@nfdi4plants/arctrl 3.2.3 → 3.3.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (454) hide show
  1. package/dist/ts/index.d.ts +44 -7
  2. package/dist/ts/index.d.ts.map +1 -1
  3. package/dist/ts/index.js +45 -8
  4. package/dist/ts/node_modules/@fable-org/fable-library-ts/Array.js +195 -92
  5. package/dist/ts/node_modules/@fable-org/fable-library-ts/Async.js +251 -30
  6. package/dist/ts/node_modules/@fable-org/fable-library-ts/AsyncBuilder.js +61 -11
  7. package/dist/ts/node_modules/@fable-org/fable-library-ts/BigInt.js +15 -5
  8. package/dist/ts/node_modules/@fable-org/fable-library-ts/BitConverter.js +139 -0
  9. package/dist/ts/node_modules/@fable-org/fable-library-ts/Date.js +1 -1
  10. package/dist/ts/node_modules/@fable-org/fable-library-ts/Decimal.js +68 -12
  11. package/dist/ts/node_modules/@fable-org/fable-library-ts/Double.js +24 -10
  12. package/dist/ts/node_modules/@fable-org/fable-library-ts/FSharp.Core.js +8 -2
  13. package/dist/ts/node_modules/@fable-org/fable-library-ts/Global.js +1 -1
  14. package/dist/ts/node_modules/@fable-org/fable-library-ts/Int32.js +11 -2
  15. package/dist/ts/node_modules/@fable-org/fable-library-ts/List.js +220 -155
  16. package/dist/ts/node_modules/@fable-org/fable-library-ts/Long.js +7 -2
  17. package/dist/ts/node_modules/@fable-org/fable-library-ts/Map.js +46 -39
  18. package/dist/ts/node_modules/@fable-org/fable-library-ts/MutableMap.js +75 -92
  19. package/dist/ts/node_modules/@fable-org/fable-library-ts/MutableSet.js +56 -76
  20. package/dist/ts/node_modules/@fable-org/fable-library-ts/NumberStyles.js +54 -0
  21. package/dist/ts/node_modules/@fable-org/fable-library-ts/Numeric.js +10 -5
  22. package/dist/ts/node_modules/@fable-org/fable-library-ts/Random.js +3 -4
  23. package/dist/ts/node_modules/@fable-org/fable-library-ts/Range.js +4 -3
  24. package/dist/ts/node_modules/@fable-org/fable-library-ts/RegExp.js +2 -2
  25. package/dist/ts/node_modules/@fable-org/fable-library-ts/Seq.js +128 -64
  26. package/dist/ts/node_modules/@fable-org/fable-library-ts/Seq2.js +4 -8
  27. package/dist/ts/node_modules/@fable-org/fable-library-ts/Set.js +64 -57
  28. package/dist/ts/node_modules/@fable-org/fable-library-ts/String.js +68 -21
  29. package/dist/ts/node_modules/@fable-org/fable-library-ts/System.Collections.Generic.js +3 -2
  30. package/dist/ts/node_modules/@fable-org/fable-library-ts/System.Text.js +2 -2
  31. package/dist/ts/node_modules/@fable-org/fable-library-ts/System.js +5 -5
  32. package/dist/ts/node_modules/@fable-org/fable-library-ts/Types.js +23 -12
  33. package/dist/ts/node_modules/@fable-org/fable-library-ts/Util.js +88 -49
  34. package/dist/ts/node_modules/@fable-org/fable-library-ts/lib/big.js +121 -74
  35. package/dist/ts/ts/ARC.d.ts +19 -2
  36. package/dist/ts/ts/ARC.d.ts.map +1 -1
  37. package/dist/ts/ts/ARC.js +128 -89
  38. package/dist/ts/ts/CWL/CWLKnownFieldNames.d.ts +0 -2
  39. package/dist/ts/ts/CWL/CWLKnownFieldNames.d.ts.map +1 -1
  40. package/dist/ts/ts/CWL/CWLKnownFieldNames.js +1 -7
  41. package/dist/ts/ts/CWL/CWLProcessingUnit.d.ts +46 -27
  42. package/dist/ts/ts/CWL/CWLProcessingUnit.d.ts.map +1 -1
  43. package/dist/ts/ts/CWL/CWLProcessingUnit.js +312 -123
  44. package/dist/ts/ts/CWL/CWLTypes.d.ts +481 -148
  45. package/dist/ts/ts/CWL/CWLTypes.d.ts.map +1 -1
  46. package/dist/ts/ts/CWL/CWLTypes.js +887 -201
  47. package/dist/ts/ts/CWL/Decode.d.ts +480 -211
  48. package/dist/ts/ts/CWL/Decode.d.ts.map +1 -1
  49. package/dist/ts/ts/CWL/Decode.js +3614 -2462
  50. package/dist/ts/ts/CWL/DynamicObjHelpers.d.ts +9 -0
  51. package/dist/ts/ts/CWL/DynamicObjHelpers.d.ts.map +1 -1
  52. package/dist/ts/ts/CWL/DynamicObjHelpers.js +55 -5
  53. package/dist/ts/ts/CWL/Encode.d.ts +225 -85
  54. package/dist/ts/ts/CWL/Encode.d.ts.map +1 -1
  55. package/dist/ts/ts/CWL/Encode.js +1858 -970
  56. package/dist/ts/ts/CWL/ExpressionToolDescription.d.ts +42 -28
  57. package/dist/ts/ts/CWL/ExpressionToolDescription.d.ts.map +1 -1
  58. package/dist/ts/ts/CWL/ExpressionToolDescription.js +34 -13
  59. package/dist/ts/ts/CWL/HashHelpers.d.ts +38 -0
  60. package/dist/ts/ts/CWL/HashHelpers.d.ts.map +1 -1
  61. package/dist/ts/ts/CWL/HashHelpers.js +255 -6
  62. package/dist/ts/ts/CWL/Inputs.d.ts +127 -56
  63. package/dist/ts/ts/CWL/Inputs.d.ts.map +1 -1
  64. package/dist/ts/ts/CWL/Inputs.js +107 -16
  65. package/dist/ts/ts/CWL/OperationDescription.d.ts +41 -21
  66. package/dist/ts/ts/CWL/OperationDescription.d.ts.map +1 -1
  67. package/dist/ts/ts/CWL/OperationDescription.js +35 -9
  68. package/dist/ts/ts/CWL/Outputs.d.ts +93 -42
  69. package/dist/ts/ts/CWL/Outputs.d.ts.map +1 -1
  70. package/dist/ts/ts/CWL/Outputs.js +101 -19
  71. package/dist/ts/ts/CWL/ParameterReference.d.ts +11 -8
  72. package/dist/ts/ts/CWL/ParameterReference.d.ts.map +1 -1
  73. package/dist/ts/ts/CWL/ParameterReference.js +18 -25
  74. package/dist/ts/ts/CWL/ParameterValue.d.ts +15 -1
  75. package/dist/ts/ts/CWL/ParameterValue.d.ts.map +1 -1
  76. package/dist/ts/ts/CWL/ParameterValue.js +59 -35
  77. package/dist/ts/ts/CWL/Requirements.d.ts +240 -98
  78. package/dist/ts/ts/CWL/Requirements.d.ts.map +1 -1
  79. package/dist/ts/ts/CWL/Requirements.js +462 -89
  80. package/dist/ts/ts/CWL/ScalarQuoting.d.ts +51 -0
  81. package/dist/ts/ts/CWL/ScalarQuoting.d.ts.map +1 -0
  82. package/dist/ts/ts/CWL/ScalarQuoting.js +250 -0
  83. package/dist/ts/ts/CWL/ToolDescription.d.ts +63 -50
  84. package/dist/ts/ts/CWL/ToolDescription.d.ts.map +1 -1
  85. package/dist/ts/ts/CWL/ToolDescription.js +34 -13
  86. package/dist/ts/ts/CWL/WorkflowDescription.d.ts +45 -26
  87. package/dist/ts/ts/CWL/WorkflowDescription.d.ts.map +1 -1
  88. package/dist/ts/ts/CWL/WorkflowDescription.js +38 -11
  89. package/dist/ts/ts/CWL/WorkflowSteps.d.ts +248 -65
  90. package/dist/ts/ts/CWL/WorkflowSteps.d.ts.map +1 -1
  91. package/dist/ts/ts/CWL/WorkflowSteps.js +413 -43
  92. package/dist/ts/ts/CWLRunResolver.d.ts +30 -12
  93. package/dist/ts/ts/CWLRunResolver.d.ts.map +1 -1
  94. package/dist/ts/ts/CWLRunResolver.js +221 -86
  95. package/dist/ts/ts/Contract/ARC.d.ts.map +1 -1
  96. package/dist/ts/ts/Contract/ARC.js +13 -14
  97. package/dist/ts/ts/Contract/ArcAssay.d.ts.map +1 -1
  98. package/dist/ts/ts/Contract/ArcAssay.js +4 -4
  99. package/dist/ts/ts/Contract/ArcInvestigation.d.ts.map +1 -1
  100. package/dist/ts/ts/Contract/ArcInvestigation.js +3 -4
  101. package/dist/ts/ts/Contract/ArcRun.d.ts +12 -2
  102. package/dist/ts/ts/Contract/ArcRun.d.ts.map +1 -1
  103. package/dist/ts/ts/Contract/ArcRun.js +47 -20
  104. package/dist/ts/ts/Contract/ArcStudy.d.ts.map +1 -1
  105. package/dist/ts/ts/Contract/ArcStudy.js +4 -4
  106. package/dist/ts/ts/Contract/ArcWorkflow.d.ts +18 -4
  107. package/dist/ts/ts/Contract/ArcWorkflow.d.ts.map +1 -1
  108. package/dist/ts/ts/Contract/ArcWorkflow.js +55 -17
  109. package/dist/ts/ts/Contract/Datamap.d.ts.map +1 -1
  110. package/dist/ts/ts/Contract/Datamap.js +16 -17
  111. package/dist/ts/ts/Contract/Git.js +1 -1
  112. package/dist/ts/ts/Contract/ValidationPackagesConfig.d.ts.map +1 -1
  113. package/dist/ts/ts/Contract/ValidationPackagesConfig.js +4 -5
  114. package/dist/ts/ts/ContractIO/ContractIO.d.ts.map +1 -1
  115. package/dist/ts/ts/ContractIO/ContractIO.js +15 -16
  116. package/dist/ts/ts/Conversion/Assay.d.ts.map +1 -1
  117. package/dist/ts/ts/Conversion/Assay.js +26 -18
  118. package/dist/ts/ts/Conversion/Basic.d.ts +4 -0
  119. package/dist/ts/ts/Conversion/Basic.d.ts.map +1 -1
  120. package/dist/ts/ts/Conversion/Basic.js +55 -31
  121. package/dist/ts/ts/Conversion/ColumnIndex.d.ts.map +1 -1
  122. package/dist/ts/ts/Conversion/ColumnIndex.js +2 -4
  123. package/dist/ts/ts/Conversion/DateTime.d.ts.map +1 -1
  124. package/dist/ts/ts/Conversion/DateTime.js +1 -2
  125. package/dist/ts/ts/Conversion/Investigation.js +11 -11
  126. package/dist/ts/ts/Conversion/Person.js +11 -11
  127. package/dist/ts/ts/Conversion/Process.d.ts.map +1 -1
  128. package/dist/ts/ts/Conversion/Process.js +107 -86
  129. package/dist/ts/ts/Conversion/Run.d.ts +36 -6
  130. package/dist/ts/ts/Conversion/Run.d.ts.map +1 -1
  131. package/dist/ts/ts/Conversion/Run.js +320 -136
  132. package/dist/ts/ts/Conversion/ScholarlyArticle.d.ts.map +1 -1
  133. package/dist/ts/ts/Conversion/ScholarlyArticle.js +75 -9
  134. package/dist/ts/ts/Conversion/Study.d.ts.map +1 -1
  135. package/dist/ts/ts/Conversion/Study.js +23 -12
  136. package/dist/ts/ts/Conversion/Table.js +5 -5
  137. package/dist/ts/ts/Conversion/Workflow.d.ts +48 -9
  138. package/dist/ts/ts/Conversion/Workflow.d.ts.map +1 -1
  139. package/dist/ts/ts/Conversion/Workflow.js +655 -163
  140. package/dist/ts/ts/Conversion.js +6 -6
  141. package/dist/ts/ts/Core/ArcTypes.d.ts +73 -28
  142. package/dist/ts/ts/Core/ArcTypes.d.ts.map +1 -1
  143. package/dist/ts/ts/Core/ArcTypes.js +219 -129
  144. package/dist/ts/ts/Core/Comment.d.ts.map +1 -1
  145. package/dist/ts/ts/Core/Comment.js +2 -2
  146. package/dist/ts/ts/Core/CommentList.js +7 -7
  147. package/dist/ts/ts/Core/Conversion.d.ts.map +1 -1
  148. package/dist/ts/ts/Core/Conversion.js +41 -41
  149. package/dist/ts/ts/Core/Data.d.ts.map +1 -1
  150. package/dist/ts/ts/Core/Data.js +14 -11
  151. package/dist/ts/ts/Core/DataContext.d.ts +1 -1
  152. package/dist/ts/ts/Core/DataContext.d.ts.map +1 -1
  153. package/dist/ts/ts/Core/DataContext.js +4 -4
  154. package/dist/ts/ts/Core/DataFile.d.ts +11 -8
  155. package/dist/ts/ts/Core/DataFile.d.ts.map +1 -1
  156. package/dist/ts/ts/Core/DataFile.js +55 -61
  157. package/dist/ts/ts/Core/Datamap.d.ts.map +1 -1
  158. package/dist/ts/ts/Core/Datamap.js +2 -3
  159. package/dist/ts/ts/Core/Helper/Collections.d.ts.map +1 -1
  160. package/dist/ts/ts/Core/Helper/Collections.js +2 -4
  161. package/dist/ts/ts/Core/Helper/Identifier.d.ts.map +1 -1
  162. package/dist/ts/ts/Core/Helper/Identifier.js +12 -15
  163. package/dist/ts/ts/Core/Helper/ORCID.d.ts.map +1 -1
  164. package/dist/ts/ts/Core/Helper/ORCID.js +2 -3
  165. package/dist/ts/ts/Core/Helper/Regex.d.ts.map +1 -1
  166. package/dist/ts/ts/Core/Helper/Regex.js +52 -53
  167. package/dist/ts/ts/Core/Helper/SemVer.d.ts +13 -3
  168. package/dist/ts/ts/Core/Helper/SemVer.d.ts.map +1 -1
  169. package/dist/ts/ts/Core/Helper/SemVer.js +96 -6
  170. package/dist/ts/ts/Core/Helper/Url.d.ts.map +1 -1
  171. package/dist/ts/ts/Core/Helper/Url.js +1 -1
  172. package/dist/ts/ts/Core/OntologyAnnotation.js +22 -22
  173. package/dist/ts/ts/Core/Person.d.ts.map +1 -1
  174. package/dist/ts/ts/Core/Person.js +2 -2
  175. package/dist/ts/ts/Core/Process/ColumnIndex.d.ts.map +1 -1
  176. package/dist/ts/ts/Core/Process/ColumnIndex.js +10 -12
  177. package/dist/ts/ts/Core/Process/Component.d.ts.map +1 -1
  178. package/dist/ts/ts/Core/Process/Component.js +22 -22
  179. package/dist/ts/ts/Core/Process/Factor.d.ts.map +1 -1
  180. package/dist/ts/ts/Core/Process/Factor.js +7 -7
  181. package/dist/ts/ts/Core/Process/FactorValue.d.ts.map +1 -1
  182. package/dist/ts/ts/Core/Process/FactorValue.js +15 -15
  183. package/dist/ts/ts/Core/Process/Material.d.ts.map +1 -1
  184. package/dist/ts/ts/Core/Process/Material.js +2 -2
  185. package/dist/ts/ts/Core/Process/MaterialAttribute.d.ts.map +1 -1
  186. package/dist/ts/ts/Core/Process/MaterialAttribute.js +6 -6
  187. package/dist/ts/ts/Core/Process/MaterialAttributeValue.d.ts.map +1 -1
  188. package/dist/ts/ts/Core/Process/MaterialAttributeValue.js +16 -16
  189. package/dist/ts/ts/Core/Process/Process.js +21 -21
  190. package/dist/ts/ts/Core/Process/ProcessInput.d.ts.map +1 -1
  191. package/dist/ts/ts/Core/Process/ProcessInput.js +2 -2
  192. package/dist/ts/ts/Core/Process/ProcessOutput.d.ts.map +1 -1
  193. package/dist/ts/ts/Core/Process/ProcessOutput.js +2 -2
  194. package/dist/ts/ts/Core/Process/ProcessParameterValue.d.ts.map +1 -1
  195. package/dist/ts/ts/Core/Process/ProcessParameterValue.js +17 -17
  196. package/dist/ts/ts/Core/Process/ProcessSequence.js +4 -4
  197. package/dist/ts/ts/Core/Process/Protocol.d.ts.map +1 -1
  198. package/dist/ts/ts/Core/Process/Protocol.js +9 -9
  199. package/dist/ts/ts/Core/Process/ProtocolParameter.d.ts.map +1 -1
  200. package/dist/ts/ts/Core/Process/ProtocolParameter.js +6 -6
  201. package/dist/ts/ts/Core/Publication.d.ts.map +1 -1
  202. package/dist/ts/ts/Core/Publication.js +3 -3
  203. package/dist/ts/ts/Core/ScalarValue.d.ts.map +1 -1
  204. package/dist/ts/ts/Core/ScalarValue.js +9 -13
  205. package/dist/ts/ts/Core/Table/ArcTable.d.ts.map +1 -1
  206. package/dist/ts/ts/Core/Table/ArcTable.js +18 -18
  207. package/dist/ts/ts/Core/Table/ArcTableAux.d.ts +1 -1
  208. package/dist/ts/ts/Core/Table/ArcTableAux.d.ts.map +1 -1
  209. package/dist/ts/ts/Core/Table/ArcTableAux.js +50 -70
  210. package/dist/ts/ts/Core/Table/ArcTables.js +16 -16
  211. package/dist/ts/ts/Core/Table/CompositeHeader.d.ts.map +1 -1
  212. package/dist/ts/ts/Core/Table/CompositeHeader.js +5 -6
  213. package/dist/ts/ts/Core/Templates.d.ts.map +1 -1
  214. package/dist/ts/ts/Core/Templates.js +2 -2
  215. package/dist/ts/ts/FileSystem/Path.d.ts +13 -2
  216. package/dist/ts/ts/FileSystem/Path.d.ts.map +1 -1
  217. package/dist/ts/ts/FileSystem/Path.js +37 -19
  218. package/dist/ts/ts/Json/Assay.js +22 -22
  219. package/dist/ts/ts/Json/Comment.js +9 -9
  220. package/dist/ts/ts/Json/Data.d.ts.map +1 -1
  221. package/dist/ts/ts/Json/Data.js +11 -11
  222. package/dist/ts/ts/Json/Datamap/DataContext.js +2 -2
  223. package/dist/ts/ts/Json/Decode.d.ts.map +1 -1
  224. package/dist/ts/ts/Json/Decode.js +3 -5
  225. package/dist/ts/ts/Json/Encode.js +2 -2
  226. package/dist/ts/ts/Json/Investigation.d.ts.map +1 -1
  227. package/dist/ts/ts/Json/Investigation.js +20 -20
  228. package/dist/ts/ts/Json/OntologyAnnotation.d.ts.map +1 -1
  229. package/dist/ts/ts/Json/OntologyAnnotation.js +18 -18
  230. package/dist/ts/ts/Json/OntologySourceReference.d.ts.map +1 -1
  231. package/dist/ts/ts/Json/OntologySourceReference.js +9 -9
  232. package/dist/ts/ts/Json/Person.d.ts.map +1 -1
  233. package/dist/ts/ts/Json/Person.js +20 -20
  234. package/dist/ts/ts/Json/Process/AssayMaterials.d.ts.map +1 -1
  235. package/dist/ts/ts/Json/Process/AssayMaterials.js +1 -2
  236. package/dist/ts/ts/Json/Process/Component.d.ts.map +1 -1
  237. package/dist/ts/ts/Json/Process/Component.js +5 -6
  238. package/dist/ts/ts/Json/Process/Factor.d.ts.map +1 -1
  239. package/dist/ts/ts/Json/Process/Factor.js +7 -7
  240. package/dist/ts/ts/Json/Process/FactorValue.d.ts.map +1 -1
  241. package/dist/ts/ts/Json/Process/FactorValue.js +2 -3
  242. package/dist/ts/ts/Json/Process/Material.d.ts.map +1 -1
  243. package/dist/ts/ts/Json/Process/Material.js +9 -10
  244. package/dist/ts/ts/Json/Process/MaterialAttribute.d.ts.map +1 -1
  245. package/dist/ts/ts/Json/Process/MaterialAttribute.js +5 -6
  246. package/dist/ts/ts/Json/Process/MaterialAttributeValue.d.ts.map +1 -1
  247. package/dist/ts/ts/Json/Process/MaterialAttributeValue.js +2 -3
  248. package/dist/ts/ts/Json/Process/Process.d.ts.map +1 -1
  249. package/dist/ts/ts/Json/Process/Process.js +8 -9
  250. package/dist/ts/ts/Json/Process/ProcessParameterValue.d.ts.map +1 -1
  251. package/dist/ts/ts/Json/Process/ProcessParameterValue.js +1 -2
  252. package/dist/ts/ts/Json/Process/Protocol.d.ts.map +1 -1
  253. package/dist/ts/ts/Json/Process/Protocol.js +17 -17
  254. package/dist/ts/ts/Json/Process/ProtocolParameter.d.ts.map +1 -1
  255. package/dist/ts/ts/Json/Process/ProtocolParameter.js +6 -6
  256. package/dist/ts/ts/Json/Process/Sample.d.ts.map +1 -1
  257. package/dist/ts/ts/Json/Process/Sample.js +9 -9
  258. package/dist/ts/ts/Json/Process/Source.d.ts.map +1 -1
  259. package/dist/ts/ts/Json/Process/Source.js +10 -11
  260. package/dist/ts/ts/Json/Process/StudyMaterials.d.ts.map +1 -1
  261. package/dist/ts/ts/Json/Process/StudyMaterials.js +1 -2
  262. package/dist/ts/ts/Json/PropertyValue.d.ts.map +1 -1
  263. package/dist/ts/ts/Json/PropertyValue.js +24 -24
  264. package/dist/ts/ts/Json/Publication.d.ts.map +1 -1
  265. package/dist/ts/ts/Json/Publication.js +10 -10
  266. package/dist/ts/ts/Json/ROCrate/LDContext.js +1 -2
  267. package/dist/ts/ts/Json/ROCrate/LDGraph.js +2 -2
  268. package/dist/ts/ts/Json/ROCrate/LDNode.js +5 -5
  269. package/dist/ts/ts/Json/Run.js +9 -9
  270. package/dist/ts/ts/Json/StringTable.d.ts.map +1 -1
  271. package/dist/ts/ts/Json/StringTable.js +4 -7
  272. package/dist/ts/ts/Json/Study.js +20 -20
  273. package/dist/ts/ts/Json/Table/CellTable.js +1 -2
  274. package/dist/ts/ts/Json/Table/OATable.js +1 -2
  275. package/dist/ts/ts/Json/Workflow.js +9 -9
  276. package/dist/ts/ts/Json.d.ts +121 -1
  277. package/dist/ts/ts/Json.d.ts.map +1 -1
  278. package/dist/ts/ts/Json.js +310 -2
  279. package/dist/ts/ts/JsonIO/Comment.d.ts +15 -0
  280. package/dist/ts/ts/JsonIO/Comment.d.ts.map +1 -0
  281. package/dist/ts/ts/JsonIO/Comment.js +67 -0
  282. package/dist/ts/ts/JsonIO/Data.d.ts +9 -0
  283. package/dist/ts/ts/JsonIO/Data.d.ts.map +1 -0
  284. package/dist/ts/ts/JsonIO/Data.js +49 -0
  285. package/dist/ts/ts/JsonIO/DataFile.d.ts +9 -0
  286. package/dist/ts/ts/JsonIO/DataFile.d.ts.map +1 -0
  287. package/dist/ts/ts/JsonIO/DataFile.js +48 -0
  288. package/dist/ts/ts/JsonIO/LDObject.d.ts +6 -0
  289. package/dist/ts/ts/JsonIO/LDObject.d.ts.map +1 -1
  290. package/dist/ts/ts/JsonIO/LDObject.js +173 -17
  291. package/dist/ts/ts/JsonIO/OntologySourceReference.d.ts +15 -0
  292. package/dist/ts/ts/JsonIO/OntologySourceReference.d.ts.map +1 -0
  293. package/dist/ts/ts/JsonIO/OntologySourceReference.js +67 -0
  294. package/dist/ts/ts/JsonIO/Publication.d.ts +15 -0
  295. package/dist/ts/ts/JsonIO/Publication.d.ts.map +1 -0
  296. package/dist/ts/ts/JsonIO/Publication.js +68 -0
  297. package/dist/ts/ts/JsonIO/Table/ArcTable.d.ts +9 -0
  298. package/dist/ts/ts/JsonIO/Table/ArcTable.d.ts.map +1 -0
  299. package/dist/ts/ts/JsonIO/Table/ArcTable.js +74 -0
  300. package/dist/ts/ts/JsonIO/Table/CompositeCell.d.ts +6 -0
  301. package/dist/ts/ts/JsonIO/Table/CompositeCell.d.ts.map +1 -0
  302. package/dist/ts/ts/JsonIO/Table/CompositeCell.js +29 -0
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  332. package/dist/ts/ts/ROCrate/LDTypes/PropertyValue.d.ts +11 -0
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@@ -2,11 +2,10 @@ import { unwrap, value, defaultArg } from '../../../node_modules/@fable-org/fabl
2
2
  import { tryParse } from '../../../node_modules/@fable-org/fable-library-ts/Int32.js';
3
3
  import { LDNode } from '../LDObject.js';
4
4
  import { Exception, stringHash, int32ToString } from '../../../node_modules/@fable-org/fable-library-ts/Util.js';
5
- import { concat, join, replace } from '../../../node_modules/@fable-org/fable-library-ts/String.js';
5
+ import { concat, join, replace, substring } from '../../../node_modules/@fable-org/fable-library-ts/String.js';
6
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  import { ResizeArray_map } from '../../Core/Helper/Collections.js';
7
7
  import { LDFormalParameter } from './FormalParameter.js';
8
8
  import { contains } from '../../../node_modules/@fable-org/fable-library-ts/Array.js';
9
- import { Operators_IsNull } from '../../../node_modules/@fable-org/fable-library-ts/FSharp.Core.js';
10
9
  import { clean } from '../Helper.js';
11
10
  import { FSharpRef } from '../../../node_modules/@fable-org/fable-library-ts/Types.js';
12
11
  import { class_type } from '../../../node_modules/@fable-org/fable-library-ts/Reflection.js';
@@ -335,7 +334,7 @@ class LDPropertyValue {
335
334
  }
336
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  static tryGetSubjectOf(pv, graph, context) {
337
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  const matchValue = pv.TryGetPropertyAsSingleNode(LDPropertyValue.subjectOf, unwrap(graph), unwrap(context));
338
- return matchValue != null ? value(matchValue) : void 0;
337
+ return matchValue != null ? matchValue : void 0;
339
338
  }
340
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  static setSubjectOf(pv, subjectOf, context) {
341
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  return pv.SetProperty(LDPropertyValue.subjectOf, subjectOf, unwrap(context));
@@ -347,8 +346,8 @@ class LDPropertyValue {
347
346
  let fp = void 0;
348
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  const matchValue = dt.TryGetPropertyAsSingleNode(LDPropertyValue.exampleOfWork, unwrap(graph), unwrap(context));
349
348
  if (matchValue != null) {
350
- if (fp = value(matchValue), LDFormalParameter.validate(fp, unwrap(context))) {
351
- const fp_1 = value(matchValue);
349
+ if (fp = matchValue, LDFormalParameter.validate(fp, unwrap(context))) {
350
+ const fp_1 = matchValue;
352
351
  return fp_1;
353
352
  } else {
354
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  throw new Exception(concat("Property of `exampleOfWork` of object with @id `", dt.Id, "` was not a FormalParameter"));
@@ -401,7 +400,7 @@ class LDPropertyValue {
401
400
  const matchValue = LDPropertyValue.tryGetValueObject(pv, unwrap(context));
402
401
  let matchResult = void 0, value_1 = void 0;
403
402
  if (matchValue != null) {
404
- if (!Operators_IsNull(value(matchValue))) {
403
+ if (!(value(matchValue) == null)) {
405
404
  matchResult = 0;
406
405
  value_1 = value(matchValue);
407
406
  } else {
@@ -433,11 +432,11 @@ class LDPropertyValue {
433
432
  if (matchValue != null) {
434
433
  if (matchValue_1 != null) {
435
434
  if (matchValue_2 != null) {
436
- if (value(matchValue_1), id = value(matchValue_2), value(matchValue) === LDPropertyValue.doiKey && id === LDPropertyValue.doiURL) {
435
+ if (matchValue_1, id = matchValue_2, matchValue === LDPropertyValue.doiKey && id === LDPropertyValue.doiURL) {
437
436
  matchResult = 0;
438
- id_1 = value(matchValue_2);
439
- name_1 = value(matchValue);
440
- value_1 = value(matchValue_1);
437
+ id_1 = matchValue_2;
438
+ name_1 = matchValue;
439
+ value_1 = matchValue_1;
441
440
  } else {
442
441
  matchResult = 1;
443
442
  }
@@ -470,11 +469,11 @@ class LDPropertyValue {
470
469
  if (matchValue != null) {
471
470
  if (matchValue_1 != null) {
472
471
  if (matchValue_2 != null) {
473
- if (value(matchValue_1), id = value(matchValue_2), value(matchValue) === LDPropertyValue.pubmedIDKey && id === LDPropertyValue.pubmedIDURL) {
472
+ if (matchValue_1, id = matchValue_2, matchValue === LDPropertyValue.pubmedIDKey && id === LDPropertyValue.pubmedIDURL) {
474
473
  matchResult = 0;
475
- id_1 = value(matchValue_2);
476
- name_1 = value(matchValue);
477
- value_1 = value(matchValue_1);
474
+ id_1 = matchValue_2;
475
+ name_1 = matchValue;
476
+ value_1 = matchValue_1;
478
477
  } else {
479
478
  matchResult = 1;
480
479
  }
@@ -504,10 +503,10 @@ class LDPropertyValue {
504
503
  let matchResult = void 0, name_1 = void 0, value_1 = void 0;
505
504
  if (matchValue != null) {
506
505
  if (matchValue_1 != null) {
507
- if (value(matchValue_1), value(matchValue) === LDPropertyValue.prefixKey) {
506
+ if (matchValue_1, matchValue === LDPropertyValue.prefixKey) {
508
507
  matchResult = 0;
509
- name_1 = value(matchValue);
510
- value_1 = value(matchValue_1);
508
+ name_1 = matchValue;
509
+ value_1 = matchValue_1;
511
510
  } else {
512
511
  matchResult = 1;
513
512
  }
@@ -534,10 +533,10 @@ class LDPropertyValue {
534
533
  let matchResult = void 0, name_1 = void 0, value_1 = void 0;
535
534
  if (matchValue != null) {
536
535
  if (matchValue_1 != null) {
537
- if (value(matchValue_1), value(matchValue) === LDPropertyValue.positionKey) {
536
+ if (matchValue_1, matchValue === LDPropertyValue.positionKey) {
538
537
  matchResult = 0;
539
- name_1 = value(matchValue);
540
- value_1 = value(matchValue_1);
538
+ name_1 = matchValue;
539
+ value_1 = matchValue_1;
541
540
  } else {
542
541
  matchResult = 1;
543
542
  }
@@ -564,10 +563,10 @@ class LDPropertyValue {
564
563
  let matchResult = void 0, name_1 = void 0, value_1 = void 0;
565
564
  if (matchValue != null) {
566
565
  if (matchValue_1 != null) {
567
- if (value(matchValue_1), value(matchValue) === LDPropertyValue.globKey) {
566
+ if (matchValue_1, matchValue === LDPropertyValue.globKey) {
568
567
  matchResult = 0;
569
- name_1 = value(matchValue);
570
- value_1 = value(matchValue_1);
568
+ name_1 = matchValue;
569
+ value_1 = matchValue_1;
571
570
  } else {
572
571
  matchResult = 1;
573
572
  }
@@ -587,10 +586,10 @@ class LDPropertyValue {
587
586
  return false;
588
587
  }
589
588
  }
590
- static genId(name, value$1, propertyID, prefix) {
589
+ static genId(name, value, propertyID, prefix) {
591
590
  let pid_1 = void 0, value_2 = void 0, pid = void 0, value_1 = void 0;
592
591
  const prefix_1 = defaultArg(prefix, "PV");
593
- return clean(value$1 == null ? propertyID != null ? (pid_1 = value(propertyID), concat("#", prefix_1, "_", name)) : concat("#", prefix_1, "_", name) : propertyID == null ? (value_2 = value(value$1), `#${prefix_1}_${name}_${value_2}`) : (pid = value(propertyID), value_1 = value(value$1), `#${prefix_1}_${name}_${value_1}`));
592
+ return clean(value == null ? propertyID != null ? (pid_1 = propertyID, concat("#", prefix_1, "_", name)) : concat("#", prefix_1, "_", name) : propertyID == null ? (value_2 = value, `#${prefix_1}_${name}_${value_2}`) : (pid = propertyID, value_1 = value, `#${prefix_1}_${name}_${value_1}`));
594
593
  }
595
594
  static genIdComponent(name, value, propertyID) {
596
595
  return LDPropertyValue.genId(name, unwrap(value), unwrap(propertyID), "Component");
@@ -610,6 +609,17 @@ class LDPropertyValue {
610
609
  static genIdCWLParameter(name, values) {
611
610
  return concat("#WorkflowParameter_", name, "_", values.length > 0 ? join("_", ResizeArray_map((v) => replace(v, " ", "_"), values)) : "");
612
611
  }
612
+ /**
613
+ * The PropertyValue id repeats the id of the FormalParameter that the value realizes, as the Workflow Run Crate
614
+ * examples do. Two PropertyValues of the same FormalParameter get the same id and merge in a flattened crate,
615
+ * whatever their values. ARCtrl gives every run its own FormalParameters (LDFormalParameter.genID with a run name),
616
+ * so runs with an input of the same name keep separate PropertyValues as long as their FormalParameter ids differ.
617
+ * An id without the FormalParameter prefix keeps everything after its leading "#", or the whole id when it has none.
618
+ */
619
+ static genIdCWLParameterFromFormalParameter(formalParameter) {
620
+ const id = formalParameter.Id;
621
+ return id.startsWith("#FormalParameter_") ? concat("#WorkflowParameter_", substring(id, "#FormalParameter_".length)) : id.startsWith("#") ? concat("#WorkflowParameter_", substring(id, 1)) : concat("#WorkflowParameter_", id);
622
+ }
613
623
  static genIdPrefix(prefix) {
614
624
  return concat("#Prefix_", prefix);
615
625
  }
@@ -619,58 +629,58 @@ class LDPropertyValue {
619
629
  static genIdGlob(glob) {
620
630
  return concat("#Glob_", glob);
621
631
  }
622
- static create(name, value$1, id, propertyID, unitCode, unitText, valueReference, context) {
623
- const pv = new LDNode(id == null ? LDPropertyValue.genId(name, unwrap(value$1), unwrap(propertyID)) : value(id), [LDPropertyValue.schemaType], void 0, unwrap(context));
632
+ static create(name, value, id, propertyID, unitCode, unitText, valueReference, context) {
633
+ const pv = new LDNode(id == null ? LDPropertyValue.genId(name, unwrap(value), unwrap(propertyID)) : id, [LDPropertyValue.schemaType], void 0, unwrap(context));
624
634
  LDPropertyValue.setNameAsString(pv, name, unwrap(context));
625
- pv.SetOptionalProperty(LDPropertyValue.value, value$1, unwrap(context));
635
+ pv.SetOptionalProperty(LDPropertyValue.value, value, unwrap(context));
626
636
  const option_1 = propertyID;
627
637
  if (option_1 != null) {
628
- const pid = value(option_1);
638
+ const pid = option_1;
629
639
  LDPropertyValue.setPropertyIDAsString(pv, pid, unwrap(context));
630
640
  }
631
641
  const option_3 = unitCode;
632
642
  if (option_3 != null) {
633
- const uc = value(option_3);
643
+ const uc = option_3;
634
644
  LDPropertyValue.setUnitCodeAsString(pv, uc, unwrap(context));
635
645
  }
636
646
  const option_5 = unitText;
637
647
  if (option_5 != null) {
638
- const ut = value(option_5);
648
+ const ut = option_5;
639
649
  LDPropertyValue.setUnitTextAsString(pv, ut, unwrap(context));
640
650
  }
641
651
  const option_7 = valueReference;
642
652
  if (option_7 != null) {
643
- const vr = value(option_7);
653
+ const vr = option_7;
644
654
  LDPropertyValue.setValueReferenceAsString(pv, vr, unwrap(context));
645
655
  }
646
656
  return pv;
647
657
  }
648
- static createComponent(name, value$1, id, propertyID, unitCode, unitText, valueReference, context) {
649
- const id_1 = id == null ? LDPropertyValue.genIdComponent(name, unwrap(value$1), unwrap(propertyID)) : value(id);
650
- const c = LDPropertyValue.create(name, unwrap(value$1), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
658
+ static createComponent(name, value, id, propertyID, unitCode, unitText, valueReference, context) {
659
+ const id_1 = id == null ? LDPropertyValue.genIdComponent(name, unwrap(value), unwrap(propertyID)) : id;
660
+ const c = LDPropertyValue.create(name, unwrap(value), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
651
661
  c.AdditionalType = ["Component"];
652
662
  return c;
653
663
  }
654
- static createParameterValue(name, value$1, id, propertyID, unitCode, unitText, valueReference, context) {
655
- const id_1 = id == null ? LDPropertyValue.genIdParameterValue(name, unwrap(value$1), unwrap(propertyID)) : value(id);
656
- const pv = LDPropertyValue.create(name, unwrap(value$1), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
664
+ static createParameterValue(name, value, id, propertyID, unitCode, unitText, valueReference, context) {
665
+ const id_1 = id == null ? LDPropertyValue.genIdParameterValue(name, unwrap(value), unwrap(propertyID)) : id;
666
+ const pv = LDPropertyValue.create(name, unwrap(value), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
657
667
  pv.AdditionalType = ["ParameterValue"];
658
668
  return pv;
659
669
  }
660
- static createCharacteristicValue(name, value$1, id, propertyID, unitCode, unitText, valueReference, context) {
661
- const id_1 = id == null ? LDPropertyValue.genIdCharacteristicValue(name, unwrap(value$1), unwrap(propertyID)) : value(id);
662
- const cv = LDPropertyValue.create(name, unwrap(value$1), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
670
+ static createCharacteristicValue(name, value, id, propertyID, unitCode, unitText, valueReference, context) {
671
+ const id_1 = id == null ? LDPropertyValue.genIdCharacteristicValue(name, unwrap(value), unwrap(propertyID)) : id;
672
+ const cv = LDPropertyValue.create(name, unwrap(value), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
663
673
  cv.AdditionalType = ["CharacteristicValue"];
664
674
  return cv;
665
675
  }
666
- static createFactorValue(name, value$1, id, propertyID, unitCode, unitText, valueReference, context) {
667
- const id_1 = id == null ? LDPropertyValue.genIdFactorValue(name, unwrap(value$1), unwrap(propertyID)) : value(id);
668
- const fv = LDPropertyValue.create(name, unwrap(value$1), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
676
+ static createFactorValue(name, value, id, propertyID, unitCode, unitText, valueReference, context) {
677
+ const id_1 = id == null ? LDPropertyValue.genIdFactorValue(name, unwrap(value), unwrap(propertyID)) : id;
678
+ const fv = LDPropertyValue.create(name, unwrap(value), id_1, unwrap(propertyID), unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
669
679
  fv.AdditionalType = ["FactorValue"];
670
680
  return fv;
671
681
  }
672
682
  static createFragmentDescriptor(fileName, value$1, id, unitCode, unitText, valueReference, measurementMethod, description, alternateName, disambiguatingDescriptions, subjectOf, context) {
673
- const id_1 = id == null ? LDPropertyValue.genIdFragmentDescriptor(fileName) : value(id);
683
+ const id_1 = id == null ? LDPropertyValue.genIdFragmentDescriptor(fileName) : id;
674
684
  const fd = LDPropertyValue.create("FragmentDescriptor", unwrap(value$1), id_1, "https://github.com/nfdi4plants/ARC-specification/blob/dev/ISA-XLSX.md#datamap-table-sheets", unwrap(unitCode), unwrap(unitText), unwrap(valueReference), unwrap(context));
675
685
  if (measurementMethod != null) {
676
686
  LDPropertyValue.setMeasurementMethodAsString(fd, value(measurementMethod), unwrap(context));
@@ -689,8 +699,11 @@ class LDPropertyValue {
689
699
  }
690
700
  return fd;
691
701
  }
702
+ /**
703
+ * The id comes from exampleOfWork, and the values do not change it.
704
+ */
692
705
  static createCWLParameter(exampleOfWork, name, values, context) {
693
- const id = LDPropertyValue.genIdCWLParameter(name, values);
706
+ const id = LDPropertyValue.genIdCWLParameterFromFormalParameter(exampleOfWork);
694
707
  const pv = LDPropertyValue.create(name, void 0, id, void 0, void 0, void 0, void 0, unwrap(context));
695
708
  if (values.length > 0) {
696
709
  pv.SetProperty(LDPropertyValue.value, values, unwrap(context));
@@ -729,10 +742,8 @@ class LDPropertyValue {
729
742
  static tryGetAsPosition(pv, context) {
730
743
  if (LDPropertyValue.validatePosition(pv, unwrap(context))) {
731
744
  let matchValue;
732
- let outArg = 0;
733
- matchValue = [tryParse(LDPropertyValue.getValueAsString(pv, unwrap(context)), 511, false, 32, new FSharpRef(() => outArg | 0, (v) => {
734
- outArg = v | 0;
735
- })), outArg];
745
+ const cell = new FSharpRef(0);
746
+ matchValue = [tryParse(LDPropertyValue.getValueAsString(pv, unwrap(context)), 511, false, 32, cell), cell.contents];
736
747
  return matchValue[0] ? matchValue[1] : void 0;
737
748
  } else {
738
749
  return void 0;
@@ -111,19 +111,19 @@ class LDSample {
111
111
  return s;
112
112
  }
113
113
  static createSample(name, id, additionalProperties, context) {
114
- const id_2 = id == null ? LDSample.genIDSample(name) : value(id);
114
+ const id_2 = id == null ? LDSample.genIDSample(name) : id;
115
115
  const s = LDSample.create(id_2, name, unwrap(additionalProperties), unwrap(context));
116
116
  s.AdditionalType = ["Sample"];
117
117
  return s;
118
118
  }
119
119
  static createSource(name, id, additionalProperties, context) {
120
- const id_2 = id == null ? LDSample.genIDSource(name) : value(id);
120
+ const id_2 = id == null ? LDSample.genIDSource(name) : id;
121
121
  const s = LDSample.create(id_2, name, unwrap(additionalProperties), unwrap(context));
122
122
  s.AdditionalType = ["Source"];
123
123
  return s;
124
124
  }
125
125
  static createMaterial(name, id, additionalProperties, context) {
126
- const id_2 = id == null ? LDSample.genIDMaterial(name) : value(id);
126
+ const id_2 = id == null ? LDSample.genIDMaterial(name) : id;
127
127
  const s = LDSample.create(id_2, name, unwrap(additionalProperties), unwrap(context));
128
128
  s.AdditionalType = ["Material"];
129
129
  return s;
@@ -130,9 +130,9 @@ class LDScholarlyArticle {
130
130
  const matchValue = s.TryGetPropertyAsSingleNode(LDScholarlyArticle.creativeWorkStatus, unwrap(graph), unwrap(context));
131
131
  let matchResult = void 0, cws_1 = void 0;
132
132
  if (matchValue != null) {
133
- if (cws = value(matchValue), LDDefinedTerm.validate(cws, unwrap(context))) {
133
+ if (cws = matchValue, LDDefinedTerm.validate(cws, unwrap(context))) {
134
134
  matchResult = 0;
135
- cws_1 = value(matchValue);
135
+ cws_1 = matchValue;
136
136
  } else {
137
137
  matchResult = 1;
138
138
  }
@@ -156,13 +156,13 @@ class LDScholarlyArticle {
156
156
  return s.SetProperty(LDScholarlyArticle.comment, comments, unwrap(context));
157
157
  }
158
158
  static genID(headline, url) {
159
- return clean(url == null ? concat("#", headline) : value(url));
159
+ return clean(url == null ? concat("#", headline) : url);
160
160
  }
161
161
  static validate(s, context) {
162
162
  return s.HasType(LDScholarlyArticle.schemaType, unwrap(context)) && s.HasProperty(LDScholarlyArticle.headline, unwrap(context));
163
163
  }
164
164
  static create(headline, identifiers, id, authors, url, creativeWorkStatus, comments, context) {
165
- const s = new LDNode(id == null ? LDScholarlyArticle.genID(headline, unwrap(url)) : value(id), [LDScholarlyArticle.schemaType], void 0, unwrap(context));
165
+ const s = new LDNode(id == null ? LDScholarlyArticle.genID(headline, unwrap(url)) : id, [LDScholarlyArticle.schemaType], void 0, unwrap(context));
166
166
  s.SetProperty(LDScholarlyArticle.headline, headline, unwrap(context));
167
167
  s.SetProperty(LDScholarlyArticle.identifier, identifiers, unwrap(context));
168
168
  s.SetOptionalProperty(LDScholarlyArticle.author, authors, unwrap(context));
@@ -122,9 +122,9 @@ class LDSoftwareSourceCode {
122
122
  const matchValue = ssc.TryGetPropertyAsSingleNode(LDSoftwareSourceCode.sdPublisher, unwrap(graph), unwrap(context));
123
123
  let matchResult = void 0, a_1 = void 0;
124
124
  if (matchValue != null) {
125
- if (ldObject = value(matchValue), context_1 = context, LDPerson.validate(ldObject, unwrap(context_1)) ? true : LDOrganization.validate(ldObject, unwrap(context_1))) {
125
+ if (ldObject = matchValue, context_1 = context, LDPerson.validate(ldObject, unwrap(context_1)) ? true : LDOrganization.validate(ldObject, unwrap(context_1))) {
126
126
  matchResult = 0;
127
- a_1 = value(matchValue);
127
+ a_1 = matchValue;
128
128
  } else {
129
129
  matchResult = 1;
130
130
  }
@@ -226,7 +226,7 @@ class LDSoftwareSourceCode {
226
226
  return lp.HasType(LDSoftwareSourceCode.schemaType, unwrap(context));
227
227
  }
228
228
  static create(id, creator, dateCreated, licenses, name, programmingLanguages, sdPublisher, url, version, description, hasParts, comments, context) {
229
- const ssc = new LDNode(id == null ? clean(concat("#ComputationalWorkflow_", createMissingIdentifier())) : value(id), [LDSoftwareSourceCode.schemaType], void 0, unwrap(context));
229
+ const ssc = new LDNode(id == null ? clean(concat("#ComputationalWorkflow_", createMissingIdentifier())) : id, [LDSoftwareSourceCode.schemaType], void 0, unwrap(context));
230
230
  ssc.SetOptionalProperty(LDSoftwareSourceCode.creator, creator, unwrap(context));
231
231
  ssc.SetOptionalProperty(LDSoftwareSourceCode.dateCreated, dateCreated, unwrap(context));
232
232
  ssc.SetOptionalProperty(LDSoftwareSourceCode.license, licenses, unwrap(context));
@@ -2,7 +2,7 @@ import { LDCreateAction } from './CreateAction.js';
2
2
  import { LDLabProcess } from './LabProcess.js';
3
3
  import { clean } from '../Helper.js';
4
4
  import { concat } from '../../../node_modules/@fable-org/fable-library-ts/String.js';
5
- import { value, unwrap } from '../../../node_modules/@fable-org/fable-library-ts/Option.js';
5
+ import { unwrap } from '../../../node_modules/@fable-org/fable-library-ts/Option.js';
6
6
  import { LDNode } from '../LDObject.js';
7
7
  import { class_type } from '../../../node_modules/@fable-org/fable-library-ts/Reflection.js';
8
8
 
@@ -13,14 +13,14 @@ class LDWorkflowInvocation {
13
13
  return [LDCreateAction.schemaType, LDLabProcess.schemaType];
14
14
  }
15
15
  static genID(name, runName) {
16
- return runName == null ? clean(concat("#WorkflowInvocation_", name)) : clean(concat("#WorkflowInvocation_R_", value(runName), "_", name));
16
+ return runName == null ? clean(concat("#WorkflowInvocation_", name)) : clean(concat("#WorkflowInvocation_R_", runName, "_", name));
17
17
  }
18
18
  static validate(wp, context) {
19
19
  return LDCreateAction.validate(wp, unwrap(context)) && LDLabProcess.validate(wp, unwrap(context));
20
20
  }
21
21
  static create(name, instrument, objects, results, description, agents, id, endTime, disambiguatingDescriptions, executesLabProtocol, parameterValues, context) {
22
22
  const at = ["WorkflowInvocation"];
23
- const ca = new LDNode(id == null ? LDWorkflowInvocation.genID(name) : value(id), LDWorkflowInvocation.schemaType, at, unwrap(context));
23
+ const ca = new LDNode(id == null ? LDWorkflowInvocation.genID(name) : id, LDWorkflowInvocation.schemaType, at, unwrap(context));
24
24
  ca.SetProperty(LDCreateAction.name, name, unwrap(context));
25
25
  ca.SetOptionalProperty(LDCreateAction.object_, objects, unwrap(context));
26
26
  ca.SetOptionalProperty(LDCreateAction.result, results, unwrap(context));
@@ -2,7 +2,7 @@ import { LDFile } from './File.js';
2
2
  import { LDComputationalWorkflow } from './ComputationalWorkflow.js';
3
3
  import { LDSoftwareSourceCode } from './SoftwareSourceCode.js';
4
4
  import { LDLabProtocol } from './LabProtocol.js';
5
- import { unwrap, value } from '../../../node_modules/@fable-org/fable-library-ts/Option.js';
5
+ import { unwrap } from '../../../node_modules/@fable-org/fable-library-ts/Option.js';
6
6
  import { LDNode } from '../LDObject.js';
7
7
  import { clean } from '../Helper.js';
8
8
  import { concat } from '../../../node_modules/@fable-org/fable-library-ts/String.js';
@@ -20,7 +20,7 @@ class LDWorkflowProtocol {
20
20
  }
21
21
  static create(id, inputs, outputs, creator, dateCreated, licenses, name, programmingLanguages, sdPublisher, url, version, description, hasParts, intendedUse, comments, computationalTools, additionalType, context) {
22
22
  const at = ["WorkflowProtocol"];
23
- const wp = new LDNode(id == null ? clean(concat("#ComputationalWorkflow_", createMissingIdentifier())) : value(id), LDWorkflowProtocol.schemaType, at, unwrap(context));
23
+ const wp = new LDNode(id == null ? clean(concat("#ComputationalWorkflow_", createMissingIdentifier())) : id, LDWorkflowProtocol.schemaType, at, unwrap(context));
24
24
  wp.SetOptionalProperty(LDComputationalWorkflow.input, inputs, unwrap(context));
25
25
  wp.SetOptionalProperty(LDComputationalWorkflow.output, outputs, unwrap(context));
26
26
  wp.SetOptionalProperty(LDComputationalWorkflow.creator, creator, unwrap(context));
@@ -1,7 +1,7 @@
1
1
  import { TypeInfo } from '@fable-org/fable-library-ts/Reflection.ts';
2
2
  import { LDGraph, LDNode } from './ROCrate/LDObject.ts';
3
- import { Option } from '@fable-org/fable-library-ts/Option.ts';
4
3
  import { License } from './License.ts';
4
+ import { Option } from '@fable-org/fable-library-ts/Option.ts';
5
5
  import { LDContext } from './ROCrate/LDContext.ts';
6
6
  import { ArcWorkflow, ArcRun, ArcInvestigation } from './Core/ArcTypes.ts';
7
7
  import { FileSystem } from './FileSystem/FileSystem.ts';
@@ -25,8 +25,22 @@ export declare function ROCrate_encoder_Z7FE34C43(isa: ArcInvestigation, license
25
25
  * Returns ArcInvestigation, list of file Ids, and optional License
26
26
  */
27
27
  export declare function ROCrate_get_decoder(): Decoder$1<[ArcInvestigation, string[], Option<License>]>;
28
- export declare function ROCrate_packDatasetAsCrate_Z2DB026F7(dataset: LDNode, datasetName: string, datasetDescription: string, metadataFileDescriptor: Option<LDNode>, license: License): LDGraph;
29
- export declare function ROCrate_writeRunAsCrate_5E53831D(arcRun: ArcRun, fileSystem: FileSystem, license: License): string;
30
- export declare function ROCrate_writeWorkflowAsCrate_Z4A0538D9(arcWorkflow: ArcWorkflow, fileSystem: FileSystem, license: License): string;
28
+ /**
29
+ * Packs a dataset as the root of a crate. The root is created and published at the given time, and now when none
30
+ * is given. Both dates are in UTC. A time of kind Unspecified counts as local time, as in .NET.
31
+ */
32
+ export declare function ROCrate_packDatasetAsCrate_Z51E5569B(dataset: LDNode, datasetName: string, datasetDescription: string, metadataFileDescriptor: Option<LDNode>, license: License, timestamp?: Date): LDGraph;
33
+ /**
34
+ * Writes a run as a Workflow Run Crate. A license is required. The crate and its workflow are created and the crate
35
+ * is published at the given time, and now when none is given. The dates are in UTC, so the same time gives the
36
+ * same crate. A time of kind Unspecified counts as local time, as in .NET.
37
+ */
38
+ export declare function ROCrate_writeRunAsCrate_Z656C4A0F(arcRun: ArcRun, fileSystem: FileSystem, license: License, timestamp?: Date): string;
39
+ /**
40
+ * Writes a workflow as a Workflow RO-Crate. A license is required. The crate and its workflow are created and the
41
+ * crate is published at the given time, and now when none is given. The dates are in UTC, so the same time gives
42
+ * the same crate. A time of kind Unspecified counts as local time, as in .NET.
43
+ */
44
+ export declare function ROCrate_writeWorkflowAsCrate_Z38FC00B5(arcWorkflow: ArcWorkflow, fileSystem: FileSystem, license: License, timestamp?: Date): string;
31
45
  export declare function ROCrate_get_decoderDeprecated(): Decoder$1<ArcInvestigation>;
32
46
  //# sourceMappingURL=ROCrateIO.d.ts.map
@@ -1 +1 @@
1
- {"version":3,"file":"ROCrateIO.d.ts","sourceRoot":"","sources":["../../../src/ARCtrl/ts/ROCrateIO.ts"],"names":[],"mappings":"AACA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AACjF,OAAO,EAA2D,OAAO,EAAS,MAAM,EAAE,MAAM,uBAAuB,CAAC;AAGxH,OAAO,EAAsB,MAAM,EAAoB,MAAM,uCAAuC,CAAC;AACrG,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAC;AAEvC,OAAO,EAAE,SAAS,EAAE,MAAM,wBAAwB,CAAC;AAKnD,OAAO,EAAE,WAAW,EAAE,MAAM,EAAE,gBAAgB,EAAE,MAAM,oBAAoB,CAAC;AAC3E,OAAO,EAAE,UAAU,EAAE,MAAM,4BAA4B,CAAC;AAExD,OAAO,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,mDAAmD,CAAC;AAY1F;;;;GAIG;AACH,qBAAa,OAAO;;CAGnB;AAED,wBAAgB,mBAAmB,IAAI,QAAQ,CAE9C;AAED,wBAAgB,kCAAkC,IAAI,MAAM,CAK3D;AAED,wBAAgB,uCAAuC,IAAI,MAAM,CAKhE;AAED,wBAAgB,kCAAkC,CAAC,OAAO,EAAE,MAAM,CAAC,OAAO,CAAC,GAAG,MAAM,CAWnF;AAED,wBAAgB,4BAA4B,CAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAAC,OAAO,CAAC,CAqClG;AAED,wBAAgB,4BAA4B,CAAC,GAAG,EAAE,gBAAgB,EAAE,OAAO,CAAC,EAAE,OAAO,EAAE,EAAE,CAAC,EAAE,UAAU,EAAE,cAAc,CAAC,EAAE,OAAO,GAAG,OAAO,CAWzI;AAED,wBAAgB,yBAAyB,CAAC,GAAG,EAAE,gBAAgB,EAAE,OAAO,CAAC,EAAE,OAAO,EAAE,EAAE,CAAC,EAAE,UAAU,EAAE,cAAc,CAAC,EAAE,OAAO,GAAG,UAAU,CAEzI;AAED;;GAEG;AACH,wBAAgB,mBAAmB,IAAI,SAAS,CAAC,CAAC,gBAAgB,EAAE,MAAM,EAAE,EAAE,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,CAsB9F;AAED,wBAAgB,oCAAoC,CAAC,OAAO,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,EAAE,kBAAkB,EAAE,MAAM,EAAE,sBAAsB,EAAE,MAAM,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,OAAO,GAAG,OAAO,CAexL;AAED,wBAAgB,gCAAgC,CAAC,MAAM,EAAE,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,OAAO,EAAE,OAAO,GAAG,MAAM,CAqBjH;AAED,wBAAgB,sCAAsC,CAAC,WAAW,EAAE,WAAW,EAAE,UAAU,EAAE,UAAU,EAAE,OAAO,EAAE,OAAO,GAAG,MAAM,CAqBjI;AAED,wBAAgB,6BAA6B,IAAI,SAAS,CAAC,gBAAgB,CAAC,CAE3E"}
1
+ {"version":3,"file":"ROCrateIO.d.ts","sourceRoot":"","sources":["../../../src/ARCtrl/ts/ROCrateIO.ts"],"names":[],"mappings":"AACA,OAAO,EAAc,QAAQ,EAAE,MAAM,2CAA2C,CAAC;AACjF,OAAO,EAA2D,OAAO,EAAS,MAAM,EAAE,MAAM,uBAAuB,CAAC;AAGxH,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAC;AACvC,OAAO,EAAwC,MAAM,EAAE,MAAM,uCAAuC,CAAC;AAErG,OAAO,EAAE,SAAS,EAAE,MAAM,wBAAwB,CAAC;AAMnD,OAAO,EAAE,WAAW,EAAE,MAAM,EAAE,gBAAgB,EAAE,MAAM,oBAAoB,CAAC;AAC3E,OAAO,EAAE,UAAU,EAAE,MAAM,4BAA4B,CAAC;AAExD,OAAO,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,mDAAmD,CAAC;AAc1F;;;;GAIG;AACH,qBAAa,OAAO;;CAGnB;AAED,wBAAgB,mBAAmB,IAAI,QAAQ,CAE9C;AAED,wBAAgB,kCAAkC,IAAI,MAAM,CAK3D;AAED,wBAAgB,uCAAuC,IAAI,MAAM,CAKhE;AAED,wBAAgB,kCAAkC,CAAC,OAAO,EAAE,MAAM,CAAC,OAAO,CAAC,GAAG,MAAM,CAWnF;AAED,wBAAgB,4BAA4B,CAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,SAAS,GAAG,MAAM,CAAC,OAAO,CAAC,CAqClG;AAED,wBAAgB,4BAA4B,CAAC,GAAG,EAAE,gBAAgB,EAAE,OAAO,CAAC,EAAE,OAAO,EAAE,EAAE,CAAC,EAAE,UAAU,EAAE,cAAc,CAAC,EAAE,OAAO,GAAG,OAAO,CAWzI;AAED,wBAAgB,yBAAyB,CAAC,GAAG,EAAE,gBAAgB,EAAE,OAAO,CAAC,EAAE,OAAO,EAAE,EAAE,CAAC,EAAE,UAAU,EAAE,cAAc,CAAC,EAAE,OAAO,GAAG,UAAU,CAEzI;AAED;;GAEG;AACH,wBAAgB,mBAAmB,IAAI,SAAS,CAAC,CAAC,gBAAgB,EAAE,MAAM,EAAE,EAAE,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,CAsB9F;AAOD;;;GAGG;AACH,wBAAgB,oCAAoC,CAAC,OAAO,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,EAAE,kBAAkB,EAAE,MAAM,EAAE,sBAAsB,EAAE,MAAM,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,OAAO,EAAE,SAAS,CAAC,EAAE,IAAI,GAAG,OAAO,CAiB1M;AAED;;;;GAIG;AACH,wBAAgB,iCAAiC,CAAC,MAAM,EAAE,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,OAAO,EAAE,OAAO,EAAE,SAAS,CAAC,EAAE,IAAI,GAAG,MAAM,CAsBpI;AAED;;;;GAIG;AACH,wBAAgB,sCAAsC,CAAC,WAAW,EAAE,WAAW,EAAE,UAAU,EAAE,UAAU,EAAE,OAAO,EAAE,OAAO,EAAE,SAAS,CAAC,EAAE,IAAI,GAAG,MAAM,CAsBnJ;AAED,wBAAgB,6BAA6B,IAAI,SAAS,CAAC,gBAAgB,CAAC,CAE3E"}
@@ -2,22 +2,25 @@ import { class_type } from '../node_modules/@fable-org/fable-library-ts/Reflecti
2
2
  import { LDNode, LDRef, DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5 } from './ROCrate/LDObject.js';
3
3
  import { ofArray, filter, isEmpty, map as map$1 } from '../node_modules/@fable-org/fable-library-ts/List.js';
4
4
  import { LDCreativeWork } from './ROCrate/LDTypes/CreativeWork.js';
5
- import { value, unwrap, defaultArg } from '../node_modules/@fable-org/fable-library-ts/Option.js';
6
5
  import { License } from './License.js';
6
+ import { unwrap, defaultArg, value } from '../node_modules/@fable-org/fable-library-ts/Option.js';
7
7
  import { LDContext } from './ROCrate/LDContext.js';
8
- 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';
8
+ import { ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B, ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8 } from './Conversion.js';
9
9
  import { LDDataset } from './ROCrate/LDTypes/Dataset.js';
10
- import { now } from '../node_modules/@fable-org/fable-library-ts/Date.js';
10
+ import { now, utcNow, toUniversalTime } from '../node_modules/@fable-org/fable-library-ts/Date.js';
11
+ import { ARCtrl_ROCrate_LDGraph__LDGraph_normalizeDataEntityIds_Static_34DF9647, ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F } from './JsonIO/LDObject.js';
11
12
  import { initV1_2, initBioschemasContext, initV1_1 } from './ROCrate/ROCrateContext.js';
12
13
  import { encoder, decoder } from './Json/ROCrate/LDGraph.js';
13
14
  import { map } from './fable_modules/Thoth.Json.Core.0.9.1/Decode.fs.js';
14
15
  import { Exception } from '../node_modules/@fable-org/fable-library-ts/Util.js';
15
16
  import { ResizeArray_choose } from './Core/Helper/Collections.js';
16
17
  import { LDFile } from './ROCrate/LDTypes/File.js';
18
+ import { hasUriScheme } from './FileSystem/Path.js';
17
19
  import { iterate, tryHead, exactlyOne } from '../node_modules/@fable-org/fable-library-ts/Seq.js';
20
+ import { RunConversion_composeRun_3F79BD1 } from './Conversion/Run.js';
18
21
  import { join, replace, toFail, printf } from '../node_modules/@fable-org/fable-library-ts/String.js';
19
22
  import { LDCreateAction } from './ROCrate/LDTypes/CreateAction.js';
20
- import { ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F } from './JsonIO/LDObject.js';
23
+ import { WorkflowConversion_composeWorkflow_38B68F62 } from './Conversion/Workflow.js';
21
24
  import { LDComputationalWorkflow } from './ROCrate/LDTypes/ComputationalWorkflow.js';
22
25
  import { decoder as decoder$1 } from './Json/ROCrate/LDNode.js';
23
26
 
@@ -44,7 +47,7 @@ function ROCrate_createLicenseNode_29619109(license) {
44
47
  if (license == null) {
45
48
  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");
46
49
  } else {
47
- const license_1 = value(license);
50
+ const license_1 = license;
48
51
  let text;
49
52
  license_1.Type;
50
53
  text = license_1.Content;
@@ -57,11 +60,11 @@ function ROCrate_getLicense_Z2F770004(license, context) {
57
60
  let matchResult = void 0, text_1 = void 0, path = void 0, text_2 = void 0, path_1 = void 0;
58
61
  if (matchValue === "#LICENSE") {
59
62
  if (text != null) {
60
- if (value(text) === "ALL RIGHTS RESERVED BY THE AUTHORS") {
63
+ if (text === "ALL RIGHTS RESERVED BY THE AUTHORS") {
61
64
  matchResult = 0;
62
65
  } else {
63
66
  matchResult = 1;
64
- text_1 = value(text);
67
+ text_1 = text;
65
68
  }
66
69
  } else {
67
70
  matchResult = 0;
@@ -72,7 +75,7 @@ function ROCrate_getLicense_Z2F770004(license, context) {
72
75
  } else {
73
76
  matchResult = 2;
74
77
  path = matchValue;
75
- text_2 = value(text);
78
+ text_2 = text;
76
79
  }
77
80
  switch (matchResult) {
78
81
  case 0:
@@ -90,55 +93,62 @@ function ROCrate_getAsGraph_Z7FE34C43(isa, license, fs, ignoreBrokenWR) {
90
93
  const isa_1 = ARCtrl_ArcInvestigation__ArcInvestigation_ToROCrateInvestigation_Z7960E96B(isa, unwrap(fs), unwrap(ignoreBrokenWR));
91
94
  LDDataset.setSDDatePublishedAsDateTime(isa_1, now());
92
95
  LDDataset.setLicenseAsCreativeWork(isa_1, license_1);
93
- const graph = isa_1.Flatten();
96
+ const graph_1 = ARCtrl_ROCrate_LDGraph__LDGraph_normalizeDataEntityIds_Static_34DF9647(isa_1.Flatten());
94
97
  const context = new LDContext(void 0, [initV1_2(), initBioschemasContext()]);
95
- graph.SetContext(context);
96
- graph.AddNode(ROCrate_get_metadataFileDescriptor());
97
- graph.Compact_InPlace();
98
- return graph;
98
+ graph_1.SetContext(context);
99
+ graph_1.AddNode(ROCrate_get_metadataFileDescriptor());
100
+ graph_1.Compact_InPlace();
101
+ return graph_1;
99
102
  }
100
103
  function ROCrate_encoder_Z7FE34C43(isa, license, fs, ignoreBrokenWR) {
101
104
  return encoder(ROCrate_getAsGraph_Z7FE34C43(isa, unwrap(license), unwrap(fs), unwrap(ignoreBrokenWR)));
102
105
  }
103
106
  function ROCrate_get_decoder() {
104
- return map((graph) => {
105
- const matchValue = graph.TryGetNode("./");
107
+ return map((graph_1) => {
108
+ const matchValue = graph_1.TryGetNode("./");
106
109
  if (matchValue == null) {
107
110
  throw new Exception("RO-Crate graph did not contain root data Entity");
108
111
  } else {
109
- const node = value(matchValue);
112
+ const node = matchValue;
110
113
  const files = ResizeArray_choose((n) => {
111
- if (LDFile.validate(n, unwrap(graph.TryGetContext())) && !(n.Id.indexOf("#") >= 0) && !n.HasType(LDDataset.schemaType, unwrap(graph.TryGetContext()))) {
114
+ if (LDFile.validate(n, unwrap(graph_1.TryGetContext())) && !(n.Id.indexOf("#") >= 0) && !hasUriScheme(n.Id) && !n.HasType(LDDataset.schemaType, unwrap(graph_1.TryGetContext()))) {
112
115
  return n.Id;
113
116
  } else {
114
117
  return void 0;
115
118
  }
116
- }, graph.Nodes);
119
+ }, graph_1.Nodes);
117
120
  let license;
118
- const option_1 = LDDataset.tryGetLicenseAsCreativeWork(node, graph, unwrap(graph.TryGetContext()));
119
- license = option_1 != null ? ROCrate_getLicense_Z2F770004(value(option_1), unwrap(graph.TryGetContext())) : void 0;
120
- return [ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8(node, graph, unwrap(graph.TryGetContext())), files, license];
121
+ const option_1 = LDDataset.tryGetLicenseAsCreativeWork(node, graph_1, unwrap(graph_1.TryGetContext()));
122
+ license = option_1 != null ? ROCrate_getLicense_Z2F770004(option_1, unwrap(graph_1.TryGetContext())) : void 0;
123
+ return [ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8(node, graph_1, unwrap(graph_1.TryGetContext())), files, license];
121
124
  }
122
- }, decoder);
125
+ }, map(ARCtrl_ROCrate_LDGraph__LDGraph_normalizeDataEntityIds_Static_34DF9647, decoder));
123
126
  }
124
- function ROCrate_packDatasetAsCrate_Z2DB026F7(dataset, datasetName, datasetDescription, metadataFileDescriptor, license) {
127
+ function ROCrate_utcTimestamp_Z4DAFACB4(timestamp) {
128
+ let copyOfStruct = defaultArg(timestamp, utcNow());
129
+ return toUniversalTime(copyOfStruct);
130
+ }
131
+ function ROCrate_packDatasetAsCrate_Z51E5569B(dataset, datasetName, datasetDescription, metadataFileDescriptor, license, timestamp) {
132
+ const timestamp_1 = ROCrate_utcTimestamp_Z4DAFACB4(timestamp);
125
133
  const metadataFileDescriptor_1 = defaultArg(metadataFileDescriptor, ROCrate_get_metadataFileDescriptor());
126
134
  const license_1 = ROCrate_createLicenseNode_29619109(license);
127
135
  const mainEntity = LDDataset.create("./", void 0, void 0, void 0, void 0, void 0, datasetDescription, void 0, datasetName);
128
136
  iterate((kv) => {
129
137
  mainEntity.SetProperty(kv[0], kv[1]);
130
138
  }, dataset.GetProperties(false));
131
- LDDataset.setDateCreatedAsDateTime(mainEntity, now());
139
+ LDDataset.setDateCreatedAsDateTime(mainEntity, timestamp_1);
140
+ LDDataset.setDatePublishedAsDateTime(mainEntity, timestamp_1);
132
141
  LDDataset.setLicenseAsCreativeWork(mainEntity, license_1);
133
- const graph = mainEntity.Flatten();
142
+ const graph_1 = ARCtrl_ROCrate_LDGraph__LDGraph_normalizeDataEntityIds_Static_34DF9647(mainEntity.Flatten());
134
143
  const context = new LDContext(void 0, [initV1_2(), initBioschemasContext()]);
135
- graph.SetContext(context);
136
- graph.AddNode(metadataFileDescriptor_1);
137
- graph.Compact_InPlace();
138
- return graph;
144
+ graph_1.SetContext(context);
145
+ graph_1.AddNode(metadataFileDescriptor_1);
146
+ graph_1.Compact_InPlace();
147
+ return graph_1;
139
148
  }
140
- function ROCrate_writeRunAsCrate_5E53831D(arcRun, fileSystem, license) {
141
- const runDataset = ARCtrl_ArcRun__ArcRun_ToROCrateRun_1695DD5C(arcRun, fileSystem);
149
+ function ROCrate_writeRunAsCrate_Z656C4A0F(arcRun, fileSystem, license, timestamp) {
150
+ const timestamp_1 = ROCrate_utcTimestamp_Z4DAFACB4(timestamp);
151
+ const runDataset = RunConversion_composeRun_3F79BD1(arcRun, fileSystem, timestamp_1, true);
142
152
  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]));
143
153
  if (!isEmpty(missingDatasetProps)) {
144
154
  const missingPropsStr = join(", ", map$1((p) => replace(p, "http://schema.org/", ""), missingDatasetProps));
@@ -149,17 +159,18 @@ function ROCrate_writeRunAsCrate_5E53831D(arcRun, fileSystem, license) {
149
159
  if (matchValue == null) {
150
160
  throw new Exception("Run dataset 'about' property must contain a workflowInvocation");
151
161
  } else {
152
- workflowInvocation = value(matchValue);
162
+ workflowInvocation = matchValue;
153
163
  }
154
164
  const missingWfInvocationProps = filter((prop_1) => !DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5(workflowInvocation, prop_1), ofArray([LDCreateAction.name, LDCreateAction.instrument, LDCreateAction.result, LDCreateAction.object_]));
155
165
  if (!isEmpty(missingWfInvocationProps)) {
156
166
  const missingPropsStr_1 = join(", ", map$1((p_1) => replace(p_1, "http://schema.org/", ""), missingWfInvocationProps));
157
167
  toFail(printf("WorkflowInvocation is missing required properties: %s"))(missingPropsStr_1);
158
168
  }
159
- return ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F(2)(ROCrate_packDatasetAsCrate_Z2DB026F7(runDataset, value(arcRun.Title), value(arcRun.Description), ROCrate_get_metadataFileDescriptorWfRun(), license));
169
+ return ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F(2)(ROCrate_packDatasetAsCrate_Z51E5569B(runDataset, value(arcRun.Title), value(arcRun.Description), ROCrate_get_metadataFileDescriptorWfRun(), license, timestamp_1));
160
170
  }
161
- function ROCrate_writeWorkflowAsCrate_Z4A0538D9(arcWorkflow, fileSystem, license) {
162
- const workflowDataset = ARCtrl_ArcWorkflow__ArcWorkflow_ToROCrateWorkflow_1695DD5C(arcWorkflow, fileSystem);
171
+ function ROCrate_writeWorkflowAsCrate_Z38FC00B5(arcWorkflow, fileSystem, license, timestamp) {
172
+ const timestamp_1 = ROCrate_utcTimestamp_Z4DAFACB4(timestamp);
173
+ const workflowDataset = WorkflowConversion_composeWorkflow_38B68F62(arcWorkflow, fileSystem, timestamp_1);
163
174
  const missingDatasetProps = filter((prop) => !DynamicObj_DynamicObj__DynamicObj_HasProperty_Z721C83C5(workflowDataset, prop), ofArray([LDDataset.identifier, LDDataset.name, LDDataset.description, LDDataset.mainEntity, LDDataset.hasPart, LDDataset.creator]));
164
175
  if (!isEmpty(missingDatasetProps)) {
165
176
  const missingPropsStr = join(", ", map$1((p) => replace(p, "http://schema.org/", ""), missingDatasetProps));
@@ -170,17 +181,17 @@ function ROCrate_writeWorkflowAsCrate_Z4A0538D9(arcWorkflow, fileSystem, license
170
181
  if (matchValue == null) {
171
182
  throw new Exception("Workflow dataset 'mainEntity' property must contain a workflow protocol");
172
183
  } else {
173
- workflowProtocol = value(matchValue);
184
+ workflowProtocol = matchValue;
174
185
  }
175
186
  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]));
176
187
  if (!isEmpty(missingProtocolProps)) {
177
188
  const missingPropsStr_1 = join(", ", map$1((p_1) => replace(p_1, "http://schema.org/", ""), missingProtocolProps));
178
189
  toFail(printf("Workflow protocol is missing required properties: %s"))(missingPropsStr_1);
179
190
  }
180
- return ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F(2)(ROCrate_packDatasetAsCrate_Z2DB026F7(workflowDataset, value(arcWorkflow.Title), value(arcWorkflow.Description), ROCrate_get_metadataFileDescriptorWfRun(), license));
191
+ return ARCtrl_ROCrate_LDGraph__LDGraph_toROCrateJsonString_Static_71136F3F(2)(ROCrate_packDatasetAsCrate_Z51E5569B(workflowDataset, value(arcWorkflow.Title), value(arcWorkflow.Description), ROCrate_get_metadataFileDescriptorWfRun(), license, timestamp_1));
181
192
  }
182
193
  function ROCrate_get_decoderDeprecated() {
183
194
  return map((ldnode) => ARCtrl_ArcInvestigation__ArcInvestigation_fromROCrateInvestigation_Static_Z6839B9E8(exactlyOne(LDDataset.getAbouts(ldnode)), void 0, initV1_1()), decoder$1);
184
195
  }
185
196
 
186
- export { ROCrate, ROCrate_$reflection, ROCrate_createLicenseNode_29619109, ROCrate_encoder_Z7FE34C43, ROCrate_getAsGraph_Z7FE34C43, ROCrate_getLicense_Z2F770004, ROCrate_get_decoder, ROCrate_get_decoderDeprecated, ROCrate_get_metadataFileDescriptor, ROCrate_get_metadataFileDescriptorWfRun, ROCrate_packDatasetAsCrate_Z2DB026F7, ROCrate_writeRunAsCrate_5E53831D, ROCrate_writeWorkflowAsCrate_Z4A0538D9 };
197
+ export { ROCrate, ROCrate_$reflection, ROCrate_createLicenseNode_29619109, ROCrate_encoder_Z7FE34C43, ROCrate_getAsGraph_Z7FE34C43, ROCrate_getLicense_Z2F770004, ROCrate_get_decoder, ROCrate_get_decoderDeprecated, ROCrate_get_metadataFileDescriptor, ROCrate_get_metadataFileDescriptorWfRun, ROCrate_packDatasetAsCrate_Z51E5569B, ROCrate_writeRunAsCrate_Z656C4A0F, ROCrate_writeWorkflowAsCrate_Z38FC00B5 };
@@ -1 +1 @@
1
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