@nfdi4plants/arctrl 3.0.0-beta.14 → 3.0.0-beta.16

package/dist/ts/ts/ROCrateIO.js

@@ -1,10 +1,11 @@
 import { class_type } from '../node_modules/@fable-org/fable-library-js/Reflection.js';
-import { LDNode, LDRef } from './ROCrate/LDObject.js';
+import { LDNode, LDRef, DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5 } from './ROCrate/LDObject.js';
+import { ofArray, filter, isEmpty, map as map$1 } from '../node_modules/@fable-org/fable-library-js/List.js';
 import { LDCreativeWork } from './ROCrate/LDTypes/CreativeWork.js';
-import { value, unwrap, bind } from '../node_modules/@fable-org/fable-library-js/Option.js';
+import { value, unwrap, bind, defaultArg } from '../node_modules/@fable-org/fable-library-js/Option.js';
 import { License } from './License.js';
 import { LDContext } from './ROCrate/LDContext.js';
-import { ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_1695DD5C, ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8 } from './Conversion.js';
+import { ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B, ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8, ARCtrl_ArcRun__ArcRun_ToROCrateRun_1695DD5C, ARCtrl_ArcWorkflow__ArcWorkflow_ToROCrateWorkflow_1695DD5C } from './Conversion.js';
 import { LDDataset } from './ROCrate/LDTypes/Dataset.js';
 import { now } from '../node_modules/@fable-org/fable-library-js/Date.js';
 import { initV1_2, initBioschemasContext, initV1_1 } from './ROCrate/ROCrateContext.js';
@@ -12,7 +13,11 @@ import { encoder, decoder } from './Json/ROCrate/LDGraph.js';
 import { map } from './fable_modules/Thoth.Json.Core.0.7.0/Decode.fs.js';
 import { ResizeArray_choose } from './Core/Helper/Collections.js';
 import { LDFile } from './ROCrate/LDTypes/File.js';
-import { exactlyOne } from '../node_modules/@fable-org/fable-library-js/Seq.js';
+import { iterate, tryHead, exactlyOne } from '../node_modules/@fable-org/fable-library-js/Seq.js';
+import { join, replace, toFail, printf } from '../node_modules/@fable-org/fable-library-js/String.js';
+import { LDCreateAction } from './ROCrate/LDTypes/CreateAction.js';
+import { ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F } from './JsonIO/LDObject.js';
+import { LDComputationalWorkflow } from './ROCrate/LDTypes/ComputationalWorkflow.js';
 import { decoder as decoder$1 } from './Json/ROCrate/LDNode.js';
 
 class ROCrate {
@@ -28,6 +33,12 @@ function ROCrate_get_metadataFileDescriptor() {
   node.SetProperty("http://schema.org/about", new LDRef("./"));
   return node;
 }
+function ROCrate_get_metadataFileDescriptorWfRun() {
+  const node = new LDNode("ro-crate-metadata.json", ["http://schema.org/CreativeWork"]);
+  node.SetProperty("http://purl.org/dc/terms/conformsTo", ofArray([new LDRef("https://w3id.org/ro/crate/1.1"), new LDRef("https://w3id.org/workflowhub/workflow-ro-crate/1.0")]));
+  node.SetProperty("http://schema.org/about", new LDRef("./"));
+  return node;
+}
 function ROCrate_createLicenseNode_29619109(license) {
   if (license == null) {
     return LDCreativeWork.create("#LICENSE", void 0, void 0, void 0, void 0, void 0, void 0, void 0, void 0, "ALL RIGHTS RESERVED BY THE AUTHORS");
@@ -73,9 +84,9 @@ function ROCrate_getLicense_Z2F770004(license, context) {
       return new License("fulltext", "", path_1);
   }
 }
-function ROCrate_encoder_1E8A3F74(isa, license, fs) {
+function ROCrate_encoder_Z7FE34C43(isa, license, fs, ignoreBrokenWR) {
   const license_1 = ROCrate_createLicenseNode_29619109(license);
-  const isa_1 = ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_1695DD5C(isa, unwrap(fs));
+  const isa_1 = ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B(isa, unwrap(fs), unwrap(ignoreBrokenWR));
   LDDataset.setSDDatePublishedAsDateTime(isa_1, now());
   LDDataset.setLicenseAsCreativeWork(isa_1, license_1);
   const graph = isa_1.Flatten();
@@ -104,8 +115,66 @@ function ROCrate_get_decoder() {
     }
   }, decoder);
 }
+function ROCrate_packDatasetAsCrate_Z2DB026F7(dataset, datasetName, datasetDescription, metadataFileDescriptor, license) {
+  const metadataFileDescriptor_1 = defaultArg(metadataFileDescriptor, ROCrate_get_metadataFileDescriptor());
+  const license_1 = ROCrate_createLicenseNode_29619109(license);
+  const mainEntity = LDDataset.create("./", void 0, void 0, void 0, void 0, void 0, datasetDescription, void 0, datasetName);
+  iterate((kv) => {
+    mainEntity.SetProperty(kv[0], kv[1]);
+  }, dataset.GetProperties(false));
+  LDDataset.setDateCreatedAsDateTime(mainEntity, now());
+  LDDataset.setLicenseAsCreativeWork(mainEntity, license_1);
+  const graph = mainEntity.Flatten();
+  const context = new LDContext(void 0, [initV1_2(), initBioschemasContext()]);
+  graph.SetContext(context);
+  graph.AddNode(metadataFileDescriptor_1);
+  graph.Compact_InPlace();
+  return graph;
+}
+function ROCrate_writeRunAsCrate_5E53831D(arcRun, fileSystem, license) {
+  const runDataset = ARCtrl_ArcRun__ArcRun_ToROCrateRun_1695DD5C(arcRun, fileSystem);
+  const missingDatasetProps = filter((prop) => !DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5(runDataset, prop), ofArray([LDDataset.identifier, LDDataset.name, LDDataset.description, LDDataset.about, LDDataset.mentions, LDDataset.creator, LDDataset.hasPart]));
+  if (!isEmpty(missingDatasetProps)) {
+    const missingPropsStr = join(", ", map$1((p) => replace(p, "http://schema.org/", ""), missingDatasetProps));
+    toFail(printf("Run dataset is missing required properties: %s"))(missingPropsStr);
+  }
+  let workflowInvocation;
+  const matchValue = tryHead(LDDataset.getAboutsAsWorkflowInvocation(runDataset));
+  if (matchValue == null) {
+    throw new Error("Run dataset 'about' property must contain a workflowInvocation");
+  } else {
+    workflowInvocation = value(matchValue);
+  }
+  const missingWfInvocationProps = filter((prop_1) => !DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5(workflowInvocation, prop_1), ofArray([LDCreateAction.name, LDCreateAction.instrument, LDCreateAction.result, LDCreateAction.object_]));
+  if (!isEmpty(missingWfInvocationProps)) {
+    const missingPropsStr_1 = join(", ", map$1((p_1) => replace(p_1, "http://schema.org/", ""), missingWfInvocationProps));
+    toFail(printf("WorkflowInvocation is missing required properties: %s"))(missingPropsStr_1);
+  }
+  return ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F(2)(ROCrate_packDatasetAsCrate_Z2DB026F7(runDataset, value(arcRun.Title), value(arcRun.Description), ROCrate_get_metadataFileDescriptorWfRun(), license));
+}
+function ROCrate_writeWorkflowAsCrate_Z4A0538D9(arcWorkflow, fileSystem, license) {
+  const workflowDataset = ARCtrl_ArcWorkflow__ArcWorkflow_ToROCrateWorkflow_1695DD5C(arcWorkflow, fileSystem);
+  const missingDatasetProps = filter((prop) => !DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5(workflowDataset, prop), ofArray([LDDataset.identifier, LDDataset.name, LDDataset.description, LDDataset.mainEntity, LDDataset.hasPart, LDDataset.creator]));
+  if (!isEmpty(missingDatasetProps)) {
+    const missingPropsStr = join(", ", map$1((p) => replace(p, "http://schema.org/", ""), missingDatasetProps));
+    toFail(printf("Workflow dataset is missing required properties: %s"))(missingPropsStr);
+  }
+  let workflowProtocol;
+  const matchValue = LDDataset.tryGetMainEntityAsWorkflowProtocol(workflowDataset);
+  if (matchValue == null) {
+    throw new Error("Workflow dataset 'mainEntity' property must contain a workflow protocol");
+  } else {
+    workflowProtocol = value(matchValue);
+  }
+  const missingProtocolProps = filter((prop_1) => !DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5(workflowProtocol, prop_1), ofArray([LDComputationalWorkflow.creator, LDComputationalWorkflow.name, LDComputationalWorkflow.input, LDComputationalWorkflow.output, LDComputationalWorkflow.programmingLanguage, LDComputationalWorkflow.url, LDComputationalWorkflow.version, LDComputationalWorkflow.dateCreated]));
+  if (!isEmpty(missingProtocolProps)) {
+    const missingPropsStr_1 = join(", ", map$1((p_1) => replace(p_1, "http://schema.org/", ""), missingProtocolProps));
+    toFail(printf("Workflow protocol is missing required properties: %s"))(missingPropsStr_1);
+  }
+  return ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F(2)(ROCrate_packDatasetAsCrate_Z2DB026F7(workflowDataset, value(arcWorkflow.Title), value(arcWorkflow.Description), ROCrate_get_metadataFileDescriptorWfRun(), license));
+}
 function ROCrate_get_decoderDeprecated() {
   return map((ldnode) => ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8(exactlyOne(LDDataset.getAbouts(ldnode)), void 0, initV1_1()), decoder$1);
 }
 
-export { ROCrate, ROCrate_$reflection, ROCrate_createLicenseNode_29619109, ROCrate_encoder_1E8A3F74, ROCrate_getLicense_Z2F770004, ROCrate_get_decoder, ROCrate_get_decoderDeprecated, ROCrate_get_metadataFileDescriptor };
+export { ROCrate, ROCrate_$reflection, ROCrate_createLicenseNode_29619109, ROCrate_encoder_Z7FE34C43, ROCrate_getLicense_Z2F770004, ROCrate_get_decoder, ROCrate_get_decoderDeprecated, ROCrate_get_metadataFileDescriptor, ROCrate_get_metadataFileDescriptorWfRun, ROCrate_packDatasetAsCrate_Z2DB026F7, ROCrate_writeRunAsCrate_5E53831D, ROCrate_writeWorkflowAsCrate_Z4A0538D9 };

package/dist/ts/ts/Yaml/ValidationPackage.d.ts

@@ -1,4 +1,4 @@
-import { YAMLElement_$union } from '../fable_modules/YAMLicious.0.0.3/YAMLiciousTypes.fs.js';
+import { YAMLElement_$union } from '../fable_modules/YAMLicious.1.0.0-alpha.2/YAMLiciousTypes.fs.js';
 import { Option } from '@fable-org/fable-library-js/Option.js';
 import { ValidationPackage } from '../ValidationPackages/ValidationPackage.js';
 import { int32 } from '@fable-org/fable-library-js/Int32.js';

package/dist/ts/ts/Yaml/ValidationPackage.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"ValidationPackage.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Yaml/ValidationPackage.ts"],"names":[],"mappings":"AACA,OAAO,EAAoE,kBAAkB,EAAE,MAAM,yDAAyD,CAAC;AAE/J,OAAO,EAAU,MAAM,EAAE,MAAM,uCAAuC,CAAC;AAIvE,OAAO,EAAE,iBAAiB,EAAE,MAAM,4CAA4C,CAAC;AAI/E,OAAO,EAAE,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAG7D,wBAAgB,yBAAyB,CAAC,iBAAiB,EAAE,iBAAiB,GAAG,kBAAkB,CAWlG;AAED,eAAO,MAAM,yBAAyB,GAAI,SAAS,kBAAkB,KAAG,iBAG7D,CAAC;AAEZ,wBAAgB,8FAA8F,CAAC,CAAC,EAAE,MAAM,GAAG,iBAAiB,CAE3I;AAED,wBAAgB,2FAA2F,CAAC,UAAU,CAAC,EAAE,KAAK,GAAG,CAAC,CAAC,IAAI,EAAE,iBAAiB,KAAK,MAAM,CAAC,CAMrK;AAED,wBAAgB,oFAAoF,CAAC,KAAK,EAAE,iBAAiB,EAAE,UAAU,EAAE,MAAM,CAAC,KAAK,CAAC,GAAG,MAAM,CAEhK"}
+{"version":3,"file":"ValidationPackage.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Yaml/ValidationPackage.ts"],"names":[],"mappings":"AACA,OAAO,EAAoE,kBAAkB,EAAE,MAAM,iEAAiE,CAAC;AAEvK,OAAO,EAAU,MAAM,EAAE,MAAM,uCAAuC,CAAC;AAIvE,OAAO,EAAE,iBAAiB,EAAE,MAAM,4CAA4C,CAAC;AAI/E,OAAO,EAAE,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAG7D,wBAAgB,yBAAyB,CAAC,iBAAiB,EAAE,iBAAiB,GAAG,kBAAkB,CAWlG;AAED,eAAO,MAAM,yBAAyB,GAAI,SAAS,kBAAkB,KAAG,iBAG7D,CAAC;AAEZ,wBAAgB,8FAA8F,CAAC,CAAC,EAAE,MAAM,GAAG,iBAAiB,CAE3I;AAED,wBAAgB,2FAA2F,CAAC,UAAU,CAAC,EAAE,KAAK,GAAG,CAAC,CAAC,IAAI,EAAE,iBAAiB,KAAK,MAAM,CAAC,CAMrK;AAED,wBAAgB,oFAAoF,CAAC,KAAK,EAAE,iBAAiB,EAAE,UAAU,EAAE,MAAM,CAAC,KAAK,CAAC,GAAG,MAAM,CAEhK"}

package/dist/ts/ts/Yaml/ValidationPackage.js

@@ -1,14 +1,14 @@
 import { choose, ofArray } from '../../node_modules/@fable-org/fable-library-js/List.js';
-import { YAMLElement_Nil, YAMLElement_Object, YAMLElement_Mapping, YAMLContent_create_27AED5E3, Config } from '../fable_modules/YAMLicious.0.0.3/YAMLiciousTypes.fs.js';
+import { YAMLElement_Nil, YAMLElement_Object, YAMLElement_Mapping, YAMLContent_create_27AED5E3, Config } from '../fable_modules/YAMLicious.1.0.0-alpha.2/YAMLiciousTypes.fs.js';
 import { equals } from '../../node_modules/@fable-org/fable-library-js/Util.js';
 import { unwrap } from '../../node_modules/@fable-org/fable-library-js/Option.js';
-import { string, tryInclude } from '../fable_modules/YAMLicious.0.0.3/Encode.fs.js';
+import { string, tryInclude } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Encode.fs.js';
 import { toList, delay, collect, singleton } from '../../node_modules/@fable-org/fable-library-js/Seq.js';
 import { ValidationPackage } from '../ValidationPackages/ValidationPackage.js';
-import { object, string as string$1 } from '../fable_modules/YAMLicious.0.0.3/Decode.fs.js';
-import { read } from '../fable_modules/YAMLicious.0.0.3/Reader.fs.js';
+import { object, string as string$1 } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Decode.fs.js';
+import { read } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Reader.fs.js';
 import { defaultWhitespace } from './Encode.js';
-import { write } from '../fable_modules/YAMLicious.0.0.3/Writer.fs.js';
+import { write } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Writer.fs.js';
 
 function ValidationPackage_encoder(validationpackage) {
   const objSeq = choose((tupledArg) => {

package/dist/ts/ts/Yaml/ValidationPackagesConfig.d.ts

@@ -1,4 +1,4 @@
-import { YAMLElement_$union } from '../fable_modules/YAMLicious.0.0.3/YAMLiciousTypes.fs.js';
+import { YAMLElement_$union } from '../fable_modules/YAMLicious.1.0.0-alpha.2/YAMLiciousTypes.fs.js';
 import { Option } from '@fable-org/fable-library-js/Option.js';
 import { ValidationPackagesConfig } from '../ValidationPackages/ValidationPackagesConfig.js';
 import { int32 } from '@fable-org/fable-library-js/Int32.js';

package/dist/ts/ts/Yaml/ValidationPackagesConfig.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"ValidationPackagesConfig.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Yaml/ValidationPackagesConfig.ts"],"names":[],"mappings":"AACA,OAAO,EAAoE,kBAAkB,EAAE,MAAM,yDAAyD,CAAC;AAE/J,OAAO,EAAU,MAAM,EAAE,MAAM,uCAAuC,CAAC;AAMvE,OAAO,EAAE,wBAAwB,EAAE,MAAM,mDAAmD,CAAC;AAI7F,OAAO,EAAE,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAG7D,wBAAgB,gCAAgC,CAAC,iBAAiB,EAAE,wBAAwB,GAAG,kBAAkB,CAWhH;AAED,eAAO,MAAM,gCAAgC,GAAI,SAAS,kBAAkB,KAAG,wBAGpE,CAAC;AAEZ,wBAAgB,4GAA4G,CAAC,CAAC,EAAE,MAAM,GAAG,wBAAwB,CAEhK;AAED,wBAAgB,yGAAyG,CAAC,UAAU,CAAC,EAAE,KAAK,GAAG,CAAC,CAAC,IAAI,EAAE,wBAAwB,KAAK,MAAM,CAAC,CAM1L;AAED,wBAAgB,kGAAkG,CAAC,KAAK,EAAE,wBAAwB,EAAE,UAAU,EAAE,MAAM,CAAC,KAAK,CAAC,GAAG,MAAM,CAErL"}
+{"version":3,"file":"ValidationPackagesConfig.d.ts","sourceRoot":"","sources":["../../../../src/ARCtrl/ts/Yaml/ValidationPackagesConfig.ts"],"names":[],"mappings":"AACA,OAAO,EAAoE,kBAAkB,EAAE,MAAM,iEAAiE,CAAC;AAEvK,OAAO,EAAU,MAAM,EAAE,MAAM,uCAAuC,CAAC;AAMvE,OAAO,EAAE,wBAAwB,EAAE,MAAM,mDAAmD,CAAC;AAI7F,OAAO,EAAE,KAAK,EAAE,MAAM,sCAAsC,CAAC;AAG7D,wBAAgB,gCAAgC,CAAC,iBAAiB,EAAE,wBAAwB,GAAG,kBAAkB,CAWhH;AAED,eAAO,MAAM,gCAAgC,GAAI,SAAS,kBAAkB,KAAG,wBAGpE,CAAC;AAEZ,wBAAgB,4GAA4G,CAAC,CAAC,EAAE,MAAM,GAAG,wBAAwB,CAEhK;AAED,wBAAgB,yGAAyG,CAAC,UAAU,CAAC,EAAE,KAAK,GAAG,CAAC,CAAC,IAAI,EAAE,wBAAwB,KAAK,MAAM,CAAC,CAM1L;AAED,wBAAgB,kGAAkG,CAAC,KAAK,EAAE,wBAAwB,EAAE,UAAU,EAAE,MAAM,CAAC,KAAK,CAAC,GAAG,MAAM,CAErL"}

package/dist/ts/ts/Yaml/ValidationPackagesConfig.js

@@ -1,15 +1,15 @@
 import { choose, ofArray } from '../../node_modules/@fable-org/fable-library-js/List.js';
-import { YAMLElement_Nil, YAMLElement_Object, YAMLElement_Mapping, YAMLContent_create_27AED5E3, Config } from '../fable_modules/YAMLicious.0.0.3/YAMLiciousTypes.fs.js';
+import { YAMLElement_Nil, YAMLElement_Object, YAMLElement_Mapping, YAMLContent_create_27AED5E3, Config } from '../fable_modules/YAMLicious.1.0.0-alpha.2/YAMLiciousTypes.fs.js';
 import { equals } from '../../node_modules/@fable-org/fable-library-js/Util.js';
 import { unwrap } from '../../node_modules/@fable-org/fable-library-js/Option.js';
-import { tryInclude, resizearray, string } from '../fable_modules/YAMLicious.0.0.3/Encode.fs.js';
+import { tryInclude, resizearray, string } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Encode.fs.js';
 import { ValidationPackage_encoder, ValidationPackage_decoder } from './ValidationPackage.js';
 import { toList, delay, collect, singleton } from '../../node_modules/@fable-org/fable-library-js/Seq.js';
 import { ValidationPackagesConfig } from '../ValidationPackages/ValidationPackagesConfig.js';
-import { object, resizearray as resizearray$1, string as string$1 } from '../fable_modules/YAMLicious.0.0.3/Decode.fs.js';
-import { read } from '../fable_modules/YAMLicious.0.0.3/Reader.fs.js';
+import { object, resizearray as resizearray$1, string as string$1 } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Decode.fs.js';
+import { read } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Reader.fs.js';
 import { defaultWhitespace } from './Encode.js';
-import { write } from '../fable_modules/YAMLicious.0.0.3/Writer.fs.js';
+import { write } from '../fable_modules/YAMLicious.1.0.0-alpha.2/Writer.fs.js';
 
 function ValidationPackagesConfig_encoder(validationpackage) {
   const objSeq = choose((tupledArg) => {

package/dist/ts/ts/fable_modules/{YAMLicious.0.0.3 → YAMLicious.1.0.0-alpha.2}/Encode.fs.js

@@ -11,7 +11,7 @@ function int(value) {
   return YAMLElement_Value(YAMLContent_create_27AED5E3(int32ToString(value)));
 }
 function float(value) {
-  return YAMLElement_Value(YAMLContent_create_27AED5E3(String(value)));
+  return YAMLElement_Value(YAMLContent_create_27AED5E3(value.toString()));
 }
 function char(value) {
   return YAMLElement_Value(YAMLContent_create_27AED5E3(value));

package/dist/ts/ts/fable_modules/{YAMLicious.0.0.3 → YAMLicious.1.0.0-alpha.2}/Reader.fs.js

@@ -1,12 +1,12 @@
-import { match } from '../../../node_modules/@fable-org/fable-library-js/RegExp.js';
+import { match, replace } from '../../../node_modules/@fable-org/fable-library-js/RegExp.js';
 import { getItemFromDict } from '../../../node_modules/@fable-org/fable-library-js/MapUtil.js';
 import { parse } from '../../../node_modules/@fable-org/fable-library-js/Int32.js';
 import { map, value, unwrap } from '../../../node_modules/@fable-org/fable-library-js/Option.js';
-import { toList, delay, append, singleton, takeWhile, skipWhile, map as map$1, collect, empty as empty$1 } from '../../../node_modules/@fable-org/fable-library-js/Seq.js';
+import { toList, delay, append, singleton, takeWhile, skipWhile, map as map$1, collect as collect$1, empty as empty$1 } from '../../../node_modules/@fable-org/fable-library-js/Seq.js';
 import { PreprocessorElement_Line, YAMLElement_Object, YAMLElement_Mapping, YAMLContent_create_27AED5E3, YAMLElement_Comment, YAMLElement_Value, YAMLElement_Sequence } from './YAMLiciousTypes.fs.js';
-import { isEmpty, head, tail, empty, singleton as singleton$1, cons, reverse, ofArrayWithTail, append as append$1 } from '../../../node_modules/@fable-org/fable-library-js/List.js';
+import { isEmpty, head, tail, empty, singleton as singleton$1, cons, collect, reverse, ofArrayWithTail, append as append$1 } from '../../../node_modules/@fable-org/fable-library-js/List.js';
 import { $007CSequenceMinusOpener$007C_$007C, $007CYamlComment$007C_$007C, $007CSchemaNamespace$007C_$007C, $007CInlineSequence$007C_$007C, $007CSequenceSquareOpener$007C_$007C, $007CSequenceSquareCloser$007C_$007C, $007CInlineJSON$007C_$007C, $007CJSONKeyOpener$007C_$007C, $007CJSONCloser$007C_$007C, $007CKey$007C_$007C, $007CKeyValue$007C_$007C, $007CYamlValue$007C_$007C } from './RegexActivePatterns.fs.js';
-import { toFail, printf, trimEnd, split } from '../../../node_modules/@fable-org/fable-library-js/String.js';
+import { toFail, printf, join, trimEnd, split } from '../../../node_modules/@fable-org/fable-library-js/String.js';
 import { read as read$1 } from './Preprocessing.fs.js';
 
 function restoreStringReplace(stringDict, v) {
@@ -83,8 +83,20 @@ function isSequenceElement(e) {
   }
 }
 function tokenize(yamlList, stringDict, commentDict) {
+  const flattenBlockScalar = (eles) => collect((_arg) => {
+    switch (_arg.tag) {
+      case /* Line */
+      2:
+        return singleton$1(replace(replace(_arg.fields[0], "<s f=(?<index>\\d+)\\/>", (m) => getItemFromDict(stringDict, parse(m.groups && m.groups.index || "", 511, false, 32))), "<c f=(?<comment>\\d+)\\/>", (m_1) => "#" + getItemFromDict(commentDict, parse(m_1.groups && m_1.groups.comment || "", 511, false, 32))));
+      case /* Intendation */
+      1:
+        return flattenBlockScalar(_arg.fields[0]);
+      default:
+        return empty();
+    }
+  }, eles);
   const loopRead = (restlist_mut, acc_mut) => {
-    let c2_2, c1_2, c1_1, c2_1;
+    let c2_2, c1_2, c1_1, c2_1, v_9, block;
     loopRead:
       while (true) {
         const restlist = restlist_mut, acc = acc_mut;
@@ -221,7 +233,7 @@ function tokenize(yamlList, stringDict, commentDict) {
                   case 1: {
                     const c = restoreCommentReplace(commentDict, v_4.Comment);
                     const split$1 = split(v_4.Value, [","], void 0, 1);
-                    const current_4 = YAMLElement_Sequence(toList(delay(() => map$1((value) => loopRead(singleton$1(PreprocessorElement_Line(value.trim())), empty()), split$1))));
+                    const current_4 = YAMLElement_Sequence(toList(delay(() => map$1((value_2) => loopRead(singleton$1(PreprocessorElement_Line(value_2.trim())), empty()), split$1))));
                     restlist_mut = rest_4;
                     acc_mut = c != null ? ofArrayWithTail([current_4, YAMLElement_Comment(value(c))], acc) : cons(current_4, acc);
                     continue loopRead;
@@ -229,7 +241,7 @@ function tokenize(yamlList, stringDict, commentDict) {
                   case 2: {
                     const c1 = restoreCommentReplace(commentDict, opener.Comment);
                     const c2 = restoreCommentReplace(commentDict, closer.Comment);
-                    const current_5 = YAMLElement_Sequence(toList(delay(() => collect((i_4) => singleton(loopRead(singleton$1(i_4.tag === /* Line */
+                    const current_5 = YAMLElement_Sequence(toList(delay(() => collect$1((i_4) => singleton(loopRead(singleton$1(i_4.tag === /* Line */
                     2 ? PreprocessorElement_Line(trimEnd(i_4.fields[0], ",")) : toFail(printf("Unexpected element in MultiLineSquareBrackets: %A"))(i_4)), empty())), iList))));
                     restlist_mut = rest_5;
                     acc_mut = c1 == null ? c2 == null ? cons(current_5, acc) : (c2_2 = value(c2), ofArrayWithTail([YAMLElement_Comment(c2_2), current_5], acc)) : c2 == null ? (c1_2 = value(c1), ofArrayWithTail([current_5, YAMLElement_Comment(c1_2)], acc)) : (c1_1 = value(c1), c2_1 = value(c2), ofArrayWithTail([YAMLElement_Comment(c2_1), current_5, YAMLElement_Comment(c1_1)], acc));
@@ -280,8 +292,8 @@ function tokenize(yamlList, stringDict, commentDict) {
                       case 0: {
                         const c_1 = restoreCommentReplace(commentDict, v_5.Comment);
                         const split_1 = split(v_5.Value, [","], void 0, 1);
-                        const current_6 = reverse(toList(delay(() => collect((value_1) => {
-                          const matchValue_1 = loopRead(singleton$1(PreprocessorElement_Line(value_1.trim())), empty());
+                        const current_6 = reverse(toList(delay(() => collect$1((value_3) => {
+                          const matchValue_1 = loopRead(singleton$1(PreprocessorElement_Line(value_3.trim())), empty());
                           if (matchValue_1.tag === /* Object */
                           3) {
                             return matchValue_1.fields[0];
@@ -297,7 +309,7 @@ function tokenize(yamlList, stringDict, commentDict) {
                       case 1: {
                         const c1_3 = restoreCommentReplace(commentDict, opener_1.Comment);
                         const c2_3 = restoreCommentReplace(commentDict, closer_1.Comment);
-                        const current_7 = YAMLElement_Mapping(YAMLContent_create_27AED5E3(opener_1.Key, unwrap(c1_3)), YAMLElement_Object(toList(delay(() => collect((i_5) => {
+                        const current_7 = YAMLElement_Mapping(YAMLContent_create_27AED5E3(opener_1.Key, unwrap(c1_3)), YAMLElement_Object(toList(delay(() => collect$1((i_5) => {
                           const matchValue_2 = loopRead(singleton$1(i_5.tag === /* Line */
                           2 ? PreprocessorElement_Line(trimEnd(i_5.fields[0], ",")) : toFail(printf("Unexpected element in MultiLineSquareBrackets: %A"))(i_5)), empty());
                           if (matchValue_2.tag === /* Object */
@@ -421,36 +433,73 @@ function tokenize(yamlList, stringDict, commentDict) {
                                     acc_mut = cons(YAMLElement_Mapping(YAMLContent_create_27AED5E3(v_8.Key, unwrap(c_4)), YAMLElement_Object(singleton$1(seq_1))), acc);
                                     continue loopRead;
                                   }
-                                  default:
-                                    if (isEmpty(restlist)) {
-                                      return YAMLElement_Object(reverse(acc));
-                                    } else {
+                                  default: {
+                                    let matchResult_7, block_1, rest_12, v_10;
+                                    if (!isEmpty(restlist)) {
                                       const activePatternResult_15 = $007CKeyValue$007C_$007C(head(restlist));
                                       if (activePatternResult_15 != null) {
-                                        const v_9 = value(activePatternResult_15);
-                                        restlist_mut = tail(restlist);
-                                        acc_mut = cons(YAMLElement_Mapping(YAMLContent_create_27AED5E3(v_9.Key), loopRead(singleton$1(PreprocessorElement_Line(v_9.Value)), empty())), acc);
-                                        continue loopRead;
+                                        if (!isEmpty(tail(restlist))) {
+                                          if (head(tail(restlist)).tag === /* Intendation */
+                                          1) {
+                                            if (v_9 = value(activePatternResult_15), block = head(tail(restlist)).fields[0], v_9.Value === "|" ? true : v_9.Value === ">") {
+                                              matchResult_7 = 0;
+                                              block_1 = head(tail(restlist)).fields[0];
+                                              rest_12 = tail(tail(restlist));
+                                              v_10 = value(activePatternResult_15);
+                                            } else {
+                                              matchResult_7 = 1;
+                                            }
+                                          } else {
+                                            matchResult_7 = 1;
+                                          }
+                                        } else {
+                                          matchResult_7 = 1;
+                                        }
                                       } else {
-                                        const activePatternResult_16 = $007CYamlComment$007C_$007C(head(restlist));
-                                        if (activePatternResult_16 != null) {
-                                          const v_10 = value(activePatternResult_16);
-                                          restlist_mut = tail(restlist);
-                                          acc_mut = cons(YAMLElement_Comment(getItemFromDict(commentDict, v_10.Comment)), acc);
-                                          continue loopRead;
+                                        matchResult_7 = 1;
+                                      }
+                                    } else {
+                                      matchResult_7 = 1;
+                                    }
+                                    switch (matchResult_7) {
+                                      case 0: {
+                                        const blockValue = join("\n", flattenBlockScalar(block_1));
+                                        restlist_mut = rest_12;
+                                        acc_mut = cons(YAMLElement_Mapping(YAMLContent_create_27AED5E3(v_10.Key), YAMLElement_Value(YAMLContent_create_27AED5E3(blockValue))), acc);
+                                        continue loopRead;
+                                      }
+                                      default:
+                                        if (isEmpty(restlist)) {
+                                          return YAMLElement_Object(reverse(acc));
                                         } else {
-                                          const activePatternResult_17 = $007CYamlValue$007C_$007C(head(restlist));
-                                          if (activePatternResult_17 != null) {
-                                            const v_11 = value(activePatternResult_17);
+                                          const activePatternResult_16 = $007CKeyValue$007C_$007C(head(restlist));
+                                          if (activePatternResult_16 != null) {
+                                            const v_11 = value(activePatternResult_16);
                                             restlist_mut = tail(restlist);
-                                            acc_mut = cons(YAMLElement_Value(YAMLContent_create_27AED5E3(restoreStringReplace(stringDict, v_11.Value), unwrap(restoreCommentReplace(commentDict, v_11.Comment)))), acc);
+                                            acc_mut = cons(YAMLElement_Mapping(YAMLContent_create_27AED5E3(v_11.Key), loopRead(singleton$1(PreprocessorElement_Line(v_11.Value)), empty())), acc);
                                             continue loopRead;
                                           } else {
-                                            return toFail(printf("Unknown pattern: %A"))(restlist);
+                                            const activePatternResult_17 = $007CYamlComment$007C_$007C(head(restlist));
+                                            if (activePatternResult_17 != null) {
+                                              const v_12 = value(activePatternResult_17);
+                                              restlist_mut = tail(restlist);
+                                              acc_mut = cons(YAMLElement_Comment(getItemFromDict(commentDict, v_12.Comment)), acc);
+                                              continue loopRead;
+                                            } else {
+                                              const activePatternResult_18 = $007CYamlValue$007C_$007C(head(restlist));
+                                              if (activePatternResult_18 != null) {
+                                                const v_13 = value(activePatternResult_18);
+                                                restlist_mut = tail(restlist);
+                                                acc_mut = cons(YAMLElement_Value(YAMLContent_create_27AED5E3(restoreStringReplace(stringDict, v_13.Value), unwrap(restoreCommentReplace(commentDict, v_13.Comment)))), acc);
+                                                continue loopRead;
+                                              } else {
+                                                return toFail(printf("Unknown pattern: %A"))(restlist);
+                                              }
+                                            }
                                           }
                                         }
-                                      }
                                     }
+                                  }
                                 }
                               }
                             }

package/package.json

@@ -1,7 +1,7 @@
 {
   "type": "module",
   "name": "@nfdi4plants/arctrl",
-  "version": "3.0.0-beta.14",
+  "version": "3.0.0-beta.16",
   "description": "Top level ARC DataModel and API function descriptions.",
   "repository": {
     "type": "git",