@nfdi4plants/arctrl 1.0.0-beta.8 → 1.0.0

package/ISA/ISA.Json/ArcTypes/ArcAssay.js

@@ -0,0 +1,197 @@
+import { OntologySourceReference_encoder, OntologyAnnotation_encoder, OntologySourceReference_decoder, OntologyAnnotation_decoder } from "../Ontology.js";
+import { ConverterOptions__set_IncludeType_Z1FBCCD16, ConverterOptions__set_SetID_Z1FBCCD16, ConverterOptions_$ctor } from "../ConverterOptions.js";
+import { fromString, object as object_1, string, list as list_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { uncurry2 } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { ArcTable_encoder, ArcTable_decoder } from "./ArcTable.js";
+import { encoder, decoder as decoder_1 } from "../Person.js";
+import { encoder as encoder_1, decoder as decoder_2 } from "../Comment.js";
+import { Factor_encoder, Factor_decoder } from "../Factor.js";
+import { encoder as encoder_2, decoder as decoder_3 } from "../Publication.js";
+import { value as value_3, map, defaultArg } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+import { toArray } from "../../../fable_modules/fable-library.4.5.0/List.js";
+import { toString, object, seq } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { empty, singleton, append, delay, toList, map as map_1 } from "../../../fable_modules/fable-library.4.5.0/Seq.js";
+import { ArcAssay } from "../../ISA/ArcTypes/ArcTypes.js";
+import { Assay_decoder, Assay_encoder } from "../Assay.js";
+import { fromJsonString } from "../Decode.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+
+export const JsonHelper_DecodeOa = OntologyAnnotation_decoder(ConverterOptions_$ctor());
+
+export const JsonHelper_DecodeTables = (path) => ((value) => list_1(uncurry2(ArcTable_decoder), path, value));
+
+export const JsonHelper_DecodePersons = (() => {
+    const decoder = decoder_1(ConverterOptions_$ctor());
+    return (path) => ((value) => list_1(uncurry2(decoder), path, value));
+})();
+
+export const JsonHelper_DecodeComments = (() => {
+    const decoder = decoder_2(ConverterOptions_$ctor());
+    return (path) => ((value) => list_1(uncurry2(decoder), path, value));
+})();
+
+export const JsonHelper_DecodeFactors = (() => {
+    const decoder = Factor_decoder(ConverterOptions_$ctor());
+    return (path) => ((value) => list_1(uncurry2(decoder), path, value));
+})();
+
+export const JsonHelper_DecodePublications = (() => {
+    const decoder = decoder_3(ConverterOptions_$ctor());
+    return (path) => ((value) => list_1(uncurry2(decoder), path, value));
+})();
+
+export const JsonHelper_DecodeOntologySourceReferences = (() => {
+    const decoder = OntologySourceReference_decoder(ConverterOptions_$ctor());
+    return (path) => ((value) => list_1(uncurry2(decoder), path, value));
+})();
+
+export function JsonHelper_tryGetTables(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map((collection) => Array.from(collection), (objectArg = get$.Optional, objectArg.Field(fieldName, uncurry2(JsonHelper_DecodeTables)))), []);
+}
+
+export function JsonHelper_tryGetPersons(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map(toArray, (objectArg = get$.Optional, objectArg.Field(fieldName, uncurry2(JsonHelper_DecodePersons)))), new Array(0));
+}
+
+export function JsonHelper_tryGetComments(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map(toArray, (objectArg = get$.Optional, objectArg.Field(fieldName, uncurry2(JsonHelper_DecodeComments)))), new Array(0));
+}
+
+export function JsonHelper_tryGetPublications(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map(toArray, (objectArg = get$.Optional, objectArg.Field(fieldName, uncurry2(JsonHelper_DecodePublications)))), new Array(0));
+}
+
+export function JsonHelper_tryGetOAs(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map(toArray, (objectArg = get$.Optional, objectArg.Field(fieldName, (path, value) => list_1(uncurry2(JsonHelper_DecodeOa), path, value)))), new Array(0));
+}
+
+export function JsonHelper_tryGetFactors(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map(toArray, (objectArg = get$.Optional, objectArg.Field(fieldName, uncurry2(JsonHelper_DecodeFactors)))), new Array(0));
+}
+
+export function JsonHelper_tryGetStringResizeArray(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map((collection) => Array.from(collection), (objectArg = get$.Optional, objectArg.Field(fieldName, (path_1, value_1) => list_1(string, path_1, value_1)))), []);
+}
+
+export function JsonHelper_tryGetOntologySourceReferences(get$, fieldName) {
+    let objectArg;
+    return defaultArg(map(toArray, (objectArg = get$.Optional, objectArg.Field(fieldName, uncurry2(JsonHelper_DecodeOntologySourceReferences)))), new Array(0));
+}
+
+export function JsonHelper_EncoderOA(t) {
+    return OntologyAnnotation_encoder(ConverterOptions_$ctor(), t);
+}
+
+export function JsonHelper_EncoderOAs(t) {
+    return seq(map_1(JsonHelper_EncoderOA, t));
+}
+
+export function JsonHelper_EncoderTables(t) {
+    return seq(map_1(ArcTable_encoder, t));
+}
+
+export function JsonHelper_EncoderPerson(t) {
+    return encoder(ConverterOptions_$ctor(), t);
+}
+
+export function JsonHelper_EncoderPersons(t) {
+    return seq(map_1(JsonHelper_EncoderPerson, t));
+}
+
+export function JsonHelper_EncoderComment(t) {
+    return encoder_1(ConverterOptions_$ctor(), t);
+}
+
+export function JsonHelper_EncoderComments(t) {
+    return seq(map_1(JsonHelper_EncoderComment, t));
+}
+
+export function JsonHelper_EncoderPublication(t) {
+    return encoder_2(ConverterOptions_$ctor(), t);
+}
+
+export function JsonHelper_EncoderPublications(t) {
+    return seq(map_1(JsonHelper_EncoderPublication, t));
+}
+
+export function JsonHelper_EncoderFactor(t) {
+    return Factor_encoder(ConverterOptions_$ctor(), t);
+}
+
+export function JsonHelper_EncoderFactors(t) {
+    return seq(map_1(JsonHelper_EncoderFactor, t));
+}
+
+export function JsonHelper_EncoderOntologySourceReference(t) {
+    return OntologySourceReference_encoder(ConverterOptions_$ctor(), t);
+}
+
+export function JsonHelper_EncoderOntologySourceReferences(t) {
+    return seq(map_1(JsonHelper_EncoderOntologySourceReference, t));
+}
+
+export function ArcAssay_encoder(assay) {
+    return object(toList(delay(() => append(singleton(["Identifier", assay.Identifier]), delay(() => append((assay.MeasurementType != null) ? singleton(["MeasurementType", JsonHelper_EncoderOA(value_3(assay.MeasurementType))]) : empty(), delay(() => append((assay.TechnologyType != null) ? singleton(["TechnologyType", JsonHelper_EncoderOA(value_3(assay.TechnologyType))]) : empty(), delay(() => append((assay.TechnologyPlatform != null) ? singleton(["TechnologyPlatform", JsonHelper_EncoderOA(value_3(assay.TechnologyPlatform))]) : empty(), delay(() => append((assay.Tables.length !== 0) ? singleton(["Tables", JsonHelper_EncoderTables(assay.Tables)]) : empty(), delay(() => append((assay.Performers.length !== 0) ? singleton(["Performers", JsonHelper_EncoderPersons(assay.Performers)]) : empty(), delay(() => ((assay.Comments.length !== 0) ? singleton(["Comments", JsonHelper_EncoderComments(assay.Comments)]) : empty()))))))))))))))));
+}
+
+export const ArcAssay_decoder = (path_1) => ((v) => object_1((get$) => {
+    let identifier;
+    const objectArg = get$.Required;
+    identifier = objectArg.Field("Identifier", string);
+    let measurementType;
+    const objectArg_1 = get$.Optional;
+    measurementType = objectArg_1.Field("MeasurementType", uncurry2(JsonHelper_DecodeOa));
+    let technologyType;
+    const objectArg_2 = get$.Optional;
+    technologyType = objectArg_2.Field("TechnologyType", uncurry2(JsonHelper_DecodeOa));
+    let technologyPlatform;
+    const objectArg_3 = get$.Optional;
+    technologyPlatform = objectArg_3.Field("TechnologyPlatform", uncurry2(JsonHelper_DecodeOa));
+    const tables = JsonHelper_tryGetTables(get$, "Tables");
+    const performers = JsonHelper_tryGetPersons(get$, "Performers");
+    const comments = JsonHelper_tryGetComments(get$, "Comments");
+    return ArcAssay.make(identifier, measurementType, technologyType, technologyPlatform, tables, performers, comments);
+}, path_1, v));
+
+/**
+ * exports in json-ld format
+ */
+export function ArcAssay_toStringLD(a) {
+    let returnVal;
+    return toString(2, Assay_encoder((returnVal = ConverterOptions_$ctor(), ((ConverterOptions__set_SetID_Z1FBCCD16(returnVal, true), ConverterOptions__set_IncludeType_Z1FBCCD16(returnVal, true)), returnVal)), a.ToAssay()));
+}
+
+export function ArcAssay_fromJsonString(s) {
+    const a = fromJsonString(uncurry2(Assay_decoder(ConverterOptions_$ctor())), s);
+    return ArcAssay.fromAssay(a);
+}
+
+export function ArcAssay_toJsonString(a) {
+    return toString(2, Assay_encoder(ConverterOptions_$ctor(), a.ToAssay()));
+}
+
+export function ARCtrl_ISA_ArcAssay__ArcAssay_fromArcJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(ArcAssay_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to ArcAssay: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_ArcAssay__ArcAssay_ToArcJsonString_71136F3F(this$, spaces) {
+    return toString(defaultArg(spaces, 0), ArcAssay_encoder(this$));
+}
+
+export function ARCtrl_ISA_ArcAssay__ArcAssay_toArcJsonString_Static_1C75D08D(a) {
+    return ARCtrl_ISA_ArcAssay__ArcAssay_ToArcJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/ArcTypes/ArcInvestigation.js

@@ -0,0 +1,79 @@
+import { toString, seq, object } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { map, empty, singleton, append, delay, toList } from "../../../fable_modules/fable-library.4.5.0/Seq.js";
+import { map as map_1, defaultArg, value as value_9 } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+import { JsonHelper_tryGetComments, JsonHelper_tryGetStringResizeArray, ArcAssay_decoder, JsonHelper_tryGetPersons, JsonHelper_tryGetPublications, JsonHelper_tryGetOntologySourceReferences, JsonHelper_EncoderComments, ArcAssay_encoder, JsonHelper_EncoderPersons, JsonHelper_EncoderPublications, JsonHelper_EncoderOntologySourceReferences } from "./ArcAssay.js";
+import { ArcStudy_decoder, ArcStudy_encoder } from "./ArcStudy.js";
+import { fromString, list, string, object as object_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { uncurry2 } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { ArcInvestigation } from "../../ISA/ArcTypes/ArcTypes.js";
+import { decoder as decoder_2, encoder } from "../Investigation.js";
+import { ConverterOptions__set_IncludeType_Z1FBCCD16, ConverterOptions__set_SetID_Z1FBCCD16, ConverterOptions_$ctor } from "../ConverterOptions.js";
+import { fromJsonString } from "../Decode.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+
+export function ArcInvestigation_encoder(inv) {
+    return object(toList(delay(() => append(singleton(["Identifier", inv.Identifier]), delay(() => append((inv.Title != null) ? singleton(["Title", value_9(inv.Title)]) : empty(), delay(() => append((inv.Description != null) ? singleton(["Description", value_9(inv.Description)]) : empty(), delay(() => append((inv.SubmissionDate != null) ? singleton(["SubmissionDate", value_9(inv.SubmissionDate)]) : empty(), delay(() => append((inv.PublicReleaseDate != null) ? singleton(["PublicReleaseDate", value_9(inv.PublicReleaseDate)]) : empty(), delay(() => append((inv.OntologySourceReferences.length !== 0) ? singleton(["OntologySourceReferences", JsonHelper_EncoderOntologySourceReferences(inv.OntologySourceReferences)]) : empty(), delay(() => append((inv.Publications.length !== 0) ? singleton(["Publications", JsonHelper_EncoderPublications(inv.Publications)]) : empty(), delay(() => append((inv.Contacts.length !== 0) ? singleton(["Contacts", JsonHelper_EncoderPersons(inv.Contacts)]) : empty(), delay(() => append((inv.Assays.length !== 0) ? singleton(["Assays", seq(map(ArcAssay_encoder, inv.Assays))]) : empty(), delay(() => append((inv.Studies.length !== 0) ? singleton(["Studies", seq(map(ArcStudy_encoder, inv.Studies))]) : empty(), delay(() => append((inv.RegisteredStudyIdentifiers.length !== 0) ? singleton(["RegisteredStudyIdentifiers", seq(map((value_5) => value_5, inv.RegisteredStudyIdentifiers))]) : empty(), delay(() => ((inv.Comments.length !== 0) ? singleton(["Comments", JsonHelper_EncoderComments(inv.Comments)]) : empty()))))))))))))))))))))))))));
+}
+
+export const ArcInvestigation_decoder = (path_7) => ((v) => object_1((get$_2) => {
+    let objectArg, objectArg_1;
+    let identifier;
+    const objectArg_2 = get$_2.Required;
+    identifier = objectArg_2.Field("Identifier", string);
+    let title;
+    const objectArg_3 = get$_2.Optional;
+    title = objectArg_3.Field("Title", string);
+    let description;
+    const objectArg_4 = get$_2.Optional;
+    description = objectArg_4.Field("Description", string);
+    let submissionDate;
+    const objectArg_5 = get$_2.Optional;
+    submissionDate = objectArg_5.Field("SubmissionDate", string);
+    let publicReleaseDate;
+    const objectArg_6 = get$_2.Optional;
+    publicReleaseDate = objectArg_6.Field("PublicReleaseDate", string);
+    const ontologySourceReferences = JsonHelper_tryGetOntologySourceReferences(get$_2, "OntologySourceReferences");
+    const publications = JsonHelper_tryGetPublications(get$_2, "Publications");
+    const contacts = JsonHelper_tryGetPersons(get$_2, "Contacts");
+    const assays = defaultArg(map_1((collection) => Array.from(collection), (objectArg = get$_2.Optional, objectArg.Field("Assays", (path, value) => list(uncurry2(ArcAssay_decoder), path, value)))), []);
+    const studies = defaultArg(map_1((collection_1) => Array.from(collection_1), (objectArg_1 = get$_2.Optional, objectArg_1.Field("Studies", (path_1, value_1) => list(uncurry2(ArcStudy_decoder), path_1, value_1)))), []);
+    const registeredStudyIdentifiers = JsonHelper_tryGetStringResizeArray(get$_2, "RegisteredStudyIdentifiers");
+    const comments = JsonHelper_tryGetComments(get$_2, "Comments");
+    return ArcInvestigation.make(identifier, title, description, submissionDate, publicReleaseDate, ontologySourceReferences, publications, contacts, assays, studies, registeredStudyIdentifiers, comments, []);
+}, path_7, v));
+
+/**
+ * exports in json-ld format
+ */
+export function ArcInvestigation_toStringLD(a) {
+    let returnVal;
+    return toString(2, encoder((returnVal = ConverterOptions_$ctor(), ((ConverterOptions__set_SetID_Z1FBCCD16(returnVal, true), ConverterOptions__set_IncludeType_Z1FBCCD16(returnVal, true)), returnVal)), a.ToInvestigation()));
+}
+
+export function ArcInvestigation_fromJsonString(s) {
+    const i = fromJsonString(uncurry2(decoder_2(ConverterOptions_$ctor())), s);
+    return ArcInvestigation.fromInvestigation(i);
+}
+
+export function ArcInvestigation_toJsonString(a) {
+    return toString(2, encoder(ConverterOptions_$ctor(), a.ToInvestigation()));
+}
+
+export function ARCtrl_ISA_ArcInvestigation__ArcInvestigation_fromArcJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(ArcInvestigation_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to ArcInvestigation: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_ArcInvestigation__ArcInvestigation_ToArcJsonString_71136F3F(this$, spaces) {
+    return toString(defaultArg(spaces, 0), ArcInvestigation_encoder(this$));
+}
+
+export function ARCtrl_ISA_ArcInvestigation__ArcInvestigation_toArcJsonString_Static_Z4D87C88C(a) {
+    return ARCtrl_ISA_ArcInvestigation__ArcInvestigation_ToArcJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/ArcTypes/ArcStudy.js

@@ -0,0 +1,77 @@
+import { toString, seq, object } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { map, empty, singleton, append, delay, toList } from "../../../fable_modules/fable-library.4.5.0/Seq.js";
+import { defaultArg, value as value_7 } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+import { JsonHelper_tryGetComments, JsonHelper_tryGetFactors, JsonHelper_tryGetStringResizeArray, JsonHelper_tryGetTables, JsonHelper_tryGetOAs, JsonHelper_tryGetPersons, JsonHelper_tryGetPublications, JsonHelper_EncoderComments, JsonHelper_EncoderFactors, JsonHelper_EncoderTables, JsonHelper_EncoderOAs, JsonHelper_EncoderPersons, JsonHelper_EncoderPublications } from "./ArcAssay.js";
+import { fromString, string, object as object_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { ArcStudy } from "../../ISA/ArcTypes/ArcTypes.js";
+import { Study_decoder, Study_encoder } from "../Study.js";
+import { ConverterOptions__set_IncludeType_Z1FBCCD16, ConverterOptions__set_SetID_Z1FBCCD16, ConverterOptions_$ctor } from "../ConverterOptions.js";
+import { fromJsonString } from "../Decode.js";
+import { uncurry2 } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+
+export function ArcStudy_encoder(study) {
+    return object(toList(delay(() => append(singleton(["Identifier", study.Identifier]), delay(() => append((study.Title != null) ? singleton(["Title", value_7(study.Title)]) : empty(), delay(() => append((study.Description != null) ? singleton(["Description", value_7(study.Description)]) : empty(), delay(() => append((study.SubmissionDate != null) ? singleton(["SubmissionDate", value_7(study.SubmissionDate)]) : empty(), delay(() => append((study.PublicReleaseDate != null) ? singleton(["PublicReleaseDate", value_7(study.PublicReleaseDate)]) : empty(), delay(() => append((study.Publications.length !== 0) ? singleton(["Publications", JsonHelper_EncoderPublications(study.Publications)]) : empty(), delay(() => append((study.Contacts.length !== 0) ? singleton(["Contacts", JsonHelper_EncoderPersons(study.Contacts)]) : empty(), delay(() => append((study.StudyDesignDescriptors.length !== 0) ? singleton(["StudyDesignDescriptors", JsonHelper_EncoderOAs(study.StudyDesignDescriptors)]) : empty(), delay(() => append((study.TableCount !== 0) ? singleton(["Tables", JsonHelper_EncoderTables(study.Tables)]) : empty(), delay(() => append((study.RegisteredAssayIdentifiers.length !== 0) ? singleton(["RegisteredAssayIdentifiers", seq(map((value_5) => value_5, study.RegisteredAssayIdentifiers))]) : empty(), delay(() => append((study.Factors.length !== 0) ? singleton(["Factors", JsonHelper_EncoderFactors(study.Factors)]) : empty(), delay(() => ((study.Comments.length !== 0) ? singleton(["Comments", JsonHelper_EncoderComments(study.Comments)]) : empty()))))))))))))))))))))))))));
+}
+
+export const ArcStudy_decoder = (path_5) => ((v) => object_1((get$) => {
+    let identifier;
+    const objectArg = get$.Required;
+    identifier = objectArg.Field("Identifier", string);
+    let title;
+    const objectArg_1 = get$.Optional;
+    title = objectArg_1.Field("Title", string);
+    let description;
+    const objectArg_2 = get$.Optional;
+    description = objectArg_2.Field("Description", string);
+    let submissionDate;
+    const objectArg_3 = get$.Optional;
+    submissionDate = objectArg_3.Field("SubmissionDate", string);
+    let publicReleaseDate;
+    const objectArg_4 = get$.Optional;
+    publicReleaseDate = objectArg_4.Field("PublicReleaseDate", string);
+    const publications = JsonHelper_tryGetPublications(get$, "Publications");
+    const contacts = JsonHelper_tryGetPersons(get$, "Contacts");
+    const studyDesignDescriptors = JsonHelper_tryGetOAs(get$, "StudyDesignDescriptors");
+    const tables = JsonHelper_tryGetTables(get$, "Tables");
+    const registeredAssayIdentifiers = JsonHelper_tryGetStringResizeArray(get$, "RegisteredAssayIdentifiers");
+    const factors = JsonHelper_tryGetFactors(get$, "Factors");
+    const comments = JsonHelper_tryGetComments(get$, "Comments");
+    return ArcStudy.make(identifier, title, description, submissionDate, publicReleaseDate, publications, contacts, studyDesignDescriptors, tables, registeredAssayIdentifiers, factors, comments);
+}, path_5, v));
+
+/**
+ * exports in json-ld format
+ */
+export function ArcStudy_toStringLD(a, assays) {
+    let returnVal;
+    return toString(2, Study_encoder((returnVal = ConverterOptions_$ctor(), ((ConverterOptions__set_SetID_Z1FBCCD16(returnVal, true), ConverterOptions__set_IncludeType_Z1FBCCD16(returnVal, true)), returnVal)), a.ToStudy(assays)));
+}
+
+export function ArcStudy_fromJsonString(s) {
+    const s_1 = fromJsonString(uncurry2(Study_decoder(ConverterOptions_$ctor())), s);
+    return ArcStudy.fromStudy(s_1);
+}
+
+export function ArcStudy_toJsonString(a, assays) {
+    return toString(2, Study_encoder(ConverterOptions_$ctor(), a.ToStudy(assays)));
+}
+
+export function ARCtrl_ISA_ArcStudy__ArcStudy_fromArcJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(ArcStudy_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to ArcStudy: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_ArcStudy__ArcStudy_ToArcJsonString_71136F3F(this$, spaces) {
+    return toString(defaultArg(spaces, 0), ArcStudy_encoder(this$));
+}
+
+export function ARCtrl_ISA_ArcStudy__ArcStudy_toArcJsonString_Static_1B3D5E9B(a) {
+    return ARCtrl_ISA_ArcStudy__ArcStudy_ToArcJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/ArcTypes/ArcTable.js

@@ -0,0 +1,57 @@
+import { toString, tuple2, map as map_1, list, object } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { collect, empty, map, singleton, append, delay, toList } from "../../../fable_modules/fable-library.4.5.0/Seq.js";
+import { CompositeHeader_decoder, CompositeHeader_encoder } from "./CompositeHeader.js";
+import { CompositeCell_decoder, CompositeCell_encoder } from "./CompositeCell.js";
+import { empty as empty_2, ofSeq } from "../../../fable_modules/fable-library.4.5.0/Map.js";
+import { arrayHash, equalArrays, uncurry2, compareArrays } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { fromString, string, int, tuple2 as tuple2_1, map$0027, list as list_1, object as object_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { defaultArg } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+import { empty as empty_1 } from "../../../fable_modules/fable-library.4.5.0/List.js";
+import { Dictionary } from "../../../fable_modules/fable-library.4.5.0/MutableMap.js";
+import { ArcTable } from "../../ISA/ArcTypes/ArcTable.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+
+export function ArcTable_encoder(table) {
+    return object(toList(delay(() => append(singleton(["name", table.Name]), delay(() => append((table.Headers.length !== 0) ? singleton(["header", list(toList(delay(() => map(CompositeHeader_encoder, table.Headers))))]) : empty(), delay(() => ((table.Values.size !== 0) ? singleton(["values", map_1((tupledArg) => tuple2((value) => value, (value_2) => value_2, tupledArg[0], tupledArg[1]), CompositeCell_encoder, ofSeq(toList(delay(() => collect((matchValue) => {
+        const activePatternResult = matchValue;
+        return singleton([activePatternResult[0], activePatternResult[1]]);
+    }, table.Values))), {
+        Compare: compareArrays,
+    }))]) : empty()))))))));
+}
+
+export const ArcTable_decoder = (path_2) => ((v) => object_1((get$) => {
+    let objectArg, arg_5, objectArg_1, objectArg_2;
+    let decodedHeader;
+    const collection = defaultArg((objectArg = get$.Optional, objectArg.Field("header", (path, value) => list_1(uncurry2(CompositeHeader_decoder), path, value))), empty_1());
+    decodedHeader = Array.from(collection);
+    const decodedValues = new Dictionary(defaultArg((arg_5 = map$0027(uncurry2(tuple2_1(uncurry2(int), uncurry2(int))), uncurry2((arg_2) => {
+        const clo = CompositeCell_decoder(arg_2);
+        return clo;
+    })), (objectArg_1 = get$.Optional, objectArg_1.Field("values", uncurry2(arg_5)))), empty_2({
+        Compare: compareArrays,
+    })), {
+        Equals: equalArrays,
+        GetHashCode: arrayHash,
+    });
+    return ArcTable.create((objectArg_2 = get$.Required, objectArg_2.Field("name", string)), decodedHeader, decodedValues);
+}, path_2, v));
+
+export function ARCtrl_ISA_ArcTable__ArcTable_fromJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(ArcTable_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to ArcTable: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_ArcTable__ArcTable_ToJsonString_71136F3F(this$, spaces) {
+    return toString(defaultArg(spaces, 0), ArcTable_encoder(this$));
+}
+
+export function ARCtrl_ISA_ArcTable__ArcTable_toJsonString_Static_1B2566EA(a) {
+    return ARCtrl_ISA_ArcTable__ArcTable_ToJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/ArcTypes/CompositeCell.js

@@ -0,0 +1,51 @@
+import { OntologyAnnotation_decoder, OntologyAnnotation_encoder } from "../Ontology.js";
+import { ConverterOptions_$ctor } from "../ConverterOptions.js";
+import { ofArray, singleton } from "../../../fable_modules/fable-library.4.5.0/List.js";
+import { toString, list, object } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { fromString, index, string, object as object_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { CompositeCell } from "../../ISA/ArcTypes/CompositeCell.js";
+import { uncurry2 } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+import { defaultArg } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+
+export function CompositeCell_encoder(cc) {
+    const oaToJsonString = (oa) => OntologyAnnotation_encoder(ConverterOptions_$ctor(), oa);
+    const patternInput = (cc.tag === 0) ? ["Term", singleton(oaToJsonString(cc.fields[0]))] : ((cc.tag === 2) ? ["Unitized", ofArray([cc.fields[0], oaToJsonString(cc.fields[1])])] : ["FreeText", singleton(cc.fields[0])]);
+    return object([["celltype", patternInput[0]], ["values", list(patternInput[1])]]);
+}
+
+export const CompositeCell_decoder = (path_7) => ((v_1) => object_1((get$) => {
+    let objectArg_1, arg_5, decoder_1, objectArg_2, objectArg_3, arg_9, decoder_3, objectArg_4;
+    let matchValue;
+    const objectArg = get$.Required;
+    matchValue = objectArg.Field("celltype", string);
+    switch (matchValue) {
+        case "FreeText":
+            return new CompositeCell(1, [(objectArg_1 = get$.Required, objectArg_1.Field("values", (path_2, value_2) => index(0, string, path_2, value_2)))]);
+        case "Term":
+            return new CompositeCell(0, [(arg_5 = ((decoder_1 = OntologyAnnotation_decoder(ConverterOptions_$ctor()), (path_3) => ((value_3) => index(0, uncurry2(decoder_1), path_3, value_3)))), (objectArg_2 = get$.Required, objectArg_2.Field("values", uncurry2(arg_5))))]);
+        case "Unitized":
+            return new CompositeCell(2, [(objectArg_3 = get$.Required, objectArg_3.Field("values", (path_4, value_4) => index(0, string, path_4, value_4))), (arg_9 = ((decoder_3 = OntologyAnnotation_decoder(ConverterOptions_$ctor()), (path_6) => ((value_6) => index(1, uncurry2(decoder_3), path_6, value_6)))), (objectArg_4 = get$.Required, objectArg_4.Field("values", uncurry2(arg_9))))]);
+        default:
+            return toFail(printf("Error reading CompositeCell from json string: %A"))(matchValue);
+    }
+}, path_7, v_1));
+
+export function ARCtrl_ISA_CompositeCell__CompositeCell_fromJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(CompositeCell_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to CompositeCell: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_CompositeCell__CompositeCell_ToJsonString_71136F3F(this$, spaces) {
+    return toString(defaultArg(spaces, 0), CompositeCell_encoder(this$));
+}
+
+export function ARCtrl_ISA_CompositeCell__CompositeCell_toJsonString_Static_1B703D57(a) {
+    return ARCtrl_ISA_CompositeCell__CompositeCell_ToJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/ArcTypes/CompositeHeader.js

@@ -0,0 +1,82 @@
+import { OntologyAnnotation_decoder, OntologyAnnotation_encoder } from "../Ontology.js";
+import { ConverterOptions_$ctor } from "../ConverterOptions.js";
+import { empty, singleton } from "../../../fable_modules/fable-library.4.5.0/List.js";
+import { IOType_decoder, IOType_encoder } from "./IOType.js";
+import { toString, list, object } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { fromString, index, string, object as object_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { uncurry2 } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { CompositeHeader } from "../../ISA/ArcTypes/CompositeHeader.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+import { defaultArg } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+
+export function CompositeHeader_encoder(ch) {
+    const oaToJsonString = (oa) => OntologyAnnotation_encoder(ConverterOptions_$ctor(), oa);
+    const patternInput = (ch.tag === 3) ? ["Parameter", singleton(oaToJsonString(ch.fields[0]))] : ((ch.tag === 2) ? ["Factor", singleton(oaToJsonString(ch.fields[0]))] : ((ch.tag === 1) ? ["Characteristic", singleton(oaToJsonString(ch.fields[0]))] : ((ch.tag === 0) ? ["Component", singleton(oaToJsonString(ch.fields[0]))] : ((ch.tag === 4) ? ["ProtocolType", empty()] : ((ch.tag === 8) ? ["ProtocolREF", empty()] : ((ch.tag === 5) ? ["ProtocolDescription", empty()] : ((ch.tag === 6) ? ["ProtocolUri", empty()] : ((ch.tag === 7) ? ["ProtocolVersion", empty()] : ((ch.tag === 9) ? ["Performer", empty()] : ((ch.tag === 10) ? ["Date", empty()] : ((ch.tag === 11) ? ["Input", singleton(IOType_encoder(ch.fields[0]))] : ((ch.tag === 12) ? ["Output", singleton(IOType_encoder(ch.fields[0]))] : [ch.fields[0], empty()]))))))))))));
+    return object([["headertype", patternInput[0]], ["values", list(patternInput[1])]]);
+}
+
+export const CompositeHeader_decoder = (path_3) => ((v) => object_1((get$) => {
+    let headerType;
+    const objectArg = get$.Required;
+    headerType = objectArg.Field("headertype", string);
+    const oa = () => {
+        let arg_3;
+        const decoder = OntologyAnnotation_decoder(ConverterOptions_$ctor());
+        arg_3 = ((path_1) => ((value_1) => index(0, uncurry2(decoder), path_1, value_1)));
+        const objectArg_1 = get$.Required;
+        return objectArg_1.Field("values", uncurry2(arg_3));
+    };
+    const io = () => {
+        const objectArg_2 = get$.Required;
+        return objectArg_2.Field("values", (path_2, value_2) => index(0, uncurry2(IOType_decoder), path_2, value_2));
+    };
+    switch (headerType) {
+        case "Characteristic":
+            return new CompositeHeader(1, [oa()]);
+        case "Parameter":
+            return new CompositeHeader(3, [oa()]);
+        case "Component":
+            return new CompositeHeader(0, [oa()]);
+        case "Factor":
+            return new CompositeHeader(2, [oa()]);
+        case "Input":
+            return new CompositeHeader(11, [io()]);
+        case "Output":
+            return new CompositeHeader(12, [io()]);
+        case "ProtocolType":
+            return new CompositeHeader(4, []);
+        case "ProtocolREF":
+            return new CompositeHeader(8, []);
+        case "ProtocolDescription":
+            return new CompositeHeader(5, []);
+        case "ProtocolUri":
+            return new CompositeHeader(6, []);
+        case "ProtocolVersion":
+            return new CompositeHeader(7, []);
+        case "Performer":
+            return new CompositeHeader(9, []);
+        case "Date":
+            return new CompositeHeader(10, []);
+        default:
+            return new CompositeHeader(13, [headerType]);
+    }
+}, path_3, v));
+
+export function ARCtrl_ISA_CompositeHeader__CompositeHeader_fromJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(CompositeHeader_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to CompositeHeader: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_CompositeHeader__CompositeHeader_ToJsonString_71136F3F(this$, spaces) {
+    return toString(defaultArg(spaces, 0), CompositeHeader_encoder(this$));
+}
+
+export function ARCtrl_ISA_CompositeHeader__CompositeHeader_toJsonString_Static_Z331CE692(a) {
+    return ARCtrl_ISA_CompositeHeader__CompositeHeader_ToJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/ArcTypes/IOType.js

@@ -0,0 +1,35 @@
+import { toString } from "../../../fable_modules/fable-library.4.5.0/Types.js";
+import { fromString, string, succeed, andThen } from "../../../fable_modules/Thoth.Json.10.1.0/Decode.fs.js";
+import { uncurry2, uncurry3 } from "../../../fable_modules/fable-library.4.5.0/Util.js";
+import { IOType } from "../../ISA/ArcTypes/CompositeHeader.js";
+import { printf, toFail } from "../../../fable_modules/fable-library.4.5.0/String.js";
+import { toString as toString_1 } from "../../../fable_modules/Thoth.Json.10.1.0/Encode.fs.js";
+import { defaultArg } from "../../../fable_modules/fable-library.4.5.0/Option.js";
+
+export function IOType_encoder(io) {
+    return toString(io);
+}
+
+export const IOType_decoder = (path_1) => ((value_1) => andThen(uncurry3((s) => {
+    const output = IOType.ofString(s);
+    return (arg10$0040) => ((arg20$0040) => succeed(output, arg10$0040, arg20$0040));
+}), string, path_1, value_1));
+
+export function ARCtrl_ISA_IOType__IOType_fromJsonString_Static_Z721C83C5(jsonString) {
+    const matchValue = fromString(uncurry2(IOType_decoder), jsonString);
+    if (matchValue.tag === 1) {
+        return toFail(printf("Error. Unable to parse json string to IOType: %s"))(matchValue.fields[0]);
+    }
+    else {
+        return matchValue.fields[0];
+    }
+}
+
+export function ARCtrl_ISA_IOType__IOType_ToJsonString_71136F3F(this$, spaces) {
+    return toString_1(defaultArg(spaces, 0), IOType_encoder(this$));
+}
+
+export function ARCtrl_ISA_IOType__IOType_toJsonString_Static_Z359DBB26(a) {
+    return ARCtrl_ISA_IOType__IOType_ToJsonString_71136F3F(a);
+}
+

package/ISA/ISA.Json/Assay.js

@@ -14,7 +14,6 @@ import { Process_decoder, Process_encoder } from "./Process.js";
 import { decoder as decoder_5, encoder } from "./Comment.js";
 import { fromJsonString, uri } from "./Decode.js";
 import { Assay } from "../ISA/JsonTypes/Assay.js";
-import { ArcAssay } from "../ISA/ArcTypes/ArcTypes.js";
 
 export function AssayMaterials_encoder(options, oa) {
     return object_22(choose((tupledArg) => {
@@ -104,20 +103,3 @@ export function Assay_toStringLD(a) {
     return toString(2, Assay_encoder((returnVal = ConverterOptions_$ctor(), ((ConverterOptions__set_SetID_Z1FBCCD16(returnVal, true), ConverterOptions__set_IncludeType_Z1FBCCD16(returnVal, true)), returnVal)), a));
 }
 
-export function ArcAssay_fromJsonString(s) {
-    const a = fromJsonString(uncurry2(Assay_decoder(ConverterOptions_$ctor())), s);
-    return ArcAssay.fromAssay(a);
-}
-
-export function ArcAssay_toJsonString(a) {
-    return toString(2, Assay_encoder(ConverterOptions_$ctor(), a.ToAssay()));
-}
-
-/**
- * exports in json-ld format
- */
-export function ArcAssay_toStringLD(a) {
-    let returnVal;
-    return toString(2, Assay_encoder((returnVal = ConverterOptions_$ctor(), ((ConverterOptions__set_SetID_Z1FBCCD16(returnVal, true), ConverterOptions__set_IncludeType_Z1FBCCD16(returnVal, true)), returnVal)), a.ToAssay()));
-}
-