@nfdi4plants/arctrl 2.5.1 → 3.0.0-alpha.2

package/dist/ts/esm/ts/Json/Process/MaterialAttributeValue.js

@@ -0,0 +1,42 @@
+import { genID, decoder, encoder } from "../PropertyValue.js";
+import { MaterialAttributeValue_createAsPV, MaterialAttributeValue } from "../../Core/Process/MaterialAttributeValue.js";
+import { value as value_4, map } from "@fable-org/fable-library-js/Option.js";
+import { ofArray, choose } from "@fable-org/fable-library-js/List.js";
+import { tryInclude } from "../Encode.js";
+import { decoder as decoder_1, encoder as encoder_1 } from "./MaterialAttribute.js";
+import { decoder as decoder_2, encoder as encoder_2 } from "./Value.js";
+import { OntologyAnnotation_ISAJson_decoder, OntologyAnnotation_ISAJson_encoder } from "../OntologyAnnotation.js";
+import { map as map_1 } from "@fable-org/fable-library-js/Seq.js";
+import { encode } from "../IDTable.js";
+import { object } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+import { Decode_uri } from "../Decode.js";
+export const ROCrate_encoder = encoder;
+export const ROCrate_decoder = decoder(MaterialAttributeValue_createAsPV);
+export function ISAJson_genID(oa) {
+    return genID(oa);
+}
+export function ISAJson_encoder(idMap, oa) {
+    const f = (oa_1) => {
+        const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([tryInclude("@id", (value) => ({
+                Encode(helpers) {
+                    return helpers.encodeString(value);
+                },
+            }), ISAJson_genID(oa_1)), tryInclude("category", (value_2) => encoder_1(idMap, value_2), oa_1.Category), tryInclude("value", (value_3) => encoder_2(idMap, value_3), oa_1.Value), tryInclude("unit", (oa_3) => OntologyAnnotation_ISAJson_encoder(idMap, oa_3), oa_1.Unit)]));
+        return {
+            Encode(helpers_1) {
+                const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_1)], values_1);
+                return helpers_1.encodeObject(arg);
+            },
+        };
+    };
+    if (idMap != null) {
+        return encode(ISAJson_genID, f, oa, value_4(idMap));
+    }
+    else {
+        return f(oa);
+    }
+}
+export const ISAJson_decoder = object((get$) => {
+    let objectArg, objectArg_1, objectArg_2, objectArg_3;
+    return new MaterialAttributeValue((objectArg = get$.Optional, objectArg.Field("@id", Decode_uri)), (objectArg_1 = get$.Optional, objectArg_1.Field("category", decoder_1)), (objectArg_2 = get$.Optional, objectArg_2.Field("value", decoder_2)), (objectArg_3 = get$.Optional, objectArg_3.Field("unit", OntologyAnnotation_ISAJson_decoder)));
+});

package/dist/ts/esm/ts/Json/Process/MaterialType.js

@@ -0,0 +1,42 @@
+import { ErrorReason$1_BadPrimitive } from "../../fable_modules/Thoth.Json.Core.0.4.0/Types.fs.js";
+import { MaterialType_LabeledExtractName, MaterialType_ExtractName } from "../../Core/Process/MaterialType.js";
+import { string } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+import { FSharpResult$2_Ok, FSharpResult$2_Error } from "@fable-org/fable-library-js/Result.js";
+export function ROCrate_encoder(value) {
+    if (value.tag === /* LabeledExtractName */ 1) {
+        return {
+            Encode(helpers_1) {
+                return helpers_1.encodeString("Labeled Extract Name");
+            },
+        };
+    }
+    else {
+        return {
+            Encode(helpers) {
+                return helpers.encodeString("Extract Name");
+            },
+        };
+    }
+}
+export const ROCrate_decoder = {
+    Decode(s, json) {
+        const matchValue = string.Decode(s, json);
+        if (matchValue.tag === /* Error */ 1) {
+            return FSharpResult$2_Error(matchValue.fields[0]);
+        }
+        else {
+            switch (matchValue.fields[0]) {
+                case "Extract Name":
+                    return FSharpResult$2_Ok(MaterialType_ExtractName());
+                case "Labeled Extract Name":
+                    return FSharpResult$2_Ok(MaterialType_LabeledExtractName());
+                default: {
+                    const s_1 = matchValue.fields[0];
+                    return FSharpResult$2_Error([`Could not parse ${s_1}No other value than "Extract Name" or "Labeled Extract Name" allowed for materialtype`, ErrorReason$1_BadPrimitive(s_1, json)]);
+                }
+            }
+        }
+    },
+};
+export const ISAJson_encoder = ROCrate_encoder;
+export const ISAJson_decoder = ROCrate_decoder;

package/dist/ts/esm/ts/Json/Process/Process.js

@@ -0,0 +1,103 @@
+import { map, value as value_10 } from "@fable-org/fable-library-js/Option.js";
+import { replace } from "@fable-org/fable-library-js/String.js";
+import { URIModule_toString } from "../../Core/URI.js";
+import { Process } from "../../Core/Process/Process.js";
+import { ofArray, singleton, choose } from "@fable-org/fable-library-js/List.js";
+import { list as list_1 } from "../../fable_modules/Thoth.Json.Core.0.4.0/Encode.fs.js";
+import { tryIncludeListOpt, tryInclude } from "../Encode.js";
+import { ISAJson_decoder as ISAJson_decoder_1, ISAJson_encoder as ISAJson_encoder_1, ROCrate_decoder as ROCrate_decoder_1, ROCrate_encoder as ROCrate_encoder_1 } from "./Protocol.js";
+import { ISAJson_decoder as ISAJson_decoder_2, ISAJson_encoder as ISAJson_encoder_2, ROCrate_decoder as ROCrate_decoder_2, ROCrate_encoder as ROCrate_encoder_2 } from "./ProcessParameterValue.js";
+import { ROCrate_decodeAuthorListString, ROCrate_encodeAuthorListString } from "../Person.js";
+import { ISAJson_decoder as ISAJson_decoder_3, ISAJson_encoder as ISAJson_encoder_3, ROCrate_decoder as ROCrate_decoder_3, ROCrate_encoder as ROCrate_encoder_3 } from "./ProcessInput.js";
+import { ISAJson_decoder as ISAJson_decoder_4, ISAJson_encoder as ISAJson_encoder_4, ROCrate_decoder as ROCrate_decoder_4, ROCrate_encoder as ROCrate_encoder_4 } from "./ProcessOutput.js";
+import { ISAJson_decoder as ISAJson_decoder_5, ISAJson_encoder as ISAJson_encoder_5, ROCrate_decoder as ROCrate_decoder_5, ROCrate_encoder as ROCrate_encoder_5 } from "../Comment.js";
+import { context_jsonvalue } from "../context/rocrate/isa_process_context.js";
+import { map as map_1 } from "@fable-org/fable-library-js/Seq.js";
+import { list as list_2, string, object } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+import { Decode_uri } from "../Decode.js";
+import { encode } from "../IDTable.js";
+export function ROCrate_genID(p) {
+    const matchValue = p.ID;
+    if (matchValue == null) {
+        const matchValue_1 = p.Name;
+        if (matchValue_1 == null) {
+            return "#EmptyProcess";
+        }
+        else {
+            return "#Process_" + replace(value_10(matchValue_1), " ", "_");
+        }
+    }
+    else {
+        return URIModule_toString(value_10(matchValue));
+    }
+}
+export function ROCrate_encoder(studyName, assayName, oa) {
+    let value;
+    const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([["@id", (value = ROCrate_genID(oa), {
+                Encode(helpers) {
+                    return helpers.encodeString(value);
+                },
+            })], ["@type", list_1(singleton({
+                Encode(helpers_1) {
+                    return helpers_1.encodeString("Process");
+                },
+            }))], tryInclude("name", (value_2) => ({
+            Encode(helpers_2) {
+                return helpers_2.encodeString(value_2);
+            },
+        }), oa.Name), tryInclude("executesProtocol", (oa_1) => ROCrate_encoder_1(studyName, assayName, oa.Name, oa_1), oa.ExecutesProtocol), tryIncludeListOpt("parameterValues", ROCrate_encoder_2, oa.ParameterValues), tryInclude("performer", ROCrate_encodeAuthorListString, oa.Performer), tryInclude("date", (value_4) => ({
+            Encode(helpers_3) {
+                return helpers_3.encodeString(value_4);
+            },
+        }), oa.Date), tryIncludeListOpt("inputs", ROCrate_encoder_3, oa.Inputs), tryIncludeListOpt("outputs", ROCrate_encoder_4, oa.Outputs), tryIncludeListOpt("comments", ROCrate_encoder_5, oa.Comments), ["@context", context_jsonvalue]]));
+    return {
+        Encode(helpers_4) {
+            const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_4)], values_1);
+            return helpers_4.encodeObject(arg);
+        },
+    };
+}
+export const ROCrate_decoder = object((get$) => {
+    let objectArg, objectArg_1, objectArg_2, arg_7, objectArg_3, objectArg_4, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8;
+    return new Process((objectArg = get$.Optional, objectArg.Field("@id", Decode_uri)), (objectArg_1 = get$.Optional, objectArg_1.Field("name", string)), (objectArg_2 = get$.Optional, objectArg_2.Field("executesProtocol", ROCrate_decoder_1)), (arg_7 = list_2(ROCrate_decoder_2), (objectArg_3 = get$.Optional, objectArg_3.Field("parameterValues", arg_7))), (objectArg_4 = get$.Optional, objectArg_4.Field("performer", ROCrate_decodeAuthorListString)), (objectArg_5 = get$.Optional, objectArg_5.Field("date", string)), undefined, undefined, (arg_13 = list_2(ROCrate_decoder_3), (objectArg_6 = get$.Optional, objectArg_6.Field("inputs", arg_13))), (arg_15 = list_2(ROCrate_decoder_4), (objectArg_7 = get$.Optional, objectArg_7.Field("outputs", arg_15))), (arg_17 = list_2(ROCrate_decoder_5), (objectArg_8 = get$.Optional, objectArg_8.Field("comments", arg_17))));
+});
+export function ISAJson_encoder(studyName, assayName, idMap, oa) {
+    const f = (oa_1) => {
+        const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([tryInclude("@id", (value) => ({
+                Encode(helpers) {
+                    return helpers.encodeString(value);
+                },
+            }), ROCrate_genID(oa_1)), tryInclude("name", (value_2) => ({
+                Encode(helpers_1) {
+                    return helpers_1.encodeString(value_2);
+                },
+            }), oa_1.Name), tryInclude("executesProtocol", (oa_2) => ISAJson_encoder_1(studyName, assayName, oa_1.Name, idMap, oa_2), oa_1.ExecutesProtocol), tryIncludeListOpt("parameterValues", (oa_3) => ISAJson_encoder_2(idMap, oa_3), oa_1.ParameterValues), tryInclude("performer", (value_4) => ({
+                Encode(helpers_2) {
+                    return helpers_2.encodeString(value_4);
+                },
+            }), oa_1.Performer), tryInclude("date", (value_6) => ({
+                Encode(helpers_3) {
+                    return helpers_3.encodeString(value_6);
+                },
+            }), oa_1.Date), tryInclude("previousProcess", (oa_4) => ISAJson_encoder(studyName, assayName, idMap, oa_4), oa_1.PreviousProcess), tryInclude("nextProcess", (oa_5) => ISAJson_encoder(studyName, assayName, idMap, oa_5), oa_1.NextProcess), tryIncludeListOpt("inputs", (value_8) => ISAJson_encoder_3(idMap, value_8), oa_1.Inputs), tryIncludeListOpt("outputs", (value_9) => ISAJson_encoder_4(idMap, value_9), oa_1.Outputs), tryIncludeListOpt("comments", (comment) => ISAJson_encoder_5(idMap, comment), oa_1.Comments)]));
+        return {
+            Encode(helpers_4) {
+                const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_4)], values_1);
+                return helpers_4.encodeObject(arg);
+            },
+        };
+    };
+    if (idMap != null) {
+        return encode(ROCrate_genID, f, oa, value_10(idMap));
+    }
+    else {
+        return f(oa);
+    }
+}
+export const ISAJson_decoder = (() => {
+    const decode = () => object((get$) => {
+        let objectArg, objectArg_1, objectArg_2, arg_7, objectArg_3, objectArg_4, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8, arg_19, objectArg_9, arg_21, objectArg_10;
+        return new Process((objectArg = get$.Optional, objectArg.Field("@id", Decode_uri)), (objectArg_1 = get$.Optional, objectArg_1.Field("name", string)), (objectArg_2 = get$.Optional, objectArg_2.Field("executesProtocol", ISAJson_decoder_1)), (arg_7 = list_2(ISAJson_decoder_2), (objectArg_3 = get$.Optional, objectArg_3.Field("parameterValues", arg_7))), (objectArg_4 = get$.Optional, objectArg_4.Field("performer", string)), (objectArg_5 = get$.Optional, objectArg_5.Field("date", string)), (arg_13 = decode(), (objectArg_6 = get$.Optional, objectArg_6.Field("previousProcess", arg_13))), (arg_15 = decode(), (objectArg_7 = get$.Optional, objectArg_7.Field("nextProcess", arg_15))), (arg_17 = list_2(ISAJson_decoder_3), (objectArg_8 = get$.Optional, objectArg_8.Field("inputs", arg_17))), (arg_19 = list_2(ISAJson_decoder_4), (objectArg_9 = get$.Optional, objectArg_9.Field("outputs", arg_19))), (arg_21 = list_2(ISAJson_decoder_5), (objectArg_10 = get$.Optional, objectArg_10.Field("comments", arg_21))));
+    });
+    return decode();
+})();

package/dist/ts/esm/ts/Json/Process/ProcessInput.js

@@ -0,0 +1,33 @@
+import { ISAJson_decoder as ISAJson_decoder_2, ISAJson_encoder as ISAJson_encoder_1, ROCrate_decoder as ROCrate_decoder_1, ROCrate_encoder as ROCrate_encoder_1 } from "./Sample.js";
+import { ISAJson_decoder as ISAJson_decoder_3, ISAJson_encoder as ISAJson_encoder_2, ROCrate_decoder as ROCrate_decoder_3, ROCrate_encoder as ROCrate_encoder_2 } from "../Data.js";
+import { ISAJson_decoder as ISAJson_decoder_4, ISAJson_encoder as ISAJson_encoder_3, ROCrate_decoder as ROCrate_decoder_4, ROCrate_encoder as ROCrate_encoder_3 } from "./Material.js";
+import { ISAJson_decoder as ISAJson_decoder_1, ISAJson_encoder as ISAJson_encoder_4, ROCrate_decoder as ROCrate_decoder_2, ROCrate_encoder as ROCrate_encoder_4 } from "./Source.js";
+import { ProcessInput_Material, ProcessInput_Data, ProcessInput_Source, ProcessInput_Sample } from "../../Core/Process/ProcessInput.js";
+import { map, oneOf } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+import { ofArray } from "@fable-org/fable-library-js/List.js";
+export function ROCrate_encoder(value) {
+    switch (value.tag) {
+        case /* Sample */ 1:
+            return ROCrate_encoder_1(value.fields[0]);
+        case /* Data */ 2:
+            return ROCrate_encoder_2(value.fields[0]);
+        case /* Material */ 3:
+            return ROCrate_encoder_3(value.fields[0]);
+        default:
+            return ROCrate_encoder_4(value.fields[0]);
+    }
+}
+export const ROCrate_decoder = oneOf(ofArray([map(ProcessInput_Sample, ROCrate_decoder_1), map(ProcessInput_Source, ROCrate_decoder_2), map(ProcessInput_Data, ROCrate_decoder_3), map(ProcessInput_Material, ROCrate_decoder_4)]));
+export function ISAJson_encoder(idMap, value) {
+    switch (value.tag) {
+        case /* Sample */ 1:
+            return ISAJson_encoder_1(idMap, value.fields[0]);
+        case /* Data */ 2:
+            return ISAJson_encoder_2(idMap, value.fields[0]);
+        case /* Material */ 3:
+            return ISAJson_encoder_3(idMap, value.fields[0]);
+        default:
+            return ISAJson_encoder_4(idMap, value.fields[0]);
+    }
+}
+export const ISAJson_decoder = oneOf(ofArray([map(ProcessInput_Source, ISAJson_decoder_1), map(ProcessInput_Sample, ISAJson_decoder_2), map(ProcessInput_Data, ISAJson_decoder_3), map(ProcessInput_Material, ISAJson_decoder_4)]));

package/dist/ts/esm/ts/Json/Process/ProcessOutput.js

@@ -0,0 +1,28 @@
+import { ISAJson_decoder as ISAJson_decoder_2, ISAJson_encoder as ISAJson_encoder_1, ROCrate_decoder as ROCrate_decoder_2, ROCrate_encoder as ROCrate_encoder_1 } from "../Data.js";
+import { ISAJson_decoder as ISAJson_decoder_3, ISAJson_encoder as ISAJson_encoder_2, ROCrate_decoder as ROCrate_decoder_3, ROCrate_encoder as ROCrate_encoder_2 } from "./Material.js";
+import { ISAJson_decoder as ISAJson_decoder_1, ISAJson_encoder as ISAJson_encoder_3, ROCrate_decoder as ROCrate_decoder_1, ROCrate_encoder as ROCrate_encoder_3 } from "./Sample.js";
+import { ProcessOutput_Material, ProcessOutput_Data, ProcessOutput_Sample } from "../../Core/Process/ProcessOutput.js";
+import { map, oneOf } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+import { ofArray } from "@fable-org/fable-library-js/List.js";
+export function ROCrate_encoder(value) {
+    switch (value.tag) {
+        case /* Data */ 1:
+            return ROCrate_encoder_1(value.fields[0]);
+        case /* Material */ 2:
+            return ROCrate_encoder_2(value.fields[0]);
+        default:
+            return ROCrate_encoder_3(value.fields[0]);
+    }
+}
+export const ROCrate_decoder = oneOf(ofArray([map(ProcessOutput_Sample, ROCrate_decoder_1), map(ProcessOutput_Data, ROCrate_decoder_2), map(ProcessOutput_Material, ROCrate_decoder_3)]));
+export function ISAJson_encoder(idMap, value) {
+    switch (value.tag) {
+        case /* Data */ 1:
+            return ISAJson_encoder_1(idMap, value.fields[0]);
+        case /* Material */ 2:
+            return ISAJson_encoder_2(idMap, value.fields[0]);
+        default:
+            return ISAJson_encoder_3(idMap, value.fields[0]);
+    }
+}
+export const ISAJson_decoder = oneOf(ofArray([map(ProcessOutput_Sample, ISAJson_decoder_1), map(ProcessOutput_Data, ISAJson_decoder_2), map(ProcessOutput_Material, ISAJson_decoder_3)]));

package/dist/ts/esm/ts/Json/Process/ProcessParameterValue.js

@@ -0,0 +1,28 @@
+import { decoder, encoder } from "../PropertyValue.js";
+import { ProcessParameterValue } from "../../Core/Process/ProcessParameterValue.js";
+import { map } from "@fable-org/fable-library-js/Option.js";
+import { ofArray, choose } from "@fable-org/fable-library-js/List.js";
+import { tryInclude } from "../Encode.js";
+import { decoder as decoder_1, encoder as encoder_1 } from "./ProtocolParameter.js";
+import { decoder as decoder_2, encoder as encoder_2 } from "./Value.js";
+import { OntologyAnnotation_ISAJson_decoder, OntologyAnnotation_ISAJson_encoder } from "../OntologyAnnotation.js";
+import { map as map_1 } from "@fable-org/fable-library-js/Seq.js";
+import { object } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+export const ROCrate_encoder = encoder;
+export const ROCrate_decoder = decoder((alternateName, measurementMethod, description, category, value, unit) => ProcessParameterValue.createAsPV(alternateName, measurementMethod, description, category, value, unit));
+export function ISAJson_genID(oa) {
+    throw new Error("Not implemented");
+}
+export function ISAJson_encoder(idMap, oa) {
+    const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([tryInclude("category", (value) => encoder_1(idMap, value), oa.Category), tryInclude("value", (value_1) => encoder_2(idMap, value_1), oa.Value), tryInclude("unit", (oa_1) => OntologyAnnotation_ISAJson_encoder(idMap, oa_1), oa.Unit)]));
+    return {
+        Encode(helpers) {
+            const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers)], values_1);
+            return helpers.encodeObject(arg);
+        },
+    };
+}
+export const ISAJson_decoder = object((get$) => {
+    let objectArg, objectArg_1, objectArg_2;
+    return new ProcessParameterValue((objectArg = get$.Optional, objectArg.Field("category", decoder_1)), (objectArg_1 = get$.Optional, objectArg_1.Field("value", decoder_2)), (objectArg_2 = get$.Optional, objectArg_2.Field("unit", OntologyAnnotation_ISAJson_decoder)));
+});

package/dist/ts/esm/ts/Json/Process/Protocol.js

@@ -0,0 +1,174 @@
+import { defaultArg, map, value as value_11 } from "@fable-org/fable-library-js/Option.js";
+import { replace } from "@fable-org/fable-library-js/String.js";
+import { Protocol } from "../../Core/Process/Protocol.js";
+import { append, empty, ofArray, singleton, choose } from "@fable-org/fable-library-js/List.js";
+import { list as list_4 } from "../../fable_modules/Thoth.Json.Core.0.4.0/Encode.fs.js";
+import { tryIncludeListOpt, tryInclude } from "../Encode.js";
+import { OntologyAnnotation_ISAJson_decoder, OntologyAnnotation_ISAJson_encoder, OntologyAnnotation_ROCrate_decoderDefinedTerm, OntologyAnnotation_ROCrate_encoderDefinedTerm } from "../OntologyAnnotation.js";
+import { ISAJson_decoder as ISAJson_decoder_1, ISAJson_encoder as ISAJson_encoder_1, ROCrate_decoder as ROCrate_decoder_1, ROCrate_encoder as ROCrate_encoder_1 } from "./Component.js";
+import { ISAJson_decoder as ISAJson_decoder_2, ISAJson_encoder as ISAJson_encoder_2, ROCrate_decoder as ROCrate_decoder_2, ROCrate_encoder as ROCrate_encoder_2 } from "../Comment.js";
+import { context_jsonvalue } from "../context/rocrate/isa_protocol_context.js";
+import { map as map_1 } from "@fable-org/fable-library-js/Seq.js";
+import { string, list as list_5, object } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+import { Option_fromValueWithDefault } from "../../Core/Helper/Collections.js";
+import { Decode_uri } from "../Decode.js";
+import { decoder, encoder } from "./ProtocolParameter.js";
+import { encode } from "../IDTable.js";
+export function ROCrate_genID(studyName, assayName, processName, p) {
+    const matchValue = p.ID;
+    let matchResult, id_1;
+    if (matchValue != null) {
+        if (value_11(matchValue) !== "") {
+            matchResult = 0;
+            id_1 = value_11(matchValue);
+        }
+        else {
+            matchResult = 1;
+        }
+    }
+    else {
+        matchResult = 1;
+    }
+    switch (matchResult) {
+        case 0:
+            return id_1;
+        default: {
+            const matchValue_1 = p.Uri;
+            if (matchValue_1 == null) {
+                const matchValue_2 = p.Name;
+                if (matchValue_2 == null) {
+                    let matchResult_1, an, pn, sn, pn_1, sn_1, pn_2;
+                    if (studyName == null) {
+                        if (assayName == null) {
+                            if (processName != null) {
+                                matchResult_1 = 2;
+                                pn_2 = value_11(processName);
+                            }
+                            else {
+                                matchResult_1 = 3;
+                            }
+                        }
+                        else {
+                            matchResult_1 = 3;
+                        }
+                    }
+                    else if (assayName == null) {
+                        if (processName != null) {
+                            matchResult_1 = 1;
+                            pn_1 = value_11(processName);
+                            sn_1 = value_11(studyName);
+                        }
+                        else {
+                            matchResult_1 = 3;
+                        }
+                    }
+                    else if (processName != null) {
+                        matchResult_1 = 0;
+                        an = value_11(assayName);
+                        pn = value_11(processName);
+                        sn = value_11(studyName);
+                    }
+                    else {
+                        matchResult_1 = 3;
+                    }
+                    switch (matchResult_1) {
+                        case 0:
+                            return (((("#Protocol_" + replace(sn, " ", "_")) + "_") + replace(an, " ", "_")) + "_") + replace(pn, " ", "_");
+                        case 1:
+                            return (("#Protocol_" + replace(sn_1, " ", "_")) + "_") + replace(pn_1, " ", "_");
+                        case 2:
+                            return "#Protocol_" + replace(pn_2, " ", "_");
+                        default:
+                            return "#EmptyProtocol";
+                    }
+                }
+                else {
+                    return "#Protocol_" + replace(value_11(matchValue_2), " ", "_");
+                }
+            }
+            else {
+                return value_11(matchValue_1);
+            }
+        }
+    }
+}
+export function ROCrate_encoder(studyName, assayName, processName, oa) {
+    let value;
+    const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([["@id", (value = ROCrate_genID(studyName, assayName, processName, oa), {
+                Encode(helpers) {
+                    return helpers.encodeString(value);
+                },
+            })], ["@type", list_4(singleton({
+                Encode(helpers_1) {
+                    return helpers_1.encodeString("Protocol");
+                },
+            }))], tryInclude("name", (value_2) => ({
+            Encode(helpers_2) {
+                return helpers_2.encodeString(value_2);
+            },
+        }), oa.Name), tryInclude("protocolType", OntologyAnnotation_ROCrate_encoderDefinedTerm, oa.ProtocolType), tryInclude("description", (value_4) => ({
+            Encode(helpers_3) {
+                return helpers_3.encodeString(value_4);
+            },
+        }), oa.Description), tryInclude("uri", (value_6) => ({
+            Encode(helpers_4) {
+                return helpers_4.encodeString(value_6);
+            },
+        }), oa.Uri), tryInclude("version", (value_8) => ({
+            Encode(helpers_5) {
+                return helpers_5.encodeString(value_8);
+            },
+        }), oa.Version), tryIncludeListOpt("components", ROCrate_encoder_1, oa.Components), tryIncludeListOpt("comments", ROCrate_encoder_2, oa.Comments), ["@context", context_jsonvalue]]));
+    return {
+        Encode(helpers_6) {
+            const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_6)], values_1);
+            return helpers_6.encodeObject(arg);
+        },
+    };
+}
+export const ROCrate_decoder = object((get$) => {
+    let list_3, list_1, arg_1, objectArg, arg_3, objectArg_1, arg_5, objectArg_2, objectArg_3, objectArg_4, objectArg_5, objectArg_6, objectArg_7, objectArg_8, arg_19, objectArg_9;
+    const components = Option_fromValueWithDefault(empty(), (list_3 = ((list_1 = defaultArg((arg_1 = list_5(ROCrate_decoder_1), (objectArg = get$.Optional, objectArg.Field("components", arg_1))), empty()), append(defaultArg((arg_3 = list_5(ROCrate_decoder_1), (objectArg_1 = get$.Optional, objectArg_1.Field("reagents", arg_3))), empty()), list_1))), append(defaultArg((arg_5 = list_5(ROCrate_decoder_1), (objectArg_2 = get$.Optional, objectArg_2.Field("computationalTools", arg_5))), empty()), list_3)));
+    return new Protocol((objectArg_3 = get$.Optional, objectArg_3.Field("@id", Decode_uri)), (objectArg_4 = get$.Optional, objectArg_4.Field("name", string)), (objectArg_5 = get$.Optional, objectArg_5.Field("protocolType", OntologyAnnotation_ROCrate_decoderDefinedTerm)), (objectArg_6 = get$.Optional, objectArg_6.Field("description", string)), (objectArg_7 = get$.Optional, objectArg_7.Field("uri", Decode_uri)), (objectArg_8 = get$.Optional, objectArg_8.Field("version", string)), undefined, components, (arg_19 = list_5(ROCrate_decoder_2), (objectArg_9 = get$.Optional, objectArg_9.Field("comments", arg_19))));
+});
+export function ISAJson_encoder(studyName, assayName, processName, idMap, oa) {
+    const f = (oa_1) => {
+        const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([tryInclude("@id", (value) => ({
+                Encode(helpers) {
+                    return helpers.encodeString(value);
+                },
+            }), ROCrate_genID(studyName, assayName, processName, oa_1)), tryInclude("name", (value_2) => ({
+                Encode(helpers_1) {
+                    return helpers_1.encodeString(value_2);
+                },
+            }), oa_1.Name), tryInclude("protocolType", (oa_2) => OntologyAnnotation_ISAJson_encoder(idMap, oa_2), oa_1.ProtocolType), tryInclude("description", (value_4) => ({
+                Encode(helpers_2) {
+                    return helpers_2.encodeString(value_4);
+                },
+            }), oa_1.Description), tryInclude("uri", (value_6) => ({
+                Encode(helpers_3) {
+                    return helpers_3.encodeString(value_6);
+                },
+            }), oa_1.Uri), tryInclude("version", (value_8) => ({
+                Encode(helpers_4) {
+                    return helpers_4.encodeString(value_8);
+                },
+            }), oa_1.Version), tryIncludeListOpt("parameters", (value_10) => encoder(idMap, value_10), oa_1.Parameters), tryIncludeListOpt("components", (c) => ISAJson_encoder_1(idMap, c), oa_1.Components), tryIncludeListOpt("comments", (comment) => ISAJson_encoder_2(idMap, comment), oa_1.Comments)]));
+        return {
+            Encode(helpers_5) {
+                const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_5)], values_1);
+                return helpers_5.encodeObject(arg);
+            },
+        };
+    };
+    if (idMap != null) {
+        return encode((p_1) => ROCrate_genID(studyName, assayName, processName, p_1), f, oa, value_11(idMap));
+    }
+    else {
+        return f(oa);
+    }
+}
+export const ISAJson_decoder = object((get$) => {
+    let objectArg, objectArg_1, objectArg_2, objectArg_3, objectArg_4, objectArg_5, arg_13, objectArg_6, arg_15, objectArg_7, arg_17, objectArg_8;
+    return new Protocol((objectArg = get$.Optional, objectArg.Field("@id", Decode_uri)), (objectArg_1 = get$.Optional, objectArg_1.Field("name", string)), (objectArg_2 = get$.Optional, objectArg_2.Field("protocolType", OntologyAnnotation_ISAJson_decoder)), (objectArg_3 = get$.Optional, objectArg_3.Field("description", string)), (objectArg_4 = get$.Optional, objectArg_4.Field("uri", Decode_uri)), (objectArg_5 = get$.Optional, objectArg_5.Field("version", string)), (arg_13 = list_5(decoder), (objectArg_6 = get$.Optional, objectArg_6.Field("parameters", arg_13))), (arg_15 = list_5(ISAJson_decoder_1), (objectArg_7 = get$.Optional, objectArg_7.Field("components", arg_15))), (arg_17 = list_5(ISAJson_decoder_2), (objectArg_8 = get$.Optional, objectArg_8.Field("comments", arg_17))));
+});

package/dist/ts/esm/ts/Json/Process/ProtocolParameter.js

@@ -0,0 +1,42 @@
+import { map, value as value_4 } from "@fable-org/fable-library-js/Option.js";
+import { OntologyAnnotation_ISAJson_decoder, OntologyAnnotation_ISAJson_encoder, OntologyAnnotation_ROCrate_genID } from "../OntologyAnnotation.js";
+import { ProtocolParameter } from "../../Core/Process/ProtocolParameter.js";
+import { ofArray, choose } from "@fable-org/fable-library-js/List.js";
+import { tryInclude } from "../Encode.js";
+import { map as map_1 } from "@fable-org/fable-library-js/Seq.js";
+import { encode } from "../IDTable.js";
+import { object } from "../../fable_modules/Thoth.Json.Core.0.4.0/Decode.fs.js";
+export function genID(p) {
+    const matchValue = p.ParameterName;
+    if (matchValue == null) {
+        return "#EmptyProtocolParameter";
+    }
+    else {
+        return `#ProtocolParameter/${OntologyAnnotation_ROCrate_genID(value_4(matchValue))}`;
+    }
+}
+export function encoder(idMap, value) {
+    const f = (value_1) => {
+        const values_1 = choose((tupledArg) => map((v_1) => [tupledArg[0], v_1], tupledArg[1]), ofArray([tryInclude("@id", (value_2) => ({
+                Encode(helpers) {
+                    return helpers.encodeString(value_2);
+                },
+            }), genID(value_1)), tryInclude("parameterName", (oa) => OntologyAnnotation_ISAJson_encoder(idMap, oa), value_1.ParameterName)]));
+        return {
+            Encode(helpers_1) {
+                const arg = map_1((tupledArg_1) => [tupledArg_1[0], tupledArg_1[1].Encode(helpers_1)], values_1);
+                return helpers_1.encodeObject(arg);
+            },
+        };
+    };
+    if (idMap != null) {
+        return encode(genID, f, value, value_4(idMap));
+    }
+    else {
+        return f(value);
+    }
+}
+export const decoder = object((get$) => {
+    let objectArg;
+    return new ProtocolParameter(undefined, (objectArg = get$.Optional, objectArg.Field("parameterName", OntologyAnnotation_ISAJson_decoder)));
+});