OntologySourceReference(unwrap(description), unwrap(file), unwrap(name), unwrap(version), comments);
+    }
+    static create(description, file, name, version, comments) {
+        const comments_1 = defaultArg(comments, []);
+        return OntologySourceReference.make(description, file, name, version, comments_1);
+    }
+    static get empty() {
+        return OntologySourceReference.create();
+    }
+    Copy() {
+        const this$ = this;
+        const nextComments = ResizeArray_map((c) => c.Copy(), this$.Comments);
+        const description = this$.Description;
+        const file = this$.File;
+        const name = this$.Name;
+        const version = this$.Version;
+        return OntologySourceReference.make(description, file, name, version, nextComments);
+    }
+    GetHashCode() {
+        const this$ = this;
+        return boxHashArray([boxHashOption(this$.Description), boxHashOption(this$.File), boxHashOption(this$.Name), boxHashOption(this$.Version), boxHashSeq(this$.Comments)]) | 0;
+    }
+    Equals(obj) {
+        let t;
+        const this$ = this;
+        return (obj instanceof OntologySourceReference) && ((t = obj, safeHash(this$) === safeHash(t)));
+    }
+}
+
+export function OntologySourceReference_$reflection() {
+    return class_type("ARCtrl.OntologySourceReference", void 0, OntologySourceReference);
+}
+
+export function OntologySourceReference_$ctor_7C9A7CF8(description, file, name, version, comments) {
+    return new OntologySourceReference(description, file, name, version, comments);
+}
+

package/Core/Person.js

@@ -0,0 +1,194 @@
+import { map as map_1, defaultArg, unwrap } from "../fable_modules/fable-library-js.4.16.0/Option.js";
+import { tryFind } from "../fable_modules/fable-library-js.4.16.0/Array.js";
+import { equals } from "../fable_modules/fable-library-js.4.16.0/Util.js";
+import { ofArray, choose, map, singleton, append } from "../fable_modules/fable-library-js.4.16.0/List.js";
+import { ResizeArray_map } from "./Helper/Collections.js";
+import { hash, boxHashSeq, boxHashOption, boxHashArray } from "./Helper/HashCodes.js";
+import { StringBuilder__Append_Z721C83C5, StringBuilder_$ctor } from "../fable_modules/fable-library-js.4.16.0/System.Text.js";
+import { printf, toText, join } from "../fable_modules/fable-library-js.4.16.0/String.js";
+import { length } from "../fable_modules/fable-library-js.4.16.0/Seq.js";
+import { toString } from "../fable_modules/fable-library-js.4.16.0/Types.js";
+import { class_type } from "../fable_modules/fable-library-js.4.16.0/Reflection.js";
+
+export class Person {
+    constructor(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles, comments) {
+        this._orcid = orcid;
+        this._lastName = lastName;
+        this._firstName = firstName;
+        this._midInitials = midInitials;
+        this._email = email;
+        this._phone = phone;
+        this._fax = fax;
+        this._address = address;
+        this._affiliation = affiliation;
+        this._roles = defaultArg(roles, []);
+        this._comments = defaultArg(comments, []);
+    }
+    get ORCID() {
+        const this$ = this;
+        return unwrap(this$._orcid);
+    }
+    set ORCID(orcid) {
+        const this$ = this;
+        this$._orcid = orcid;
+    }
+    get FirstName() {
+        const this$ = this;
+        return unwrap(this$._firstName);
+    }
+    set FirstName(firstName) {
+        const this$ = this;
+        this$._firstName = firstName;
+    }
+    get LastName() {
+        const this$ = this;
+        return unwrap(this$._lastName);
+    }
+    set LastName(lastName) {
+        const this$ = this;
+        this$._lastName = lastName;
+    }
+    get MidInitials() {
+        const this$ = this;
+        return unwrap(this$._midInitials);
+    }
+    set MidInitials(midInitials) {
+        const this$ = this;
+        this$._midInitials = midInitials;
+    }
+    get Address() {
+        const this$ = this;
+        return unwrap(this$._address);
+    }
+    set Address(address) {
+        const this$ = this;
+        this$._address = address;
+    }
+    get Affiliation() {
+        const this$ = this;
+        return unwrap(this$._affiliation);
+    }
+    set Affiliation(affiliation) {
+        const this$ = this;
+        this$._affiliation = affiliation;
+    }
+    get EMail() {
+        const this$ = this;
+        return unwrap(this$._email);
+    }
+    set EMail(email) {
+        const this$ = this;
+        this$._email = email;
+    }
+    get Phone() {
+        const this$ = this;
+        return unwrap(this$._phone);
+    }
+    set Phone(phone) {
+        const this$ = this;
+        this$._phone = phone;
+    }
+    get Fax() {
+        const this$ = this;
+        return unwrap(this$._fax);
+    }
+    set Fax(fax) {
+        const this$ = this;
+        this$._fax = fax;
+    }
+    get Roles() {
+        const this$ = this;
+        return this$._roles;
+    }
+    set Roles(roles) {
+        const this$ = this;
+        this$._roles = roles;
+    }
+    get Comments() {
+        const this$ = this;
+        return this$._comments;
+    }
+    set Comments(comments) {
+        const this$ = this;
+        this$._comments = comments;
+    }
+    static make(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles, comments) {
+        return new Person(unwrap(orcid), unwrap(lastName), unwrap(firstName), unwrap(midInitials), unwrap(email), unwrap(phone), unwrap(fax), unwrap(address), unwrap(affiliation), roles, comments);
+    }
+    static create(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles, comments) {
+        const roles_1 = defaultArg(roles, []);
+        const comments_1 = defaultArg(comments, []);
+        return Person.make(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles_1, comments_1);
+    }
+    static get empty() {
+        return Person.create();
+    }
+    static tryGetByFullName(firstName, midInitials, lastName, persons) {
+        return tryFind((p) => {
+            if (midInitials === "") {
+                if (equals(p.FirstName, firstName)) {
+                    return equals(p.LastName, lastName);
+                }
+                else {
+                    return false;
+                }
+            }
+            else if (equals(p.FirstName, firstName) && equals(p.MidInitials, midInitials)) {
+                return equals(p.LastName, lastName);
+            }
+            else {
+                return false;
+            }
+        }, persons);
+    }
+    static existsByFullName(firstName, midInitials, lastName, persons) {
+        return persons.some((p) => ((midInitials === "") ? (equals(p.FirstName, firstName) && equals(p.LastName, lastName)) : ((equals(p.FirstName, firstName) && equals(p.MidInitials, midInitials)) && equals(p.LastName, lastName))));
+    }
+    static add(persons, person) {
+        return append(persons, singleton(person));
+    }
+    static removeByFullName(firstName, midInitials, lastName, persons) {
+        return persons.filter((p) => ((midInitials === "") ? !(equals(p.FirstName, firstName) && equals(p.LastName, lastName)) : !((equals(p.FirstName, firstName) && equals(p.MidInitials, midInitials)) && equals(p.LastName, lastName))));
+    }
+    Copy() {
+        const this$ = this;
+        const nextComments = ResizeArray_map((c) => c.Copy(), this$.Comments);
+        const nextRoles = ResizeArray_map((c_1) => c_1.Copy(), this$.Roles);
+        const orcid = this$.ORCID;
+        const lastName = this$.LastName;
+        const firstName = this$.FirstName;
+        const midInitials = this$.MidInitials;
+        const email = this$.EMail;
+        const phone = this$.Phone;
+        const fax = this$.Fax;
+        const address = this$.Address;
+        const affiliation = this$.Affiliation;
+        return Person.make(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, nextRoles, nextComments);
+    }
+    GetHashCode() {
+        const this$ = this;
+        return boxHashArray([boxHashOption(this$.ORCID), boxHashOption(this$.LastName), boxHashOption(this$.FirstName), boxHashOption(this$.MidInitials), boxHashOption(this$.EMail), boxHashOption(this$.Phone), boxHashOption(this$.Fax), boxHashOption(this$.Address), boxHashOption(this$.Affiliation), boxHashSeq(this$.Roles), boxHashSeq(this$.Comments)]) | 0;
+    }
+    Equals(obj) {
+        const this$ = this;
+        return hash(this$) === hash(obj);
+    }
+    toString() {
+        let arg, arg_1;
+        const this$ = this;
+        const sb = StringBuilder_$ctor();
+        StringBuilder__Append_Z721C83C5(sb, "Person {\n\t");
+        StringBuilder__Append_Z721C83C5(sb, join(",\n\t", map((tupledArg_1) => toText(printf("%s = %A"))(tupledArg_1[0])(tupledArg_1[1]), choose((tupledArg) => map_1((o) => [tupledArg[0], o], tupledArg[1]), ofArray([["FirstName", this$.FirstName], ["LastName", this$.LastName], ["MidInitials", this$.MidInitials], ["EMail", this$.EMail], ["Phone", this$.Phone], ["Address", this$.Address], ["Affiliation", this$.Affiliation], ["Fax", this$.Fax], ["ORCID", this$.ORCID], ["Roles", (length(this$.Roles) > 0) ? ((arg = this$.Roles, toText(printf("%A"))(arg))) : void 0], ["Comments", (length(this$.Comments) > 0) ? ((arg_1 = this$.Comments, toText(printf("%A"))(arg_1))) : void 0]])))));
+        StringBuilder__Append_Z721C83C5(sb, "\n}");
+        return toString(sb);
+    }
+}
+
+export function Person_$reflection() {
+    return class_type("ARCtrl.Person", void 0, Person);
+}
+
+export function Person_$ctor_Z2F6491B5(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles, comments) {
+    return new Person(orcid, lastName, firstName, midInitials, email, phone, fax, address, affiliation, roles, comments);
+}
+

package/Core/Process/ColumnIndex.js

@@ -0,0 +1,248 @@
+import { tryParse } from "../../fable_modules/fable-library-js.4.16.0/Int32.js";
+import { FSharpRef } from "../../fable_modules/fable-library-js.4.16.0/Types.js";
+import { Comment$ } from "../Comment.js";
+import { int32ToString } from "../../fable_modules/fable-library-js.4.16.0/Util.js";
+import { value, bind } from "../../fable_modules/fable-library-js.4.16.0/Option.js";
+import { tryItem } from "../CommentList.js";
+import { Factor } from "./Factor.js";
+import { MaterialAttribute_fromString_5980DC03 } from "./MaterialAttribute.js";
+import { ProtocolParameter } from "./ProtocolParameter.js";
+import { Component_fromISAString_7C9A7CF8 } from "./Component.js";
+
+function tryInt(str) {
+    let matchValue;
+    let outArg = 0;
+    matchValue = [tryParse(str, 511, false, 32, new FSharpRef(() => outArg, (v) => {
+        outArg = (v | 0);
+    })), outArg];
+    if (matchValue[0]) {
+        return matchValue[1];
+    }
+    else {
+        return void 0;
+    }
+}
+
+export const orderName = "ColumnIndex";
+
+export function createOrderComment(index) {
+    return Comment$.create(orderName, int32ToString(index));
+}
+
+export function tryGetIndex(comments) {
+    return bind(tryInt, tryItem(orderName, comments));
+}
+
+export function setOntologyAnnotationIndexInplace(i, oa) {
+    void (oa.Comments.push(createOrderComment(i)));
+}
+
+export function setOntologyAnnotationIndex(i, oa) {
+    const oac = oa.Copy();
+    setOntologyAnnotationIndexInplace(i, oac);
+    return oac;
+}
+
+export function tryGetOntologyAnnotationIndex(oa) {
+    return tryGetIndex(oa.Comments);
+}
+
+export function tryGetParameterIndex(param) {
+    return bind((oa) => tryGetIndex(oa.Comments), param.ParameterName);
+}
+
+export function tryGetParameterColumnIndex(paramValue) {
+    return bind(tryGetParameterIndex, paramValue.Category);
+}
+
+export function tryGetFactorIndex(factor) {
+    return bind((oa) => tryGetIndex(oa.Comments), factor.FactorType);
+}
+
+export function tryGetFactorColumnIndex(factorValue) {
+    return bind(tryGetFactorIndex, factorValue.Category);
+}
+
+export function tryGetCharacteristicIndex(characteristic) {
+    return bind((oa) => tryGetIndex(oa.Comments), characteristic.CharacteristicType);
+}
+
+export function tryGetCharacteristicColumnIndex(characteristicValue) {
+    return bind(tryGetCharacteristicIndex, characteristicValue.Category);
+}
+
+export function tryGetComponentIndex(comp) {
+    return bind((oa) => tryGetIndex(oa.Comments), comp.ComponentType);
+}
+
+/**
+ * Create a ISAJson Factor from ISATab string entries
+ */
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_fromStringWithColumnIndex_Static(name, term, source, accession, valueIndex) {
+    return Factor.fromString(name, term, source, accession, [createOrderComment(valueIndex)]);
+}
+
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_getColumnIndex_Static_ZDED3A0F(f) {
+    return value(tryGetOntologyAnnotationIndex(f));
+}
+
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_GetColumnIndex(this$) {
+    return value(tryGetOntologyAnnotationIndex(this$));
+}
+
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_tryGetColumnIndex_Static_ZDED3A0F(f) {
+    return tryGetOntologyAnnotationIndex(f);
+}
+
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_TryGetColumnIndex(this$) {
+    return tryGetOntologyAnnotationIndex(this$);
+}
+
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_setColumnIndex_Static(i, oa) {
+    return setOntologyAnnotationIndex(i, oa);
+}
+
+export function ARCtrl_OntologyAnnotation__OntologyAnnotation_SetColumnIndex_Z524259A4(this$, i) {
+    setOntologyAnnotationIndexInplace(i, this$);
+}
+
+/**
+ * Create a ISAJson Factor from ISATab string entries
+ */
+export function ARCtrl_Process_Factor__Factor_fromStringWithColumnIndex_Static(name, term, source, accession, valueIndex) {
+    return Factor.fromString(name, term, source, accession, [createOrderComment(valueIndex)]);
+}
+
+export function ARCtrl_Process_Factor__Factor_getColumnIndex_Static_7206F0D9(f) {
+    return value(tryGetFactorIndex(f));
+}
+
+export function ARCtrl_Process_Factor__Factor_GetColumnIndex(this$) {
+    return value(tryGetFactorIndex(this$));
+}
+
+export function ARCtrl_Process_Factor__Factor_tryGetColumnIndex_Static_7206F0D9(f) {
+    return tryGetFactorIndex(f);
+}
+
+export function ARCtrl_Process_Factor__Factor_TryGetColumnIndex(this$) {
+    return tryGetFactorIndex(this$);
+}
+
+export function ARCtrl_Process_FactorValue__FactorValue_getColumnIndex_Static_7105C732(f) {
+    return value(tryGetFactorColumnIndex(f));
+}
+
+export function ARCtrl_Process_FactorValue__FactorValue_GetColumnIndex(this$) {
+    return value(tryGetFactorColumnIndex(this$));
+}
+
+export function ARCtrl_Process_FactorValue__FactorValue_tryGetColumnIndex_Static_7105C732(f) {
+    return tryGetFactorColumnIndex(f);
+}
+
+export function ARCtrl_Process_FactorValue__FactorValue_TryGetColumnIndex(this$) {
+    return tryGetFactorColumnIndex(this$);
+}
+
+/**
+ * Create a ISAJson characteristic from ISATab string entries
+ */
+export function ARCtrl_Process_MaterialAttribute__MaterialAttribute_fromStringWithColumnIndex_Static(term, source, accession, valueIndex) {
+    return MaterialAttribute_fromString_5980DC03(term, source, accession, [createOrderComment(valueIndex)]);
+}
+
+export function ARCtrl_Process_MaterialAttribute__MaterialAttribute_getColumnIndex_Static_Z1E3B85DD(m) {
+    return value(tryGetCharacteristicIndex(m));
+}
+
+export function ARCtrl_Process_MaterialAttribute__MaterialAttribute_GetColumnIndex(this$) {
+    return value(tryGetCharacteristicIndex(this$));
+}
+
+export function ARCtrl_Process_MaterialAttribute__MaterialAttribute_tryGetColumnIndex_Static_Z1E3B85DD(m) {
+    return tryGetCharacteristicIndex(m);
+}
+
+export function ARCtrl_Process_MaterialAttribute__MaterialAttribute_TryGetColumnIndex(this$) {
+    return tryGetCharacteristicIndex(this$);
+}
+
+export function ARCtrl_Process_MaterialAttributeValue__MaterialAttributeValue_getColumnIndex_Static_Z772273B8(m) {
+    return value(tryGetCharacteristicColumnIndex(m));
+}
+
+export function ARCtrl_Process_MaterialAttributeValue__MaterialAttributeValue_GetColumnIndex(this$) {
+    return value(tryGetCharacteristicColumnIndex(this$));
+}
+
+export function ARCtrl_Process_MaterialAttributeValue__MaterialAttributeValue_tryGetColumnIndex_Static_Z772273B8(m) {
+    return tryGetCharacteristicColumnIndex(m);
+}
+
+export function ARCtrl_Process_MaterialAttributeValue__MaterialAttributeValue_TryGetColumnIndex(this$) {
+    return tryGetCharacteristicColumnIndex(this$);
+}
+
+/**
+ * Create a ISAJson parameter from ISATab string entries
+ */
+export function ARCtrl_Process_ProtocolParameter__ProtocolParameter_fromStringWithColumnIndex_Static(term, source, accession, valueIndex) {
+    return ProtocolParameter.fromString(term, source, accession, [createOrderComment(valueIndex)]);
+}
+
+export function ARCtrl_Process_ProtocolParameter__ProtocolParameter_getColumnIndex_Static_Z11F87B15(p) {
+    return value(tryGetParameterIndex(p));
+}
+
+export function ARCtrl_Process_ProtocolParameter__ProtocolParameter_GetColumnIndex(this$) {
+    return value(tryGetParameterIndex(this$));
+}
+
+export function ARCtrl_Process_ProtocolParameter__ProtocolParameter_tryGetColumnIndex_Static_Z11F87B15(p) {
+    return tryGetParameterIndex(p);
+}
+
+export function ARCtrl_Process_ProtocolParameter__ProtocolParameter_TryGetColumnIndex(this$) {
+    return tryGetParameterIndex(this$);
+}
+
+export function ARCtrl_Process_ProcessParameterValue__ProcessParameterValue_getColumnIndex_Static_Z1576263(p) {
+    return value(tryGetParameterColumnIndex(p));
+}
+
+export function ARCtrl_Process_ProcessParameterValue__ProcessParameterValue_GetColumnIndex(this$) {
+    return value(tryGetParameterColumnIndex(this$));
+}
+
+export function ARCtrl_Process_ProcessParameterValue__ProcessParameterValue_tryGetColumnIndex_Static_Z1576263(p) {
+    return tryGetParameterColumnIndex(p);
+}
+
+export function ARCtrl_Process_ProcessParameterValue__ProcessParameterValue_TryGetColumnIndex(this$) {
+    return tryGetParameterColumnIndex(this$);
+}
+
+/**
+ * Create a ISAJson Factor from ISATab string entries
+ */
+export function ARCtrl_Process_Component__Component_fromStringWithColumnIndex_Static(name, term, source, accession, valueIndex) {
+    return Component_fromISAString_7C9A7CF8(name, term, source, accession, [createOrderComment(valueIndex)]);
+}
+
+export function ARCtrl_Process_Component__Component_getColumnIndex_Static_Z685B8F25(f) {
+    return value(tryGetComponentIndex(f));
+}
+
+export function ARCtrl_Process_Component__Component_GetColumnIndex(this$) {
+    return value(tryGetComponentIndex(this$));
+}
+
+export function ARCtrl_Process_Component__Component_tryGetColumnIndex_Static_Z685B8F25(f) {
+    return tryGetComponentIndex(f);
+}
+
+export function ARCtrl_Process_Component__Component_TryGetColumnIndex(this$) {
+    return tryGetComponentIndex(this$);
+}
+