arctrl 3.0.0__py3-none-any.whl

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 (511) hide show
  1. arctrl/__init__.py +23 -0
  2. arctrl/cwl.py +12 -0
  3. arctrl/py/CWL/__init__.py +0 -0
  4. arctrl/py/CWL/cwlprocessing_unit.py +221 -0
  5. arctrl/py/CWL/cwltypes.py +364 -0
  6. arctrl/py/CWL/decode.py +3532 -0
  7. arctrl/py/CWL/encode.py +1905 -0
  8. arctrl/py/CWL/expression_tool_description.py +192 -0
  9. arctrl/py/CWL/hash_helpers.py +60 -0
  10. arctrl/py/CWL/inputs.py +122 -0
  11. arctrl/py/CWL/operation_description.py +169 -0
  12. arctrl/py/CWL/outputs.py +171 -0
  13. arctrl/py/CWL/parameter_reference.py +74 -0
  14. arctrl/py/CWL/requirements.py +350 -0
  15. arctrl/py/CWL/tool_description.py +192 -0
  16. arctrl/py/CWL/workflow_description.py +181 -0
  17. arctrl/py/CWL/workflow_steps.py +354 -0
  18. arctrl/py/Contract/__init__.py +0 -0
  19. arctrl/py/Contract/arc.py +89 -0
  20. arctrl/py/Contract/arc_assay.py +125 -0
  21. arctrl/py/Contract/arc_investigation.py +88 -0
  22. arctrl/py/Contract/arc_run.py +291 -0
  23. arctrl/py/Contract/arc_study.py +126 -0
  24. arctrl/py/Contract/arc_workflow.py +213 -0
  25. arctrl/py/Contract/contract.py +153 -0
  26. arctrl/py/Contract/datamap.py +396 -0
  27. arctrl/py/Contract/git.py +116 -0
  28. arctrl/py/Contract/license.py +58 -0
  29. arctrl/py/Contract/validation_packages_config.py +107 -0
  30. arctrl/py/ContractIO/__init__.py +0 -0
  31. arctrl/py/ContractIO/contract_io.py +350 -0
  32. arctrl/py/ContractIO/file_system_helper.py +264 -0
  33. arctrl/py/Conversion/__init__.py +0 -0
  34. arctrl/py/Conversion/assay.py +151 -0
  35. arctrl/py/Conversion/basic.py +559 -0
  36. arctrl/py/Conversion/column_index.py +91 -0
  37. arctrl/py/Conversion/datamap.py +36 -0
  38. arctrl/py/Conversion/date_time.py +32 -0
  39. arctrl/py/Conversion/investigation.py +171 -0
  40. arctrl/py/Conversion/person.py +148 -0
  41. arctrl/py/Conversion/process.py +828 -0
  42. arctrl/py/Conversion/run.py +367 -0
  43. arctrl/py/Conversion/scholarly_article.py +163 -0
  44. arctrl/py/Conversion/study.py +99 -0
  45. arctrl/py/Conversion/table.py +229 -0
  46. arctrl/py/Conversion/workflow.py +680 -0
  47. arctrl/py/Core/Helper/__init__.py +0 -0
  48. arctrl/py/Core/Helper/collections_.py +512 -0
  49. arctrl/py/Core/Helper/date_time.py +26 -0
  50. arctrl/py/Core/Helper/hash_codes.py +60 -0
  51. arctrl/py/Core/Helper/identifier.py +290 -0
  52. arctrl/py/Core/Helper/orcid.py +42 -0
  53. arctrl/py/Core/Helper/printer.py +13 -0
  54. arctrl/py/Core/Helper/regex.py +554 -0
  55. arctrl/py/Core/Helper/sem_ver.py +71 -0
  56. arctrl/py/Core/Helper/url.py +148 -0
  57. arctrl/py/Core/Process/__init__.py +0 -0
  58. arctrl/py/Core/Process/column_index.py +280 -0
  59. arctrl/py/Core/Process/component.py +200 -0
  60. arctrl/py/Core/Process/factor.py +151 -0
  61. arctrl/py/Core/Process/factor_value.py +182 -0
  62. arctrl/py/Core/Process/material.py +74 -0
  63. arctrl/py/Core/Process/material_attribute.py +95 -0
  64. arctrl/py/Core/Process/material_attribute_value.py +184 -0
  65. arctrl/py/Core/Process/material_type.py +45 -0
  66. arctrl/py/Core/Process/process.py +477 -0
  67. arctrl/py/Core/Process/process_input.py +265 -0
  68. arctrl/py/Core/Process/process_output.py +235 -0
  69. arctrl/py/Core/Process/process_parameter_value.py +200 -0
  70. arctrl/py/Core/Process/process_sequence.py +435 -0
  71. arctrl/py/Core/Process/protocol.py +175 -0
  72. arctrl/py/Core/Process/protocol_parameter.py +98 -0
  73. arctrl/py/Core/Process/sample.py +82 -0
  74. arctrl/py/Core/Process/source.py +62 -0
  75. arctrl/py/Core/Table/__init__.py +0 -0
  76. arctrl/py/Core/Table/arc_table.py +1206 -0
  77. arctrl/py/Core/Table/arc_table_aux.py +1308 -0
  78. arctrl/py/Core/Table/arc_tables.py +574 -0
  79. arctrl/py/Core/Table/composite_cell.py +319 -0
  80. arctrl/py/Core/Table/composite_column.py +73 -0
  81. arctrl/py/Core/Table/composite_header.py +739 -0
  82. arctrl/py/Core/__init__.py +0 -0
  83. arctrl/py/Core/arc_types.py +5312 -0
  84. arctrl/py/Core/comment.py +128 -0
  85. arctrl/py/Core/comment_list.py +127 -0
  86. arctrl/py/Core/conversion.py +1375 -0
  87. arctrl/py/Core/data.py +247 -0
  88. arctrl/py/Core/data_context.py +157 -0
  89. arctrl/py/Core/data_file.py +112 -0
  90. arctrl/py/Core/datamap.py +217 -0
  91. arctrl/py/Core/identifier_setters.py +43 -0
  92. arctrl/py/Core/iproperty_value.py +36 -0
  93. arctrl/py/Core/ontology_annotation.py +298 -0
  94. arctrl/py/Core/ontology_source_reference.py +114 -0
  95. arctrl/py/Core/person.py +259 -0
  96. arctrl/py/Core/publication.py +161 -0
  97. arctrl/py/Core/template.py +231 -0
  98. arctrl/py/Core/templates.py +148 -0
  99. arctrl/py/Core/uri.py +11 -0
  100. arctrl/py/Core/value.py +188 -0
  101. arctrl/py/FileSystem/__init__.py +0 -0
  102. arctrl/py/FileSystem/commit.py +21 -0
  103. arctrl/py/FileSystem/default_gitattributes.py +1 -0
  104. arctrl/py/FileSystem/default_gitignore.py +1 -0
  105. arctrl/py/FileSystem/default_license.py +1 -0
  106. arctrl/py/FileSystem/file_system.py +58 -0
  107. arctrl/py/FileSystem/file_system_tree.py +483 -0
  108. arctrl/py/FileSystem/path.py +266 -0
  109. arctrl/py/Json/Datamap/__init__.py +0 -0
  110. arctrl/py/Json/Datamap/data_context.py +101 -0
  111. arctrl/py/Json/Datamap/datamap.py +53 -0
  112. arctrl/py/Json/Process/__init__.py +0 -0
  113. arctrl/py/Json/Process/assay_materials.py +46 -0
  114. arctrl/py/Json/Process/component.py +125 -0
  115. arctrl/py/Json/Process/factor.py +107 -0
  116. arctrl/py/Json/Process/factor_value.py +101 -0
  117. arctrl/py/Json/Process/material.py +226 -0
  118. arctrl/py/Json/Process/material_attribute.py +79 -0
  119. arctrl/py/Json/Process/material_attribute_value.py +101 -0
  120. arctrl/py/Json/Process/material_type.py +53 -0
  121. arctrl/py/Json/Process/process.py +296 -0
  122. arctrl/py/Json/Process/process_input.py +83 -0
  123. arctrl/py/Json/Process/process_output.py +67 -0
  124. arctrl/py/Json/Process/process_parameter_value.py +81 -0
  125. arctrl/py/Json/Process/protocol.py +354 -0
  126. arctrl/py/Json/Process/protocol_parameter.py +91 -0
  127. arctrl/py/Json/Process/sample.py +277 -0
  128. arctrl/py/Json/Process/source.py +214 -0
  129. arctrl/py/Json/Process/study_materials.py +52 -0
  130. arctrl/py/Json/Process/value.py +56 -0
  131. arctrl/py/Json/ROCrate/__init__.py +0 -0
  132. arctrl/py/Json/ROCrate/ldcontext.py +143 -0
  133. arctrl/py/Json/ROCrate/ldgraph.py +117 -0
  134. arctrl/py/Json/ROCrate/ldnode.py +304 -0
  135. arctrl/py/Json/ROCrate/ldref.py +44 -0
  136. arctrl/py/Json/ROCrate/ldvalue.py +102 -0
  137. arctrl/py/Json/Table/__init__.py +0 -0
  138. arctrl/py/Json/Table/arc_table.py +375 -0
  139. arctrl/py/Json/Table/cell_table.py +83 -0
  140. arctrl/py/Json/Table/composite_cell.py +136 -0
  141. arctrl/py/Json/Table/composite_header.py +67 -0
  142. arctrl/py/Json/Table/iotype.py +24 -0
  143. arctrl/py/Json/Table/oatable.py +82 -0
  144. arctrl/py/Json/Table/templates.py +281 -0
  145. arctrl/py/Json/__init__.py +0 -0
  146. arctrl/py/Json/assay.py +600 -0
  147. arctrl/py/Json/comment.py +206 -0
  148. arctrl/py/Json/context/rocrate/__init__.py +0 -0
  149. arctrl/py/Json/context/rocrate/isa_assay_context.py +101 -0
  150. arctrl/py/Json/context/rocrate/isa_comment_context.py +60 -0
  151. arctrl/py/Json/context/rocrate/isa_component_context.py +77 -0
  152. arctrl/py/Json/context/rocrate/isa_data_context.py +74 -0
  153. arctrl/py/Json/context/rocrate/isa_factor_context.py +74 -0
  154. arctrl/py/Json/context/rocrate/isa_factor_value_context.py +84 -0
  155. arctrl/py/Json/context/rocrate/isa_investigation_context.py +110 -0
  156. arctrl/py/Json/context/rocrate/isa_material_attribute_context.py +64 -0
  157. arctrl/py/Json/context/rocrate/isa_material_attribute_value_context.py +80 -0
  158. arctrl/py/Json/context/rocrate/isa_material_context.py +71 -0
  159. arctrl/py/Json/context/rocrate/isa_ontology_annotation_context.py +68 -0
  160. arctrl/py/Json/context/rocrate/isa_ontology_source_reference_context.py +75 -0
  161. arctrl/py/Json/context/rocrate/isa_organization_context.py +55 -0
  162. arctrl/py/Json/context/rocrate/isa_person_context.py +131 -0
  163. arctrl/py/Json/context/rocrate/isa_process_context.py +94 -0
  164. arctrl/py/Json/context/rocrate/isa_process_parameter_value_context.py +80 -0
  165. arctrl/py/Json/context/rocrate/isa_protocol_context.py +97 -0
  166. arctrl/py/Json/context/rocrate/isa_protocol_parameter_context.py +64 -0
  167. arctrl/py/Json/context/rocrate/isa_publication_context.py +78 -0
  168. arctrl/py/Json/context/rocrate/isa_sample_context.py +65 -0
  169. arctrl/py/Json/context/rocrate/isa_source_context.py +66 -0
  170. arctrl/py/Json/context/rocrate/isa_study_context.py +125 -0
  171. arctrl/py/Json/context/rocrate/property_value_context.py +73 -0
  172. arctrl/py/Json/context/rocrate/rocrate_context.py +81 -0
  173. arctrl/py/Json/converter_options.py +23 -0
  174. arctrl/py/Json/data.py +356 -0
  175. arctrl/py/Json/data_file.py +63 -0
  176. arctrl/py/Json/decode.py +271 -0
  177. arctrl/py/Json/encode.py +140 -0
  178. arctrl/py/Json/idtable.py +44 -0
  179. arctrl/py/Json/investigation.py +695 -0
  180. arctrl/py/Json/ontology_annotation.py +404 -0
  181. arctrl/py/Json/ontology_source_reference.py +255 -0
  182. arctrl/py/Json/person.py +658 -0
  183. arctrl/py/Json/property_value.py +359 -0
  184. arctrl/py/Json/publication.py +279 -0
  185. arctrl/py/Json/run.py +275 -0
  186. arctrl/py/Json/string_table.py +87 -0
  187. arctrl/py/Json/study.py +793 -0
  188. arctrl/py/Json/workflow.py +307 -0
  189. arctrl/py/JsonIO/Process/__init__.py +0 -0
  190. arctrl/py/JsonIO/Process/component.py +60 -0
  191. arctrl/py/JsonIO/Process/factor.py +36 -0
  192. arctrl/py/JsonIO/Process/factor_value.py +38 -0
  193. arctrl/py/JsonIO/Process/material.py +60 -0
  194. arctrl/py/JsonIO/Process/material_attribute.py +38 -0
  195. arctrl/py/JsonIO/Process/material_attribute_value.py +60 -0
  196. arctrl/py/JsonIO/Process/material_type.py +36 -0
  197. arctrl/py/JsonIO/Process/process.py +60 -0
  198. arctrl/py/JsonIO/Process/process_input.py +38 -0
  199. arctrl/py/JsonIO/Process/process_output.py +60 -0
  200. arctrl/py/JsonIO/Process/process_parameter_value.py +60 -0
  201. arctrl/py/JsonIO/Process/process_sequence.py +71 -0
  202. arctrl/py/JsonIO/Process/protocol.py +60 -0
  203. arctrl/py/JsonIO/Process/protocol_parameter.py +36 -0
  204. arctrl/py/JsonIO/Process/sample.py +60 -0
  205. arctrl/py/JsonIO/Process/source.py +60 -0
  206. arctrl/py/JsonIO/Process/study_materials.py +52 -0
  207. arctrl/py/JsonIO/Process/value.py +32 -0
  208. arctrl/py/JsonIO/Table/__init__.py +0 -0
  209. arctrl/py/JsonIO/Table/arc_table.py +103 -0
  210. arctrl/py/JsonIO/Table/composite_cell.py +36 -0
  211. arctrl/py/JsonIO/Table/composite_header.py +36 -0
  212. arctrl/py/JsonIO/Table/compression.py +67 -0
  213. arctrl/py/JsonIO/Table/iotype.py +36 -0
  214. arctrl/py/JsonIO/Table/templates.py +113 -0
  215. arctrl/py/JsonIO/__init__.py +0 -0
  216. arctrl/py/JsonIO/assay.py +113 -0
  217. arctrl/py/JsonIO/comment.py +80 -0
  218. arctrl/py/JsonIO/data.py +60 -0
  219. arctrl/py/JsonIO/data_file.py +58 -0
  220. arctrl/py/JsonIO/datamap.py +36 -0
  221. arctrl/py/JsonIO/decode.py +9 -0
  222. arctrl/py/JsonIO/encode.py +1 -0
  223. arctrl/py/JsonIO/investigation.py +91 -0
  224. arctrl/py/JsonIO/ldobject.py +106 -0
  225. arctrl/py/JsonIO/ontology_annotation.py +80 -0
  226. arctrl/py/JsonIO/ontology_source_reference.py +80 -0
  227. arctrl/py/JsonIO/person.py +82 -0
  228. arctrl/py/JsonIO/publication.py +82 -0
  229. arctrl/py/JsonIO/run.py +68 -0
  230. arctrl/py/JsonIO/study.py +114 -0
  231. arctrl/py/JsonIO/workflow.py +68 -0
  232. arctrl/py/ROCrate/ISAProfile/__init__.py +0 -0
  233. arctrl/py/ROCrate/ISAProfile/assay.py +70 -0
  234. arctrl/py/ROCrate/ISAProfile/data.py +65 -0
  235. arctrl/py/ROCrate/ISAProfile/dataset.py +24 -0
  236. arctrl/py/ROCrate/ISAProfile/investigation.py +73 -0
  237. arctrl/py/ROCrate/ISAProfile/lab_process.py +162 -0
  238. arctrl/py/ROCrate/ISAProfile/lab_protocol.py +37 -0
  239. arctrl/py/ROCrate/ISAProfile/person.py +72 -0
  240. arctrl/py/ROCrate/ISAProfile/property_value.py +98 -0
  241. arctrl/py/ROCrate/ISAProfile/sample.py +64 -0
  242. arctrl/py/ROCrate/ISAProfile/scholarly_article.py +98 -0
  243. arctrl/py/ROCrate/ISAProfile/study.py +74 -0
  244. arctrl/py/ROCrate/LDTypes/__init__.py +0 -0
  245. arctrl/py/ROCrate/LDTypes/comment.py +131 -0
  246. arctrl/py/ROCrate/LDTypes/computational_workflow.py +455 -0
  247. arctrl/py/ROCrate/LDTypes/computer_language.py +269 -0
  248. arctrl/py/ROCrate/LDTypes/create_action.py +303 -0
  249. arctrl/py/ROCrate/LDTypes/creative_work.py +566 -0
  250. arctrl/py/ROCrate/LDTypes/dataset.py +943 -0
  251. arctrl/py/ROCrate/LDTypes/defined_term.py +131 -0
  252. arctrl/py/ROCrate/LDTypes/file.py +281 -0
  253. arctrl/py/ROCrate/LDTypes/formal_parameter.py +431 -0
  254. arctrl/py/ROCrate/LDTypes/lab_process.py +352 -0
  255. arctrl/py/ROCrate/LDTypes/lab_protocol.py +395 -0
  256. arctrl/py/ROCrate/LDTypes/organization.py +83 -0
  257. arctrl/py/ROCrate/LDTypes/person.py +484 -0
  258. arctrl/py/ROCrate/LDTypes/postal_address.py +195 -0
  259. arctrl/py/ROCrate/LDTypes/property_value.py +952 -0
  260. arctrl/py/ROCrate/LDTypes/sample.py +202 -0
  261. arctrl/py/ROCrate/LDTypes/scholarly_article.py +229 -0
  262. arctrl/py/ROCrate/LDTypes/software_source_code.py +310 -0
  263. arctrl/py/ROCrate/LDTypes/workflow_invocation.py +48 -0
  264. arctrl/py/ROCrate/LDTypes/workflow_protocol.py +52 -0
  265. arctrl/py/ROCrate/__init__.py +0 -0
  266. arctrl/py/ROCrate/arc_rocrate_metadata.py +39 -0
  267. arctrl/py/ROCrate/dyn_obj_extensions.py +1 -0
  268. arctrl/py/ROCrate/helper.py +8 -0
  269. arctrl/py/ROCrate/ldcontext.py +406 -0
  270. arctrl/py/ROCrate/ldobject.py +1247 -0
  271. arctrl/py/ROCrate/rocrate_context.py +51 -0
  272. arctrl/py/Spreadsheet/AnnotationTable/__init__.py +0 -0
  273. arctrl/py/Spreadsheet/AnnotationTable/arc_table.py +203 -0
  274. arctrl/py/Spreadsheet/AnnotationTable/composite_cell.py +78 -0
  275. arctrl/py/Spreadsheet/AnnotationTable/composite_column.py +305 -0
  276. arctrl/py/Spreadsheet/AnnotationTable/composite_header.py +623 -0
  277. arctrl/py/Spreadsheet/DatamapTable/__init__.py +0 -0
  278. arctrl/py/Spreadsheet/DatamapTable/datamap_column.py +114 -0
  279. arctrl/py/Spreadsheet/DatamapTable/datamap_header.py +621 -0
  280. arctrl/py/Spreadsheet/DatamapTable/datamap_table.py +118 -0
  281. arctrl/py/Spreadsheet/Metadata/__init__.py +0 -0
  282. arctrl/py/Spreadsheet/Metadata/assays.py +125 -0
  283. arctrl/py/Spreadsheet/Metadata/comment.py +77 -0
  284. arctrl/py/Spreadsheet/Metadata/contacts.py +134 -0
  285. arctrl/py/Spreadsheet/Metadata/conversions.py +190 -0
  286. arctrl/py/Spreadsheet/Metadata/design_descriptors.py +34 -0
  287. arctrl/py/Spreadsheet/Metadata/factors.py +107 -0
  288. arctrl/py/Spreadsheet/Metadata/ontology_annotation.py +88 -0
  289. arctrl/py/Spreadsheet/Metadata/ontology_source_reference.py +96 -0
  290. arctrl/py/Spreadsheet/Metadata/protocols.py +146 -0
  291. arctrl/py/Spreadsheet/Metadata/publication.py +122 -0
  292. arctrl/py/Spreadsheet/Metadata/run.py +122 -0
  293. arctrl/py/Spreadsheet/Metadata/sparse_table.py +499 -0
  294. arctrl/py/Spreadsheet/Metadata/study.py +312 -0
  295. arctrl/py/Spreadsheet/Metadata/workflow.py +159 -0
  296. arctrl/py/Spreadsheet/__init__.py +0 -0
  297. arctrl/py/Spreadsheet/arc_assay.py +233 -0
  298. arctrl/py/Spreadsheet/arc_investigation.py +435 -0
  299. arctrl/py/Spreadsheet/arc_run.py +190 -0
  300. arctrl/py/Spreadsheet/arc_study.py +144 -0
  301. arctrl/py/Spreadsheet/arc_workflow.py +177 -0
  302. arctrl/py/Spreadsheet/assembly_info.py +1 -0
  303. arctrl/py/Spreadsheet/collection_aux.py +167 -0
  304. arctrl/py/Spreadsheet/datamap.py +43 -0
  305. arctrl/py/Spreadsheet/template.py +460 -0
  306. arctrl/py/ValidationPackages/__init__.py +0 -0
  307. arctrl/py/ValidationPackages/validation_package.py +82 -0
  308. arctrl/py/ValidationPackages/validation_packages_config.py +132 -0
  309. arctrl/py/WebRequest/__init__.py +0 -0
  310. arctrl/py/WebRequest/web_request.py +9 -0
  311. arctrl/py/WebRequest/web_request_py.py +135 -0
  312. arctrl/py/WorkflowGraph/__init__.py +0 -0
  313. arctrl/py/WorkflowGraph/adapters.py +141 -0
  314. arctrl/py/WorkflowGraph/build_options.py +45 -0
  315. arctrl/py/WorkflowGraph/builder.py +720 -0
  316. arctrl/py/WorkflowGraph/graph_types.py +260 -0
  317. arctrl/py/WorkflowGraph/query_helpers.py +76 -0
  318. arctrl/py/WorkflowGraph/reference_parsing.py +59 -0
  319. arctrl/py/WorkflowGraph/visualization_siren.py +574 -0
  320. arctrl/py/WorkflowGraph/workflow_graph.py +119 -0
  321. arctrl/py/Yaml/__init__.py +0 -0
  322. arctrl/py/Yaml/decode.py +1 -0
  323. arctrl/py/Yaml/encode.py +10 -0
  324. arctrl/py/Yaml/validation_package.py +77 -0
  325. arctrl/py/Yaml/validation_packages_config.py +86 -0
  326. arctrl/py/__init__.py +0 -0
  327. arctrl/py/arc.py +1891 -0
  328. arctrl/py/column_index.py +280 -0
  329. arctrl/py/conversion.py +142 -0
  330. arctrl/py/cross_async.py +76 -0
  331. arctrl/py/cwlrun_resolver.py +228 -0
  332. arctrl/py/fable_modules/dynamic_obj/__init__.py +0 -0
  333. arctrl/py/fable_modules/dynamic_obj/dyn_obj.py +136 -0
  334. arctrl/py/fable_modules/dynamic_obj/dynamic_obj.py +415 -0
  335. arctrl/py/fable_modules/dynamic_obj/fable_js.py +1 -0
  336. arctrl/py/fable_modules/dynamic_obj/fable_py.py +288 -0
  337. arctrl/py/fable_modules/dynamic_obj/hash_codes.py +82 -0
  338. arctrl/py/fable_modules/dynamic_obj/property_helper.py +25 -0
  339. arctrl/py/fable_modules/dynamic_obj/reflection_utils.py +87 -0
  340. arctrl/py/fable_modules/fable_library/__init__.py +0 -0
  341. arctrl/py/fable_modules/fable_library/array_.py +1528 -0
  342. arctrl/py/fable_modules/fable_library/async_.py +377 -0
  343. arctrl/py/fable_modules/fable_library/async_builder.py +379 -0
  344. arctrl/py/fable_modules/fable_library/big_int.py +330 -0
  345. arctrl/py/fable_modules/fable_library/bit_converter.py +131 -0
  346. arctrl/py/fable_modules/fable_library/boolean.py +26 -0
  347. arctrl/py/fable_modules/fable_library/char.py +237 -0
  348. arctrl/py/fable_modules/fable_library/choice.py +212 -0
  349. arctrl/py/fable_modules/fable_library/date.py +779 -0
  350. arctrl/py/fable_modules/fable_library/date_offset.py +79 -0
  351. arctrl/py/fable_modules/fable_library/decimal_.py +190 -0
  352. arctrl/py/fable_modules/fable_library/diagnostics.py +54 -0
  353. arctrl/py/fable_modules/fable_library/double.py +87 -0
  354. arctrl/py/fable_modules/fable_library/encoding.py +41 -0
  355. arctrl/py/fable_modules/fable_library/event.py +206 -0
  356. arctrl/py/fable_modules/fable_library/file.py +107 -0
  357. arctrl/py/fable_modules/fable_library/fsharp_collections.py +52 -0
  358. arctrl/py/fable_modules/fable_library/fsharp_core.py +123 -0
  359. arctrl/py/fable_modules/fable_library/global_.py +63 -0
  360. arctrl/py/fable_modules/fable_library/guid.py +41 -0
  361. arctrl/py/fable_modules/fable_library/int32.py +73 -0
  362. arctrl/py/fable_modules/fable_library/list.py +1788 -0
  363. arctrl/py/fable_modules/fable_library/long.py +240 -0
  364. arctrl/py/fable_modules/fable_library/mailbox_processor.py +179 -0
  365. arctrl/py/fable_modules/fable_library/map.py +1854 -0
  366. arctrl/py/fable_modules/fable_library/map_util.py +148 -0
  367. arctrl/py/fable_modules/fable_library/mutable_map.py +397 -0
  368. arctrl/py/fable_modules/fable_library/mutable_set.py +279 -0
  369. arctrl/py/fable_modules/fable_library/native.py +45 -0
  370. arctrl/py/fable_modules/fable_library/numeric.py +46 -0
  371. arctrl/py/fable_modules/fable_library/observable.py +222 -0
  372. arctrl/py/fable_modules/fable_library/option.py +128 -0
  373. arctrl/py/fable_modules/fable_library/path.py +62 -0
  374. arctrl/py/fable_modules/fable_library/range.py +117 -0
  375. arctrl/py/fable_modules/fable_library/reflection.py +463 -0
  376. arctrl/py/fable_modules/fable_library/reg_exp.py +137 -0
  377. arctrl/py/fable_modules/fable_library/resize_array.py +31 -0
  378. arctrl/py/fable_modules/fable_library/result.py +212 -0
  379. arctrl/py/fable_modules/fable_library/seq.py +1979 -0
  380. arctrl/py/fable_modules/fable_library/seq2.py +221 -0
  381. arctrl/py/fable_modules/fable_library/set.py +2414 -0
  382. arctrl/py/fable_modules/fable_library/singleton_local_time_zone.py +36 -0
  383. arctrl/py/fable_modules/fable_library/string_.py +573 -0
  384. arctrl/py/fable_modules/fable_library/system_collections_generic.py +462 -0
  385. arctrl/py/fable_modules/fable_library/system_text.py +237 -0
  386. arctrl/py/fable_modules/fable_library/task.py +116 -0
  387. arctrl/py/fable_modules/fable_library/task_builder.py +122 -0
  388. arctrl/py/fable_modules/fable_library/thread.py +5 -0
  389. arctrl/py/fable_modules/fable_library/time_span.py +283 -0
  390. arctrl/py/fable_modules/fable_library/timer.py +24 -0
  391. arctrl/py/fable_modules/fable_library/types.py +401 -0
  392. arctrl/py/fable_modules/fable_library/uri.py +109 -0
  393. arctrl/py/fable_modules/fable_library/util.py +2735 -0
  394. arctrl/py/fable_modules/fable_openpyxl/__init__.py +0 -0
  395. arctrl/py/fable_modules/fable_openpyxl/openpyxl.py +362 -0
  396. arctrl/py/fable_modules/fable_python/cognite-sdk/__init__.py +0 -0
  397. arctrl/py/fable_modules/fable_python/cognite-sdk/cognite_sdk.py +22 -0
  398. arctrl/py/fable_modules/fable_python/flask/__init__.py +0 -0
  399. arctrl/py/fable_modules/fable_python/flask/flask.py +34 -0
  400. arctrl/py/fable_modules/fable_python/jupyter/__init__.py +0 -0
  401. arctrl/py/fable_modules/fable_python/jupyter/ipy_widgets.py +47 -0
  402. arctrl/py/fable_modules/fable_python/jupyter/ipython.py +13 -0
  403. arctrl/py/fable_modules/fable_python/stdlib/__init__.py +0 -0
  404. arctrl/py/fable_modules/fable_python/stdlib/ast.py +1 -0
  405. arctrl/py/fable_modules/fable_python/stdlib/asyncio/__init__.py +0 -0
  406. arctrl/py/fable_modules/fable_python/stdlib/asyncio/events.py +17 -0
  407. arctrl/py/fable_modules/fable_python/stdlib/asyncio/futures.py +52 -0
  408. arctrl/py/fable_modules/fable_python/stdlib/asyncio/tasks.py +38 -0
  409. arctrl/py/fable_modules/fable_python/stdlib/base64_.py +1 -0
  410. arctrl/py/fable_modules/fable_python/stdlib/builtins_.py +38 -0
  411. arctrl/py/fable_modules/fable_python/stdlib/html.py +1 -0
  412. arctrl/py/fable_modules/fable_python/stdlib/json.py +1 -0
  413. arctrl/py/fable_modules/fable_python/stdlib/math_.py +1 -0
  414. arctrl/py/fable_modules/fable_python/stdlib/os_.py +1 -0
  415. arctrl/py/fable_modules/fable_python/stdlib/queue_.py +1 -0
  416. arctrl/py/fable_modules/fable_python/stdlib/string_.py +1 -0
  417. arctrl/py/fable_modules/fable_python/stdlib/sys_.py +30 -0
  418. arctrl/py/fable_modules/fable_python/stdlib/time_.py +1 -0
  419. arctrl/py/fable_modules/fable_python/stdlib/tk_inter.py +1 -0
  420. arctrl/py/fable_modules/fs_spreadsheet/Cells/__init__.py +0 -0
  421. arctrl/py/fable_modules/fs_spreadsheet/Cells/fs_cell.py +340 -0
  422. arctrl/py/fable_modules/fs_spreadsheet/Cells/fs_cells_collection.py +466 -0
  423. arctrl/py/fable_modules/fs_spreadsheet/DSL/__init__.py +0 -0
  424. arctrl/py/fable_modules/fs_spreadsheet/DSL/cell_builder.py +214 -0
  425. arctrl/py/fable_modules/fs_spreadsheet/DSL/column_builder.py +139 -0
  426. arctrl/py/fable_modules/fs_spreadsheet/DSL/dsl.py +50 -0
  427. arctrl/py/fable_modules/fs_spreadsheet/DSL/expression.py +65 -0
  428. arctrl/py/fable_modules/fs_spreadsheet/DSL/operators.py +9 -0
  429. arctrl/py/fable_modules/fs_spreadsheet/DSL/row_builder.py +139 -0
  430. arctrl/py/fable_modules/fs_spreadsheet/DSL/sheet_builder.py +118 -0
  431. arctrl/py/fable_modules/fs_spreadsheet/DSL/table_builder.py +122 -0
  432. arctrl/py/fable_modules/fs_spreadsheet/DSL/transform.py +463 -0
  433. arctrl/py/fable_modules/fs_spreadsheet/DSL/types.py +314 -0
  434. arctrl/py/fable_modules/fs_spreadsheet/DSL/workbook_builder.py +106 -0
  435. arctrl/py/fable_modules/fs_spreadsheet/Json/__init__.py +0 -0
  436. arctrl/py/fable_modules/fs_spreadsheet/Json/cell.py +103 -0
  437. arctrl/py/fable_modules/fs_spreadsheet/Json/column.py +70 -0
  438. arctrl/py/fable_modules/fs_spreadsheet/Json/row.py +70 -0
  439. arctrl/py/fable_modules/fs_spreadsheet/Json/table.py +54 -0
  440. arctrl/py/fable_modules/fs_spreadsheet/Json/value.py +93 -0
  441. arctrl/py/fable_modules/fs_spreadsheet/Json/workbook.py +71 -0
  442. arctrl/py/fable_modules/fs_spreadsheet/Json/worksheet.py +216 -0
  443. arctrl/py/fable_modules/fs_spreadsheet/Ranges/__init__.py +0 -0
  444. arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range.py +43 -0
  445. arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_address.py +190 -0
  446. arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_base.py +92 -0
  447. arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_column.py +77 -0
  448. arctrl/py/fable_modules/fs_spreadsheet/Ranges/fs_range_row.py +48 -0
  449. arctrl/py/fable_modules/fs_spreadsheet/Tables/__init__.py +0 -0
  450. arctrl/py/fable_modules/fs_spreadsheet/Tables/fs_table.py +461 -0
  451. arctrl/py/fable_modules/fs_spreadsheet/Tables/fs_table_field.py +117 -0
  452. arctrl/py/fable_modules/fs_spreadsheet/Tables/fs_table_row.py +23 -0
  453. arctrl/py/fable_modules/fs_spreadsheet/__init__.py +0 -0
  454. arctrl/py/fable_modules/fs_spreadsheet/fs_address.py +236 -0
  455. arctrl/py/fable_modules/fs_spreadsheet/fs_column.py +172 -0
  456. arctrl/py/fable_modules/fs_spreadsheet/fs_row.py +183 -0
  457. arctrl/py/fable_modules/fs_spreadsheet/fs_workbook.py +192 -0
  458. arctrl/py/fable_modules/fs_spreadsheet/fs_worksheet.py +610 -0
  459. arctrl/py/fable_modules/fs_spreadsheet/hash_codes.py +60 -0
  460. arctrl/py/fable_modules/fs_spreadsheet/sheet_builder.py +329 -0
  461. arctrl/py/fable_modules/fs_spreadsheet_py/__init__.py +0 -0
  462. arctrl/py/fable_modules/fs_spreadsheet_py/cell.py +60 -0
  463. arctrl/py/fable_modules/fs_spreadsheet_py/cell_type.py +50 -0
  464. arctrl/py/fable_modules/fs_spreadsheet_py/fs_extension.py +60 -0
  465. arctrl/py/fable_modules/fs_spreadsheet_py/json.py +47 -0
  466. arctrl/py/fable_modules/fs_spreadsheet_py/table.py +54 -0
  467. arctrl/py/fable_modules/fs_spreadsheet_py/workbook.py +41 -0
  468. arctrl/py/fable_modules/fs_spreadsheet_py/worksheet.py +52 -0
  469. arctrl/py/fable_modules/fs_spreadsheet_py/xlsx.py +37 -0
  470. arctrl/py/fable_modules/siren/__init__.py +0 -0
  471. arctrl/py/fable_modules/siren/config.py +1038 -0
  472. arctrl/py/fable_modules/siren/formatting.py +1121 -0
  473. arctrl/py/fable_modules/siren/siren.py +1941 -0
  474. arctrl/py/fable_modules/siren/siren_types.py +1229 -0
  475. arctrl/py/fable_modules/siren/theme_variables.py +517 -0
  476. arctrl/py/fable_modules/siren/util.py +37 -0
  477. arctrl/py/fable_modules/siren/yaml.py +101 -0
  478. arctrl/py/fable_modules/thoth_json_core/__init__.py +0 -0
  479. arctrl/py/fable_modules/thoth_json_core/decode.py +1614 -0
  480. arctrl/py/fable_modules/thoth_json_core/encode.py +305 -0
  481. arctrl/py/fable_modules/thoth_json_core/types.py +181 -0
  482. arctrl/py/fable_modules/thoth_json_python/__init__.py +0 -0
  483. arctrl/py/fable_modules/thoth_json_python/decode.py +112 -0
  484. arctrl/py/fable_modules/thoth_json_python/encode.py +72 -0
  485. arctrl/py/fable_modules/thoth_json_python/python.py +1 -0
  486. arctrl/py/fable_modules/yamlicious/Interop/__init__.py +0 -0
  487. arctrl/py/fable_modules/yamlicious/Interop/js_interop.py +1 -0
  488. arctrl/py/fable_modules/yamlicious/Interop/py_interop.py +7 -0
  489. arctrl/py/fable_modules/yamlicious/__init__.py +0 -0
  490. arctrl/py/fable_modules/yamlicious/decode.py +1784 -0
  491. arctrl/py/fable_modules/yamlicious/encode.py +84 -0
  492. arctrl/py/fable_modules/yamlicious/flow_to_block.py +994 -0
  493. arctrl/py/fable_modules/yamlicious/library.py +10 -0
  494. arctrl/py/fable_modules/yamlicious/persil.py +57 -0
  495. arctrl/py/fable_modules/yamlicious/preprocessing.py +99 -0
  496. arctrl/py/fable_modules/yamlicious/reader.py +739 -0
  497. arctrl/py/fable_modules/yamlicious/regex.py +29 -0
  498. arctrl/py/fable_modules/yamlicious/regex_active_patterns.py +265 -0
  499. arctrl/py/fable_modules/yamlicious/writer.py +175 -0
  500. arctrl/py/fable_modules/yamlicious/yamlicious_types.py +128 -0
  501. arctrl/py/json.py +389 -0
  502. arctrl/py/license.py +169 -0
  503. arctrl/py/rocrate_io.py +242 -0
  504. arctrl/py/template_web.py +23 -0
  505. arctrl/py/xlsx.py +212 -0
  506. arctrl/py/yaml.py +79 -0
  507. arctrl/rocrate.py +21 -0
  508. arctrl-3.0.0.dist-info/METADATA +157 -0
  509. arctrl-3.0.0.dist-info/RECORD +511 -0
  510. arctrl-3.0.0.dist-info/WHEEL +4 -0
  511. arctrl-3.0.0.dist-info/licenses/LICENSE +21 -0
@@ -0,0 +1,574 @@
1
+ from __future__ import annotations
2
+ from collections.abc import Callable
3
+ from dataclasses import dataclass
4
+ from typing import Any
5
+ from ..fable_modules.fable_library.array_ import (iterate, map as map_1, filter as filter_1)
6
+ from ..fable_modules.fable_library.char import (is_letter_or_digit, is_digit)
7
+ from ..fable_modules.fable_library.list import of_array
8
+ from ..fable_modules.fable_library.map import (of_seq, try_find)
9
+ from ..fable_modules.fable_library.option import (default_arg, to_array as to_array_1, filter as filter_2, bind)
10
+ from ..fable_modules.fable_library.reflection import (TypeInfo, bool_type, record_type)
11
+ from ..fable_modules.fable_library.seq import (map, filter, exists, to_array, sort_by, choose, iterate as iterate_1)
12
+ from ..fable_modules.fable_library.set import (empty, FSharpSet__Contains, FSharpSet__Add, of_array as of_array_1, of_seq as of_seq_1)
13
+ from ..fable_modules.fable_library.string_ import (is_null_or_white_space, index_of_any, replace)
14
+ from ..fable_modules.fable_library.types import (Record, Array)
15
+ from ..fable_modules.fable_library.util import (equals, compare_primitives)
16
+ from ..fable_modules.siren.siren import (flowchart, siren)
17
+ from ..fable_modules.siren.siren_types import (Direction, Direction_reflection, FlowchartElement, SirenElement)
18
+ from ..CWL.cwlprocessing_unit import CWLProcessingUnit
19
+ from .builder import (build, build_with)
20
+ from .build_options import WorkflowGraphBuildOptions
21
+ from .graph_types import (NodeKind, WorkflowGraphNode, WorkflowGraphEdge, EdgeKind, WorkflowGraph, ProcessingUnitKind, EdgeKindModule_asKey, PortDirection)
22
+
23
+ def _expr1501() -> TypeInfo:
24
+ return record_type("ARCtrl.WorkflowGraph.WorkflowGraphVisualizationOptions", [], WorkflowGraphVisualizationOptions, lambda: [("Direction", Direction_reflection()), ("EnableStyling", bool_type), ("RenderContainsLinks", bool_type)])
25
+
26
+
27
+ @dataclass(eq = False, repr = False, slots = True)
28
+ class WorkflowGraphVisualizationOptions(Record):
29
+ Direction: Direction
30
+ EnableStyling: bool
31
+ RenderContainsLinks: bool
32
+
33
+ WorkflowGraphVisualizationOptions_reflection = _expr1501
34
+
35
+ WorkflowGraphVisualizationOptionsModule_defaultOptions: WorkflowGraphVisualizationOptions = WorkflowGraphVisualizationOptions(Direction(1), True, False)
36
+
37
+ WorkflowGraphSiren_mermaidSpecials: Array[str] = ["/", "\\", "[", "]", "{", "}", "(", ")", ">", "<", "|"]
38
+
39
+ def WorkflowGraphSiren_sanitizeMermaidId(id: str) -> str:
40
+ if is_null_or_white_space(id):
41
+ return "node"
42
+
43
+ else:
44
+ normalized: str
45
+ chars: Array[str] = []
46
+ def action(c: str, id: Any=id) -> None:
47
+ if True if is_letter_or_digit(c) else (c == "_"):
48
+ (chars.append(c))
49
+
50
+ elif True if (c == "/") else (c == "\\"):
51
+ (chars.append("_"))
52
+ (chars.append("_"))
53
+
54
+ else:
55
+ (chars.append("_"))
56
+
57
+
58
+ iterate(action, list(id))
59
+ value: Array[str] = chars[:]
60
+ normalized = ''.join(value)
61
+ if is_digit(normalized[0]) if (len(normalized) > 0) else False:
62
+ return "_" + normalized
63
+
64
+ else:
65
+ return normalized
66
+
67
+
68
+
69
+
70
+ def WorkflowGraphSiren_quoteMermaidLabel(label: str) -> str:
71
+ if is_null_or_white_space(label):
72
+ return label
73
+
74
+ elif True if (index_of_any(label, WorkflowGraphSiren_mermaidSpecials) >= 0) else (label.find("\"") >= 0):
75
+ return ("\"" + replace(label, "\"", "#quot;")) + "\""
76
+
77
+ else:
78
+ return label
79
+
80
+
81
+
82
+ def WorkflowGraphSiren_nodeToElement(node: WorkflowGraphNode) -> FlowchartElement:
83
+ node_id: str = WorkflowGraphSiren_sanitizeMermaidId(node.Id)
84
+ label: str = WorkflowGraphSiren_quoteMermaidLabel(node.Label)
85
+ match_value: NodeKind = node.Kind
86
+ if match_value.tag == 1:
87
+ return flowchart.node(node_id, label)
88
+
89
+ elif match_value.tag == 2:
90
+ if match_value.fields[0].tag == 1:
91
+ return flowchart.node_stadium(node_id, label)
92
+
93
+ else:
94
+ return flowchart.node_round(node_id, label)
95
+
96
+
97
+ elif match_value.fields[0].tag == 1:
98
+ return flowchart.node_hexagon(node_id, label)
99
+
100
+ elif match_value.fields[0].tag == 2:
101
+ return flowchart.node_rhombus(node_id, label)
102
+
103
+ elif match_value.fields[0].tag == 3:
104
+ return flowchart.node(node_id, label)
105
+
106
+ elif match_value.fields[0].tag == 4:
107
+ return flowchart.node(node_id, label)
108
+
109
+ elif match_value.fields[0].tag == 5:
110
+ return flowchart.node(node_id, label)
111
+
112
+ else:
113
+ return flowchart.node_subroutine(node_id, label)
114
+
115
+
116
+
117
+ def WorkflowGraphSiren_tryGetStepRunLookup(graph: WorkflowGraph) -> Any:
118
+ def mapping(e_1: WorkflowGraphEdge, graph: Any=graph) -> tuple[str, str]:
119
+ return (e_1.SourceNodeId, e_1.TargetNodeId)
120
+
121
+ def predicate(e: WorkflowGraphEdge, graph: Any=graph) -> bool:
122
+ return equals(e.Kind, EdgeKind(1))
123
+
124
+ class ObjectExpr1508:
125
+ @property
126
+ def Compare(self) -> Callable[[str, str], int]:
127
+ return compare_primitives
128
+
129
+ return of_seq(map(mapping, filter(predicate, graph.Edges)), ObjectExpr1508())
130
+
131
+
132
+ def WorkflowGraphSiren_addStyles(elements: Array[FlowchartElement], processing_unit_nodes: Array[WorkflowGraphNode], root_input_nodes: Array[WorkflowGraphNode], root_output_nodes: Array[WorkflowGraphNode]) -> None:
133
+ def node_ids_by_predicate(predicate: Callable[[WorkflowGraphNode], bool], nodes: Array[WorkflowGraphNode], elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> Array[str]:
134
+ def mapping(n: WorkflowGraphNode, predicate: Any=predicate, nodes: Any=nodes) -> str:
135
+ return WorkflowGraphSiren_sanitizeMermaidId(n.Id)
136
+
137
+ return map_1(mapping, filter_1(predicate, nodes), None)
138
+
139
+ def _arrow1510(n_1: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> bool:
140
+ return equals(n_1.Kind, NodeKind(0, ProcessingUnitKind(0)))
141
+
142
+ workflow_ids: Array[str] = node_ids_by_predicate(_arrow1510, processing_unit_nodes)
143
+ def _arrow1511(n_2: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> bool:
144
+ return equals(n_2.Kind, NodeKind(0, ProcessingUnitKind(1)))
145
+
146
+ tool_ids: Array[str] = node_ids_by_predicate(_arrow1511, processing_unit_nodes)
147
+ def _arrow1512(n_3: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> bool:
148
+ return equals(n_3.Kind, NodeKind(0, ProcessingUnitKind(2)))
149
+
150
+ expression_ids: Array[str] = node_ids_by_predicate(_arrow1512, processing_unit_nodes)
151
+ def _arrow1513(n_4: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> bool:
152
+ return equals(n_4.Kind, NodeKind(0, ProcessingUnitKind(3)))
153
+
154
+ operation_ids: Array[str] = node_ids_by_predicate(_arrow1513, processing_unit_nodes)
155
+ def _arrow1514(n_5: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> bool:
156
+ return True if equals(n_5.Kind, NodeKind(0, ProcessingUnitKind(5))) else equals(n_5.Kind, NodeKind(0, ProcessingUnitKind(4)))
157
+
158
+ unresolved_ids: Array[str] = node_ids_by_predicate(_arrow1514, processing_unit_nodes)
159
+ def mapping_1(n_6: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> str:
160
+ return WorkflowGraphSiren_sanitizeMermaidId(n_6.Id)
161
+
162
+ input_ids: Array[str] = map_1(mapping_1, root_input_nodes, None)
163
+ def mapping_2(n_7: WorkflowGraphNode, elements: Any=elements, processing_unit_nodes: Any=processing_unit_nodes, root_input_nodes: Any=root_input_nodes, root_output_nodes: Any=root_output_nodes) -> str:
164
+ return WorkflowGraphSiren_sanitizeMermaidId(n_7.Id)
165
+
166
+ output_ids: Array[str] = map_1(mapping_2, root_output_nodes, None)
167
+ (elements.append(flowchart.class_def("wg_workflow", of_array([("fill", "#dff4ff"), ("stroke", "#246fa8"), ("stroke-width", "2px")]))))
168
+ (elements.append(flowchart.class_def("wg_tool", of_array([("fill", "#e8f5e9"), ("stroke", "#2e7d32"), ("stroke-width", "2px")]))))
169
+ (elements.append(flowchart.class_def("wg_expression", of_array([("fill", "#fff3e0"), ("stroke", "#e65100"), ("stroke-width", "2px")]))))
170
+ if len(operation_ids) > 0:
171
+ (elements.append(flowchart.class_def("wg_operation", of_array([("fill", "#ede7f6"), ("stroke", "#5e35b1"), ("stroke-width", "2px")]))))
172
+
173
+ (elements.append(flowchart.class_def("wg_unresolved", of_array([("fill", "#ffebee"), ("stroke", "#c62828"), ("stroke-width", "2px"), ("stroke-dasharray", "5 5")]))))
174
+ (elements.append(flowchart.class_def("wg_initial_input", of_array([("fill", "#e1f5fe"), ("stroke", "#0288d1"), ("stroke-width", "2px")]))))
175
+ (elements.append(flowchart.class_def("wg_final_output", of_array([("fill", "#f3e5f5"), ("stroke", "#7b1fa2"), ("stroke-width", "2px")]))))
176
+ if len(workflow_ids) > 0:
177
+ (elements.append(flowchart.class_(workflow_ids, "wg_workflow")))
178
+
179
+ if len(tool_ids) > 0:
180
+ (elements.append(flowchart.class_(tool_ids, "wg_tool")))
181
+
182
+ if len(expression_ids) > 0:
183
+ (elements.append(flowchart.class_(expression_ids, "wg_expression")))
184
+
185
+ if len(operation_ids) > 0:
186
+ (elements.append(flowchart.class_(operation_ids, "wg_operation")))
187
+
188
+ if len(unresolved_ids) > 0:
189
+ (elements.append(flowchart.class_(unresolved_ids, "wg_unresolved")))
190
+
191
+ if len(input_ids) > 0:
192
+ (elements.append(flowchart.class_(input_ids, "wg_initial_input")))
193
+
194
+ if len(output_ids) > 0:
195
+ (elements.append(flowchart.class_(output_ids, "wg_final_output")))
196
+
197
+
198
+
199
+ def WorkflowGraphSiren_fromGraphWithOptions(options: WorkflowGraphVisualizationOptions, graph: WorkflowGraph) -> SirenElement:
200
+ elements: Array[FlowchartElement] = []
201
+ class ObjectExpr1519:
202
+ @property
203
+ def Compare(self) -> Callable[[str, str], int]:
204
+ return compare_primitives
205
+
206
+ edge_keys: Any = empty(ObjectExpr1519())
207
+ def add_grouped_nodes(group_id: str, group_label: str, nodes: Array[WorkflowGraphNode], options: Any=options, graph: Any=graph) -> None:
208
+ if len(nodes) > 0:
209
+ grouped: Array[FlowchartElement] = []
210
+ def action(node: WorkflowGraphNode, group_id: Any=group_id, group_label: Any=group_label, nodes: Any=nodes) -> None:
211
+ (grouped.append(WorkflowGraphSiren_nodeToElement(node)))
212
+
213
+ iterate(action, nodes)
214
+ (elements.append(flowchart.subgraph_named(group_id, WorkflowGraphSiren_quoteMermaidLabel(group_label), grouped)))
215
+
216
+
217
+ def add_rendered_edge(kind: EdgeKind, source_node_id: str, target_node_id: str, label: str | None=None, options: Any=options, graph: Any=graph) -> None:
218
+ nonlocal edge_keys
219
+ label_key: str = default_arg(label, "")
220
+ key: str = ((((((("" + EdgeKindModule_asKey(kind)) + "::") + source_node_id) + "::") + target_node_id) + "::") + label_key) + ""
221
+ if not FSharpSet__Contains(edge_keys, key):
222
+ edge_keys = FSharpSet__Add(edge_keys, key)
223
+ src: str = WorkflowGraphSiren_sanitizeMermaidId(source_node_id)
224
+ tgt: str = WorkflowGraphSiren_sanitizeMermaidId(target_node_id)
225
+ def _arrow1522(__unit: None=None, kind: Any=kind, source_node_id: Any=source_node_id, target_node_id: Any=target_node_id, label: Any=label) -> FlowchartElement:
226
+ l_3: str = label
227
+ return flowchart.link_thick_arrow(src, tgt, WorkflowGraphSiren_quoteMermaidLabel(l_3))
228
+
229
+ def _arrow1523(__unit: None=None, kind: Any=kind, source_node_id: Any=source_node_id, target_node_id: Any=target_node_id, label: Any=label) -> FlowchartElement:
230
+ l_4: str = label
231
+ return flowchart.link_dotted_arrow(src, tgt, WorkflowGraphSiren_quoteMermaidLabel(l_4))
232
+
233
+ def _arrow1524(__unit: None=None, kind: Any=kind, source_node_id: Any=source_node_id, target_node_id: Any=target_node_id, label: Any=label) -> FlowchartElement:
234
+ l_5: str = label
235
+ return flowchart.link_arrow(src, tgt, WorkflowGraphSiren_quoteMermaidLabel(l_5))
236
+
237
+ link: FlowchartElement = ((_arrow1522() if (not is_null_or_white_space(label)) else flowchart.link_thick_arrow(src, tgt)) if (label is not None) else flowchart.link_thick_arrow(src, tgt)) if (kind.tag == 3) else (((_arrow1523() if (not is_null_or_white_space(label)) else flowchart.link_dotted_arrow(src, tgt)) if (label is not None) else flowchart.link_dotted_arrow(src, tgt)) if (kind.tag == 0) else ((_arrow1524() if (not is_null_or_white_space(label)) else flowchart.link_arrow(src, tgt)) if (label is not None) else flowchart.link_arrow(src, tgt)))
238
+ (elements.append(link))
239
+
240
+
241
+ def predicate(e: WorkflowGraphEdge, options: Any=options, graph: Any=graph) -> bool:
242
+ return equals(e.Kind, EdgeKind(1))
243
+
244
+ has_calls: bool = exists(predicate, graph.Edges)
245
+ def projection(n_2: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str:
246
+ return n_2.Id
247
+
248
+ def predicate_2(n_1: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> bool:
249
+ if has_calls:
250
+ return n_1.Id != graph.RootProcessingUnitNodeId
251
+
252
+ else:
253
+ return True
254
+
255
+
256
+ def predicate_1(n: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> bool:
257
+ if n.Kind.tag == 0:
258
+ return True
259
+
260
+ else:
261
+ return False
262
+
263
+
264
+ class ObjectExpr1525:
265
+ @property
266
+ def Compare(self) -> Callable[[str, str], int]:
267
+ return compare_primitives
268
+
269
+ processing_unit_nodes: Array[WorkflowGraphNode] = to_array(sort_by(projection, filter(predicate_2, filter(predicate_1, graph.Nodes)), ObjectExpr1525()))
270
+ def projection_1(n_4: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str:
271
+ return n_4.Id
272
+
273
+ def predicate_3(n_3: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> bool:
274
+ if equals(n_3.Kind, NodeKind(2, PortDirection(0))):
275
+ return equals(n_3.OwnerNodeId, graph.RootProcessingUnitNodeId)
276
+
277
+ else:
278
+ return False
279
+
280
+
281
+ class ObjectExpr1528:
282
+ @property
283
+ def Compare(self) -> Callable[[str, str], int]:
284
+ return compare_primitives
285
+
286
+ root_input_nodes: Array[WorkflowGraphNode] = to_array(sort_by(projection_1, filter(predicate_3, graph.Nodes), ObjectExpr1528()))
287
+ def projection_2(n_6: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str:
288
+ return n_6.Id
289
+
290
+ def predicate_4(n_5: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> bool:
291
+ if equals(n_5.Kind, NodeKind(2, PortDirection(1))):
292
+ return equals(n_5.OwnerNodeId, graph.RootProcessingUnitNodeId)
293
+
294
+ else:
295
+ return False
296
+
297
+
298
+ class ObjectExpr1530:
299
+ @property
300
+ def Compare(self) -> Callable[[str, str], int]:
301
+ return compare_primitives
302
+
303
+ root_output_nodes: Array[WorkflowGraphNode] = to_array(sort_by(projection_2, filter(predicate_4, graph.Nodes), ObjectExpr1530()))
304
+ def mapping(n_7: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str:
305
+ return n_7.Id
306
+
307
+ class ObjectExpr1531:
308
+ @property
309
+ def Compare(self) -> Callable[[str, str], int]:
310
+ return compare_primitives
311
+
312
+ processing_unit_node_ids: Any = of_array_1(map_1(mapping, processing_unit_nodes, None), ObjectExpr1531())
313
+ def mapping_1(n_8: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str:
314
+ return n_8.Id
315
+
316
+ class ObjectExpr1532:
317
+ @property
318
+ def Compare(self) -> Callable[[str, str], int]:
319
+ return compare_primitives
320
+
321
+ root_input_node_ids: Any = of_array_1(map_1(mapping_1, root_input_nodes, None), ObjectExpr1532())
322
+ def mapping_2(n_9: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str:
323
+ return n_9.Id
324
+
325
+ class ObjectExpr1533:
326
+ @property
327
+ def Compare(self) -> Callable[[str, str], int]:
328
+ return compare_primitives
329
+
330
+ root_output_node_ids: Any = of_array_1(map_1(mapping_2, root_output_nodes, None), ObjectExpr1533())
331
+ def chooser(n_10: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> str | None:
332
+ if equals(n_10.Kind, NodeKind(1)):
333
+ return n_10.Id
334
+
335
+ else:
336
+ return None
337
+
338
+
339
+ class ObjectExpr1535:
340
+ @property
341
+ def Compare(self) -> Callable[[str, str], int]:
342
+ return compare_primitives
343
+
344
+ step_node_ids: Any = of_seq_1(choose(chooser, graph.Nodes), ObjectExpr1535())
345
+ def mapping_3(n_12: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> tuple[str, WorkflowGraphNode]:
346
+ return (n_12.Id, n_12)
347
+
348
+ def predicate_6(n_11: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> bool:
349
+ if equals(n_11.Kind, NodeKind(2, PortDirection(0))):
350
+ def predicate_5(value_4: str, n_11: Any=n_11) -> bool:
351
+ return FSharpSet__Contains(step_node_ids, value_4)
352
+
353
+ return exists(predicate_5, to_array_1(n_11.OwnerNodeId))
354
+
355
+ else:
356
+ return False
357
+
358
+
359
+ class ObjectExpr1536:
360
+ @property
361
+ def Compare(self) -> Callable[[str, str], int]:
362
+ return compare_primitives
363
+
364
+ step_input_ports: Any = of_seq(map(mapping_3, filter(predicate_6, graph.Nodes)), ObjectExpr1536())
365
+ def mapping_4(n_14: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> tuple[str, WorkflowGraphNode]:
366
+ return (n_14.Id, n_14)
367
+
368
+ def predicate_8(n_13: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> bool:
369
+ if equals(n_13.Kind, NodeKind(2, PortDirection(1))):
370
+ def predicate_7(value_5: str, n_13: Any=n_13) -> bool:
371
+ return FSharpSet__Contains(step_node_ids, value_5)
372
+
373
+ return exists(predicate_7, to_array_1(n_13.OwnerNodeId))
374
+
375
+ else:
376
+ return False
377
+
378
+
379
+ class ObjectExpr1538:
380
+ @property
381
+ def Compare(self) -> Callable[[str, str], int]:
382
+ return compare_primitives
383
+
384
+ step_output_ports: Any = of_seq(map(mapping_4, filter(predicate_8, graph.Nodes)), ObjectExpr1538())
385
+ step_to_run: Any = WorkflowGraphSiren_tryGetStepRunLookup(graph)
386
+ def predicate_9(e_1: WorkflowGraphEdge, options: Any=options, graph: Any=graph) -> bool:
387
+ return equals(e_1.Kind, EdgeKind(0))
388
+
389
+ contains_step_edges: Array[WorkflowGraphEdge] = to_array(filter(predicate_9, graph.Edges))
390
+ def try_get_run_of_step(step_node_id: str, options: Any=options, graph: Any=graph) -> str | None:
391
+ def predicate_10(value_6: str, step_node_id: Any=step_node_id) -> bool:
392
+ return FSharpSet__Contains(processing_unit_node_ids, value_6)
393
+
394
+ return filter_2(predicate_10, try_find(step_node_id, step_to_run))
395
+
396
+ add_grouped_nodes("wg_initial_inputs", "Initial Inputs", root_input_nodes)
397
+ def action_1(arg: WorkflowGraphNode, options: Any=options, graph: Any=graph) -> None:
398
+ item: FlowchartElement = WorkflowGraphSiren_nodeToElement(arg)
399
+ (elements.append(item))
400
+
401
+ iterate(action_1, processing_unit_nodes)
402
+ add_grouped_nodes("wg_final_outputs", "Final Outputs", root_output_nodes)
403
+ if FSharpSet__Contains(processing_unit_node_ids, graph.RootProcessingUnitNodeId) if (not has_calls) else False:
404
+ for idx in range(0, (len(root_input_nodes) - 1) + 1, 1):
405
+ input_node: WorkflowGraphNode = root_input_nodes[idx]
406
+ add_rendered_edge(EdgeKind(2), input_node.Id, graph.RootProcessingUnitNodeId, input_node.Label)
407
+ for idx_1 in range(0, (len(root_output_nodes) - 1) + 1, 1):
408
+ add_rendered_edge(EdgeKind(4), graph.RootProcessingUnitNodeId, root_output_nodes[idx_1].Id, None)
409
+
410
+ def action_2(e_2: WorkflowGraphEdge, options: Any=options, graph: Any=graph) -> None:
411
+ if FSharpSet__Contains(processing_unit_node_ids, e_2.SourceNodeId):
412
+ match_value_2: str | None = try_get_run_of_step(e_2.TargetNodeId)
413
+ if match_value_2 is None:
414
+ pass
415
+
416
+ else:
417
+ add_rendered_edge(EdgeKind(0), e_2.SourceNodeId, match_value_2, None)
418
+
419
+
420
+
421
+ iterate(action_2, contains_step_edges)
422
+ def action_3(edge: WorkflowGraphEdge, options: Any=options, graph: Any=graph) -> None:
423
+ match_value_3: EdgeKind = edge.Kind
424
+ (pattern_matching_result,) = (None,)
425
+ if match_value_3.tag == 2:
426
+ if FSharpSet__Contains(root_input_node_ids, edge.SourceNodeId):
427
+ pattern_matching_result = 0
428
+
429
+ else:
430
+ pattern_matching_result = 3
431
+
432
+
433
+ elif match_value_3.tag == 3:
434
+ pattern_matching_result = 1
435
+
436
+ elif match_value_3.tag == 4:
437
+ if FSharpSet__Contains(root_output_node_ids, edge.TargetNodeId):
438
+ pattern_matching_result = 2
439
+
440
+ else:
441
+ pattern_matching_result = 3
442
+
443
+
444
+ else:
445
+ pattern_matching_result = 3
446
+
447
+ if pattern_matching_result == 0:
448
+ match_value_4: WorkflowGraphNode | None = try_find(edge.TargetNodeId, step_input_ports)
449
+ if match_value_4 is None:
450
+ pass
451
+
452
+ else:
453
+ target_port: WorkflowGraphNode = match_value_4
454
+ match_value_5: str | None = bind(try_get_run_of_step, target_port.OwnerNodeId)
455
+ if match_value_5 is None:
456
+ pass
457
+
458
+ else:
459
+ add_rendered_edge(EdgeKind(2), edge.SourceNodeId, match_value_5, target_port.Label)
460
+
461
+
462
+
463
+ elif pattern_matching_result == 1:
464
+ match_value: WorkflowGraphNode | None = try_find(edge.SourceNodeId, step_output_ports)
465
+ match_value_1: WorkflowGraphNode | None = try_find(edge.TargetNodeId, step_input_ports)
466
+ (pattern_matching_result_1, source_port, target_port_1) = (None, None, None)
467
+ if match_value is not None:
468
+ if match_value_1 is not None:
469
+ pattern_matching_result_1 = 0
470
+ source_port = match_value
471
+ target_port_1 = match_value_1
472
+
473
+ else:
474
+ pattern_matching_result_1 = 1
475
+
476
+
477
+ else:
478
+ pattern_matching_result_1 = 1
479
+
480
+ if pattern_matching_result_1 == 0:
481
+ match_value_2: str | None = bind(try_get_run_of_step, source_port.OwnerNodeId)
482
+ match_value_3: str | None = bind(try_get_run_of_step, target_port_1.OwnerNodeId)
483
+ (pattern_matching_result_2, consumer_run_id_1, producer_run_id) = (None, None, None)
484
+ if match_value_2 is not None:
485
+ if match_value_3 is not None:
486
+ pattern_matching_result_2 = 0
487
+ consumer_run_id_1 = match_value_3
488
+ producer_run_id = match_value_2
489
+
490
+ else:
491
+ pattern_matching_result_2 = 1
492
+
493
+
494
+ else:
495
+ pattern_matching_result_2 = 1
496
+
497
+ if pattern_matching_result_2 == 0:
498
+ add_rendered_edge(EdgeKind(3), producer_run_id, consumer_run_id_1, target_port_1.Label)
499
+
500
+ elif pattern_matching_result_2 == 1:
501
+ pass
502
+
503
+
504
+ elif pattern_matching_result_1 == 1:
505
+ pass
506
+
507
+
508
+ elif pattern_matching_result == 2:
509
+ match_value_8: WorkflowGraphNode | None = try_find(edge.SourceNodeId, step_output_ports)
510
+ if match_value_8 is None:
511
+ if FSharpSet__Contains(root_input_node_ids, edge.SourceNodeId):
512
+ add_rendered_edge(EdgeKind(4), edge.SourceNodeId, edge.TargetNodeId, None)
513
+
514
+
515
+ else:
516
+ match_value_9: str | None = bind(try_get_run_of_step, match_value_8.OwnerNodeId)
517
+ if match_value_9 is None:
518
+ pass
519
+
520
+ else:
521
+ add_rendered_edge(EdgeKind(4), match_value_9, edge.TargetNodeId, None)
522
+
523
+
524
+
525
+ elif pattern_matching_result == 3:
526
+ pass
527
+
528
+
529
+ def projection_3(e_3: WorkflowGraphEdge, options: Any=options, graph: Any=graph) -> str:
530
+ return e_3.Id
531
+
532
+ class ObjectExpr1540:
533
+ @property
534
+ def Compare(self) -> Callable[[str, str], int]:
535
+ return compare_primitives
536
+
537
+ iterate_1(action_3, sort_by(projection_3, graph.Edges, ObjectExpr1540()))
538
+ if options.EnableStyling:
539
+ WorkflowGraphSiren_addStyles(elements, processing_unit_nodes, root_input_nodes, root_output_nodes)
540
+
541
+ return siren.flowchart(options.Direction, elements)
542
+
543
+
544
+ def WorkflowGraphSiren_fromGraph(graph: WorkflowGraph) -> SirenElement:
545
+ return WorkflowGraphSiren_fromGraphWithOptions(WorkflowGraphVisualizationOptionsModule_defaultOptions, graph)
546
+
547
+
548
+ def WorkflowGraphSiren_fromProcessingUnit(processing_unit: CWLProcessingUnit) -> SirenElement:
549
+ return WorkflowGraphSiren_fromGraph(build(processing_unit))
550
+
551
+
552
+ def WorkflowGraphSiren_fromProcessingUnitResolved(build_options: WorkflowGraphBuildOptions, processing_unit: CWLProcessingUnit) -> SirenElement:
553
+ return WorkflowGraphSiren_fromGraph(build_with(build_options, processing_unit))
554
+
555
+
556
+ def WorkflowGraphSiren_toMermaidWithOptions(options: WorkflowGraphVisualizationOptions, graph: WorkflowGraph) -> str:
557
+ diagram: SirenElement = WorkflowGraphSiren_fromGraphWithOptions(options, graph)
558
+ return siren.write(diagram)
559
+
560
+
561
+ def WorkflowGraphSiren_toMermaid(graph: WorkflowGraph) -> str:
562
+ return WorkflowGraphSiren_toMermaidWithOptions(WorkflowGraphVisualizationOptionsModule_defaultOptions, graph)
563
+
564
+
565
+ def WorkflowGraphSiren_toMarkdownWithOptions(options: WorkflowGraphVisualizationOptions, graph: WorkflowGraph) -> str:
566
+ return ("```mermaid\n" + WorkflowGraphSiren_toMermaidWithOptions(options, graph)) + "\n```"
567
+
568
+
569
+ def WorkflowGraphSiren_toMarkdown(graph: WorkflowGraph) -> str:
570
+ return WorkflowGraphSiren_toMarkdownWithOptions(WorkflowGraphVisualizationOptionsModule_defaultOptions, graph)
571
+
572
+
573
+ __all__ = ["WorkflowGraphVisualizationOptions_reflection", "WorkflowGraphVisualizationOptionsModule_defaultOptions", "WorkflowGraphSiren_mermaidSpecials", "WorkflowGraphSiren_sanitizeMermaidId", "WorkflowGraphSiren_quoteMermaidLabel", "WorkflowGraphSiren_nodeToElement", "WorkflowGraphSiren_tryGetStepRunLookup", "WorkflowGraphSiren_addStyles", "WorkflowGraphSiren_fromGraphWithOptions", "WorkflowGraphSiren_fromGraph", "WorkflowGraphSiren_fromProcessingUnit", "WorkflowGraphSiren_fromProcessingUnitResolved", "WorkflowGraphSiren_toMermaidWithOptions", "WorkflowGraphSiren_toMermaid", "WorkflowGraphSiren_toMarkdownWithOptions", "WorkflowGraphSiren_toMarkdown"]
574
+