@mat3ra/wode 2026.4.9-0 → 2026.5.29-0

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 (361) hide show
  1. package/.babelrc +1 -1
  2. package/dist/js/Subworkflow.d.ts +714 -0
  3. package/dist/js/Subworkflow.js +397 -0
  4. package/dist/js/Workflow.d.ts +82 -0
  5. package/dist/js/Workflow.js +286 -0
  6. package/dist/js/WorkflowDesignerMaterial.d.ts +21 -0
  7. package/dist/js/WorkflowDesignerMaterial.js +26 -0
  8. package/dist/js/context/mixins/ApplicationContextMixin.d.ts +10 -0
  9. package/dist/js/context/mixins/ApplicationContextMixin.js +10 -17
  10. package/dist/js/context/mixins/MaterialContextMixin.d.ts +18 -0
  11. package/dist/js/context/mixins/MaterialContextMixin.js +14 -38
  12. package/dist/js/context/mixins/MaterialsContextMixin.d.ts +10 -0
  13. package/dist/js/context/mixins/MaterialsContextMixin.js +11 -17
  14. package/dist/js/context/mixins/MaterialsSetContextMixin.d.ts +14 -0
  15. package/dist/js/context/mixins/MaterialsSetContextMixin.js +21 -23
  16. package/dist/js/context/providers/BoundaryConditionsFormDataManager.d.ts +30 -0
  17. package/dist/js/context/providers/BoundaryConditionsFormDataManager.js +62 -0
  18. package/dist/js/context/providers/CollinearMagnetizationDataManager.d.ts +42 -0
  19. package/dist/js/context/providers/CollinearMagnetizationDataManager.js +101 -0
  20. package/dist/js/context/providers/Hubbard/HubbardContextManagerLegacy.d.ts +29 -0
  21. package/dist/js/context/providers/Hubbard/HubbardContextManagerLegacy.js +69 -0
  22. package/dist/js/context/providers/Hubbard/HubbardContextProvider.d.ts +20 -0
  23. package/dist/js/context/providers/Hubbard/HubbardContextProvider.js +47 -0
  24. package/dist/js/context/providers/Hubbard/HubbardJContextManager.d.ts +22 -0
  25. package/dist/js/context/providers/Hubbard/HubbardJContextManager.js +61 -0
  26. package/dist/js/context/providers/Hubbard/HubbardUContextManager.d.ts +22 -0
  27. package/dist/js/context/providers/Hubbard/HubbardUContextManager.js +57 -0
  28. package/dist/js/context/providers/Hubbard/HubbardVContextManager.d.ts +22 -0
  29. package/dist/js/context/providers/Hubbard/HubbardVContextManager.js +79 -0
  30. package/dist/js/context/providers/IonDynamicsDataManager.d.ts +27 -0
  31. package/dist/js/context/providers/IonDynamicsDataManager.js +48 -0
  32. package/dist/js/context/providers/MLSettingsDataManager.d.ts +24 -0
  33. package/dist/js/context/providers/MLSettingsDataManager.js +42 -0
  34. package/dist/js/context/providers/MLTrainTestSplitDataManager.d.ts +23 -0
  35. package/dist/js/context/providers/MLTrainTestSplitDataManager.js +40 -0
  36. package/dist/js/context/providers/NEBFormDataManager.d.ts +23 -0
  37. package/dist/js/context/providers/NEBFormDataManager.js +39 -0
  38. package/dist/js/context/providers/NonCollinearMagnetizationDataManager.d.ts +78 -0
  39. package/dist/js/context/providers/NonCollinearMagnetizationDataManager.js +181 -0
  40. package/dist/js/context/providers/PlanewaveCutoffDataManager.d.ts +26 -0
  41. package/dist/js/context/providers/PlanewaveCutoffDataManager.js +69 -0
  42. package/dist/js/context/providers/PointsGrid/IGridFormDataManager.d.ts +13 -0
  43. package/dist/js/context/providers/PointsGrid/IGridFormDataManager.js +23 -0
  44. package/dist/js/context/providers/PointsGrid/KGridFormDataManager.d.ts +15 -0
  45. package/dist/js/context/providers/PointsGrid/KGridFormDataManager.js +30 -0
  46. package/dist/js/context/providers/PointsGrid/PointsGridFormDataProvider.d.ts +171 -0
  47. package/dist/js/context/providers/PointsGrid/PointsGridFormDataProvider.js +270 -0
  48. package/dist/js/context/providers/PointsGrid/QGridFormDataManager.d.ts +13 -0
  49. package/dist/js/context/providers/PointsGrid/QGridFormDataManager.js +23 -0
  50. package/dist/js/context/providers/PointsPath/ExplicitKPath2PIBAFormDataManager.d.ts +10 -0
  51. package/dist/js/context/providers/PointsPath/ExplicitKPath2PIBAFormDataManager.js +19 -0
  52. package/dist/js/context/providers/PointsPath/ExplicitKPathFormDataManager.d.ts +9 -0
  53. package/dist/js/context/providers/PointsPath/ExplicitKPathFormDataManager.js +18 -0
  54. package/dist/js/context/providers/PointsPath/IPathFormDataManager.d.ts +8 -0
  55. package/dist/js/context/providers/PointsPath/IPathFormDataManager.js +17 -0
  56. package/dist/js/context/providers/PointsPath/KPathFormDataManager.d.ts +8 -0
  57. package/dist/js/context/providers/PointsPath/KPathFormDataManager.js +17 -0
  58. package/dist/js/context/providers/PointsPath/PointsPathFormDataProvider.d.ts +40 -0
  59. package/dist/js/context/providers/PointsPath/PointsPathFormDataProvider.js +125 -0
  60. package/dist/js/context/providers/PointsPath/QPathFormDataManager.d.ts +8 -0
  61. package/dist/js/context/providers/PointsPath/QPathFormDataManager.js +17 -0
  62. package/dist/js/context/providers/base/ContextProvider.d.ts +75 -0
  63. package/dist/js/context/providers/base/ContextProvider.js +87 -0
  64. package/dist/js/context/providers/base/JSONSchemaDataProvider.d.ts +16 -0
  65. package/dist/js/context/providers/base/JSONSchemaDataProvider.js +17 -0
  66. package/dist/js/context/providers/base/JSONSchemaFormDataProvider.d.ts +19 -0
  67. package/dist/js/context/providers/base/JSONSchemaFormDataProvider.js +32 -0
  68. package/dist/js/context/providers/by_application/espresso/QENEBInputDataManager.d.ts +26 -0
  69. package/dist/js/context/providers/by_application/espresso/QENEBInputDataManager.js +54 -0
  70. package/dist/js/context/providers/by_application/espresso/QEPWXInputDataManager.d.ts +78 -0
  71. package/dist/js/context/providers/by_application/espresso/QEPWXInputDataManager.js +104 -0
  72. package/dist/js/context/providers/by_application/nwchem/NWChemInputDataManager.d.ts +36 -0
  73. package/dist/js/context/providers/by_application/nwchem/NWChemInputDataManager.js +58 -0
  74. package/dist/js/context/providers/by_application/vasp/VASPInputDataManager.d.ts +36 -0
  75. package/dist/js/context/providers/by_application/vasp/VASPInputDataManager.js +56 -0
  76. package/dist/js/context/providers/by_application/vasp/VASPNEBInputDataManager.d.ts +30 -0
  77. package/dist/js/context/providers/by_application/vasp/VASPNEBInputDataManager.js +50 -0
  78. package/dist/js/context/providers/index.d.ts +92 -0
  79. package/dist/js/context/providers/index.js +107 -0
  80. package/dist/js/context/providers/settings.d.ts +7 -0
  81. package/dist/js/context/providers/settings.js +11 -33
  82. package/dist/js/convergence/ConvergenceParameter.d.ts +26 -0
  83. package/dist/js/convergence/ConvergenceParameter.js +13 -0
  84. package/dist/js/convergence/NonUniformKGridConvergence.d.ts +12 -0
  85. package/dist/js/convergence/NonUniformKGridConvergence.js +31 -0
  86. package/dist/js/convergence/UniformKGridConvergence.d.ts +8 -0
  87. package/dist/js/convergence/UniformKGridConvergence.js +22 -0
  88. package/dist/js/convergence/factory.d.ts +8 -0
  89. package/dist/js/convergence/factory.js +18 -0
  90. package/dist/js/enums.d.ts +62 -0
  91. package/dist/js/enums.js +66 -61
  92. package/dist/js/generated/AssertionUnitSchemaMixin.d.ts +5 -0
  93. package/dist/js/generated/AssertionUnitSchemaMixin.js +27 -0
  94. package/dist/js/generated/AssignmentUnitSchemaMixin.d.ts +5 -0
  95. package/dist/js/generated/AssignmentUnitSchemaMixin.js +33 -0
  96. package/dist/js/generated/BaseUnitSchemaMixin.d.ts +5 -0
  97. package/dist/js/generated/BaseUnitSchemaMixin.js +57 -0
  98. package/dist/js/generated/ConditionUnitSchemaMixin.d.ts +5 -0
  99. package/dist/js/generated/ConditionUnitSchemaMixin.js +51 -0
  100. package/dist/js/generated/ExecutionUnitInputSchemaMixin.d.ts +5 -0
  101. package/dist/js/generated/ExecutionUnitInputSchemaMixin.js +27 -0
  102. package/dist/js/generated/ExecutionUnitSchemaMixin.d.ts +5 -0
  103. package/dist/js/generated/ExecutionUnitSchemaMixin.js +45 -0
  104. package/dist/js/generated/IOUnitSchemaMixin.d.ts +5 -0
  105. package/dist/js/generated/IOUnitSchemaMixin.js +33 -0
  106. package/dist/js/generated/MapUnitSchemaMixin.d.ts +5 -0
  107. package/dist/js/generated/MapUnitSchemaMixin.js +27 -0
  108. package/dist/js/generated/ReduceUnitSchemaMixin.d.ts +5 -0
  109. package/dist/js/generated/ReduceUnitSchemaMixin.js +27 -0
  110. package/dist/js/generated/StatusSchemaMixin.d.ts +5 -0
  111. package/dist/js/generated/StatusSchemaMixin.js +21 -0
  112. package/dist/js/generated/SubworkflowSchemaMixin.d.ts +5 -0
  113. package/dist/js/generated/SubworkflowSchemaMixin.js +51 -0
  114. package/dist/js/generated/SubworkflowUnitSchemaMixin.d.ts +5 -0
  115. package/dist/js/generated/SubworkflowUnitSchemaMixin.js +15 -0
  116. package/dist/js/generated/WorkflowSchemaMixin.d.ts +5 -0
  117. package/dist/js/generated/WorkflowSchemaMixin.js +51 -0
  118. package/dist/js/index.d.ts +13 -0
  119. package/dist/js/index.js +66 -176
  120. package/dist/js/units/AssertionUnit.d.ts +20 -0
  121. package/dist/js/units/AssertionUnit.js +33 -0
  122. package/dist/js/units/AssignmentUnit.d.ts +17 -0
  123. package/dist/js/units/AssignmentUnit.js +35 -0
  124. package/dist/js/units/BaseUnit.d.ts +39 -0
  125. package/dist/js/units/BaseUnit.js +70 -0
  126. package/dist/js/units/ConditionUnit.d.ts +17 -0
  127. package/dist/js/units/ConditionUnit.js +37 -0
  128. package/dist/js/units/ExecutionUnit.d.ts +115 -0
  129. package/dist/js/units/ExecutionUnit.js +181 -0
  130. package/dist/js/units/ExecutionUnitInput.d.ts +22 -0
  131. package/dist/js/units/ExecutionUnitInput.js +47 -0
  132. package/dist/js/units/IOUnit.d.ts +16 -0
  133. package/dist/js/units/IOUnit.js +31 -0
  134. package/dist/js/units/MapUnit.d.ts +34 -0
  135. package/dist/js/units/MapUnit.js +46 -0
  136. package/dist/js/units/ReduceUnit.d.ts +16 -0
  137. package/dist/js/units/ReduceUnit.js +30 -0
  138. package/dist/js/units/SubworkflowUnit.d.ts +16 -0
  139. package/dist/js/units/SubworkflowUnit.js +28 -0
  140. package/dist/js/units/factory.d.ts +31 -0
  141. package/dist/js/units/factory.js +65 -47
  142. package/dist/js/units/index.d.ts +14 -0
  143. package/dist/js/units/index.js +25 -81
  144. package/dist/js/units/mixins/RuntimeItemsUILogicMixin.d.ts +26 -0
  145. package/dist/js/units/mixins/RuntimeItemsUILogicMixin.js +50 -0
  146. package/dist/js/utils/baseUnits.d.ts +2 -0
  147. package/dist/js/utils/baseUnits.js +11 -0
  148. package/dist/js/utils/index.d.ts +3 -0
  149. package/dist/js/utils/index.js +39 -0
  150. package/dist/js/utils/subworkflow.d.ts +2 -0
  151. package/dist/js/utils/subworkflow.js +29 -0
  152. package/dist/js/utils/underscoreStringSlugify.d.ts +6 -0
  153. package/dist/js/utils/underscoreStringSlugify.js +32 -0
  154. package/dist/js/utils/units.d.ts +4 -0
  155. package/dist/js/utils/units.js +16 -0
  156. package/dist/js/utils/workflow.d.ts +9 -0
  157. package/dist/js/utils/workflow.js +67 -0
  158. package/dist/js/utils.js +2 -7
  159. package/dist/js/workflows/default.d.ts +3 -0
  160. package/dist/js/workflows/default.js +43 -39
  161. package/dist/js/workflows/workflow.d.ts +4404 -0
  162. package/dist/js/workflows/workflow.js +310 -306
  163. package/package.json +56 -44
  164. package/src/js/Subworkflow.ts +532 -0
  165. package/src/js/Workflow.ts +390 -0
  166. package/src/js/context/mixins/ApplicationContextMixin.ts +21 -0
  167. package/src/js/context/mixins/MaterialContextMixin.ts +35 -0
  168. package/src/js/context/mixins/MaterialsContextMixin.ts +24 -0
  169. package/src/js/context/mixins/MaterialsSetContextMixin.ts +42 -0
  170. package/src/js/context/providers/BoundaryConditionsFormDataManager.ts +88 -0
  171. package/src/js/context/providers/CollinearMagnetizationDataManager.ts +140 -0
  172. package/src/js/context/providers/Hubbard/HubbardContextManagerLegacy.ts +93 -0
  173. package/src/js/context/providers/Hubbard/HubbardContextProvider.ts +85 -0
  174. package/src/js/context/providers/Hubbard/HubbardJContextManager.ts +82 -0
  175. package/src/js/context/providers/Hubbard/HubbardUContextManager.ts +78 -0
  176. package/src/js/context/providers/Hubbard/HubbardVContextManager.ts +100 -0
  177. package/src/js/context/providers/IonDynamicsDataManager.ts +64 -0
  178. package/src/js/context/providers/MLSettingsDataManager.ts +61 -0
  179. package/src/js/context/providers/MLTrainTestSplitDataManager.ts +59 -0
  180. package/src/js/context/providers/NEBFormDataManager.ts +57 -0
  181. package/src/js/context/providers/NonCollinearMagnetizationDataManager.ts +229 -0
  182. package/src/js/context/providers/PlanewaveCutoffDataManager.ts +110 -0
  183. package/src/js/context/providers/PointsGrid/IGridFormDataManager.ts +36 -0
  184. package/src/js/context/providers/PointsGrid/KGridFormDataManager.ts +46 -0
  185. package/src/js/context/providers/PointsGrid/PointsGridFormDataProvider.ts +371 -0
  186. package/src/js/context/providers/PointsGrid/QGridFormDataManager.ts +36 -0
  187. package/src/js/context/providers/PointsPath/ExplicitKPath2PIBAFormDataManager.ts +26 -0
  188. package/src/js/context/providers/PointsPath/ExplicitKPathFormDataManager.ts +24 -0
  189. package/src/js/context/providers/PointsPath/IPathFormDataManager.ts +22 -0
  190. package/src/js/context/providers/PointsPath/KPathFormDataManager.ts +22 -0
  191. package/src/js/context/providers/PointsPath/PointsPathFormDataProvider.ts +192 -0
  192. package/src/js/context/providers/PointsPath/QPathFormDataManager.ts +22 -0
  193. package/src/js/context/providers/base/ContextProvider.ts +150 -0
  194. package/src/js/context/providers/base/JSONSchemaDataProvider.ts +31 -0
  195. package/src/js/context/providers/base/JSONSchemaFormDataProvider.ts +38 -0
  196. package/src/js/context/providers/by_application/espresso/QENEBInputDataManager.ts +107 -0
  197. package/src/js/context/providers/by_application/espresso/QEPWXInputDataManager.ts +178 -0
  198. package/src/js/context/providers/by_application/nwchem/NWChemInputDataManager.ts +93 -0
  199. package/src/js/context/providers/by_application/vasp/VASPInputDataManager.ts +89 -0
  200. package/src/js/context/providers/by_application/vasp/VASPNEBInputDataManager.ts +92 -0
  201. package/src/js/context/providers/index.ts +155 -0
  202. package/src/js/context/providers/settings.ts +13 -0
  203. package/src/js/convergence/ConvergenceParameter.ts +37 -0
  204. package/src/js/convergence/NonUniformKGridConvergence.ts +38 -0
  205. package/src/js/convergence/UniformKGridConvergence.ts +26 -0
  206. package/src/js/convergence/factory.ts +18 -0
  207. package/src/js/{enums.js → enums.ts} +27 -22
  208. package/src/js/generated/AssertionUnitSchemaMixin.ts +34 -0
  209. package/src/js/generated/AssignmentUnitSchemaMixin.ts +40 -0
  210. package/src/js/generated/BaseUnitSchemaMixin.ts +64 -0
  211. package/src/js/generated/ConditionUnitSchemaMixin.ts +58 -0
  212. package/src/js/generated/ExecutionUnitInputSchemaMixin.ts +36 -0
  213. package/src/js/generated/ExecutionUnitSchemaMixin.ts +52 -0
  214. package/src/js/generated/IOUnitSchemaMixin.ts +40 -0
  215. package/src/js/generated/MapUnitSchemaMixin.ts +34 -0
  216. package/src/js/generated/ReduceUnitSchemaMixin.ts +34 -0
  217. package/src/js/generated/StatusSchemaMixin.ts +28 -0
  218. package/src/js/generated/SubworkflowSchemaMixin.ts +58 -0
  219. package/src/js/generated/SubworkflowUnitSchemaMixin.ts +22 -0
  220. package/src/js/generated/WorkflowSchemaMixin.ts +58 -0
  221. package/src/js/index.ts +44 -0
  222. package/src/js/units/AssertionUnit.ts +49 -0
  223. package/src/js/units/AssignmentUnit.ts +49 -0
  224. package/src/js/units/BaseUnit.ts +117 -0
  225. package/src/js/units/ConditionUnit.ts +52 -0
  226. package/src/js/units/ExecutionUnit.ts +274 -0
  227. package/src/js/units/ExecutionUnitInput.ts +71 -0
  228. package/src/js/units/IOUnit.ts +43 -0
  229. package/src/js/units/MapUnit.ts +59 -0
  230. package/src/js/units/ReduceUnit.ts +46 -0
  231. package/src/js/units/SubworkflowUnit.ts +44 -0
  232. package/src/js/units/factory.ts +131 -0
  233. package/src/js/units/index.ts +27 -0
  234. package/src/js/units/mixins/RuntimeItemsUILogicMixin.ts +81 -0
  235. package/src/js/utils/baseUnits.ts +11 -0
  236. package/src/js/utils/index.ts +3 -0
  237. package/src/js/utils/units.ts +23 -0
  238. package/src/js/utils/workflow.ts +69 -0
  239. package/src/js/workflows/{default.js → default.ts} +8 -1
  240. package/build_workflows.js +0 -65
  241. package/dist/js/context/context.js +0 -49
  242. package/dist/js/context/mixins/JobContextMixin.js +0 -39
  243. package/dist/js/context/mixins/MethodDataContextMixin.js +0 -48
  244. package/dist/js/context/mixins/WorkflowContextMixin.js +0 -28
  245. package/dist/js/context/providers/BoundaryConditionsFormDataProvider.js +0 -84
  246. package/dist/js/context/providers/CollinearMagnetizationContextProvider.js +0 -96
  247. package/dist/js/context/providers/HubbardContextProviderLegacy.js +0 -68
  248. package/dist/js/context/providers/HubbardJContextProvider.js +0 -67
  249. package/dist/js/context/providers/HubbardUContextProvider.js +0 -70
  250. package/dist/js/context/providers/HubbardVContextProvider.js +0 -92
  251. package/dist/js/context/providers/IonDynamicsContextProvider.js +0 -58
  252. package/dist/js/context/providers/MLSettingsContextProvider.js +0 -51
  253. package/dist/js/context/providers/MLTrainTestSplitContextProvider.js +0 -47
  254. package/dist/js/context/providers/NEBFormDataProvider.js +0 -42
  255. package/dist/js/context/providers/NonCollinearMagnetizationContextProvider.js +0 -187
  256. package/dist/js/context/providers/PlanewaveCutoffsContextProvider.js +0 -67
  257. package/dist/js/context/providers/PointsGridFormDataProvider.js +0 -263
  258. package/dist/js/context/providers/PointsPathFormDataProvider.js +0 -147
  259. package/dist/js/context/providers/by_application/ExecutableContextProvider.js +0 -25
  260. package/dist/js/context/providers/by_application/espresso/QENEBContextProvider.js +0 -61
  261. package/dist/js/context/providers/by_application/espresso/QEPWXContextProvider.js +0 -150
  262. package/dist/js/context/providers/by_application/nwchem/NWChemTotalEnergyContextProvider.js +0 -85
  263. package/dist/js/context/providers/by_application/vasp/VASPContextProvider.js +0 -65
  264. package/dist/js/context/providers/by_application/vasp/VASPNEBContextProvider.js +0 -57
  265. package/dist/js/context/providers.js +0 -199
  266. package/dist/js/patch.js +0 -19
  267. package/dist/js/subworkflows/convergence/non_uniform_kgrid.js +0 -31
  268. package/dist/js/subworkflows/convergence/parameter.js +0 -70
  269. package/dist/js/subworkflows/convergence/uniform_kgrid.js +0 -26
  270. package/dist/js/subworkflows/convergence.js +0 -189
  271. package/dist/js/subworkflows/create.js +0 -293
  272. package/dist/js/subworkflows/dynamic/espresso/getQpointIrrep.js +0 -34
  273. package/dist/js/subworkflows/dynamic/index.js +0 -19
  274. package/dist/js/subworkflows/dynamic/surfaceEnergy.js +0 -67
  275. package/dist/js/subworkflows/index.js +0 -19
  276. package/dist/js/units/assertion.js +0 -37
  277. package/dist/js/units/assignment.js +0 -42
  278. package/dist/js/units/base.js +0 -91
  279. package/dist/js/units/builders/AssertionUnitConfigBuilder.js +0 -34
  280. package/dist/js/units/builders/AssignmentUnitConfigBuilder.js +0 -41
  281. package/dist/js/units/builders/ExecutionUnitConfigBuilder.js +0 -67
  282. package/dist/js/units/builders/IOUnitConfigBuilder.js +0 -54
  283. package/dist/js/units/builders/UnitConfigBuilder.js +0 -85
  284. package/dist/js/units/builders/index.js +0 -18
  285. package/dist/js/units/condition.js +0 -52
  286. package/dist/js/units/execution.js +0 -225
  287. package/dist/js/units/io.js +0 -148
  288. package/dist/js/units/map.js +0 -38
  289. package/dist/js/units/processing.js +0 -41
  290. package/dist/js/units/reduce.js +0 -24
  291. package/dist/js/units/subworkflow.js +0 -23
  292. package/dist/js/workflows/create.js +0 -318
  293. package/dist/js/workflows/index.js +0 -113
  294. package/dist/js/workflows/relaxation.js +0 -38
  295. package/src/js/context/context.js +0 -47
  296. package/src/js/context/mixins/ApplicationContextMixin.js +0 -19
  297. package/src/js/context/mixins/JobContextMixin.js +0 -36
  298. package/src/js/context/mixins/MaterialContextMixin.js +0 -41
  299. package/src/js/context/mixins/MaterialsContextMixin.js +0 -18
  300. package/src/js/context/mixins/MaterialsSetContextMixin.js +0 -24
  301. package/src/js/context/mixins/MethodDataContextMixin.js +0 -48
  302. package/src/js/context/mixins/WorkflowContextMixin.js +0 -25
  303. package/src/js/context/providers/BoundaryConditionsFormDataProvider.js +0 -72
  304. package/src/js/context/providers/CollinearMagnetizationContextProvider.js +0 -105
  305. package/src/js/context/providers/HubbardContextProviderLegacy.js +0 -67
  306. package/src/js/context/providers/HubbardJContextProvider.js +0 -65
  307. package/src/js/context/providers/HubbardUContextProvider.js +0 -95
  308. package/src/js/context/providers/HubbardVContextProvider.js +0 -96
  309. package/src/js/context/providers/IonDynamicsContextProvider.js +0 -44
  310. package/src/js/context/providers/MLSettingsContextProvider.js +0 -45
  311. package/src/js/context/providers/MLTrainTestSplitContextProvider.js +0 -43
  312. package/src/js/context/providers/NEBFormDataProvider.js +0 -33
  313. package/src/js/context/providers/NonCollinearMagnetizationContextProvider.js +0 -179
  314. package/src/js/context/providers/PlanewaveCutoffsContextProvider.js +0 -65
  315. package/src/js/context/providers/PointsGridFormDataProvider.js +0 -271
  316. package/src/js/context/providers/PointsPathFormDataProvider.js +0 -163
  317. package/src/js/context/providers/by_application/ExecutableContextProvider.js +0 -17
  318. package/src/js/context/providers/by_application/espresso/QENEBContextProvider.js +0 -58
  319. package/src/js/context/providers/by_application/espresso/QEPWXContextProvider.js +0 -168
  320. package/src/js/context/providers/by_application/nwchem/NWChemTotalEnergyContextProvider.js +0 -89
  321. package/src/js/context/providers/by_application/vasp/VASPContextProvider.js +0 -58
  322. package/src/js/context/providers/by_application/vasp/VASPNEBContextProvider.js +0 -48
  323. package/src/js/context/providers/settings.js +0 -38
  324. package/src/js/context/providers.js +0 -140
  325. package/src/js/index.js +0 -57
  326. package/src/js/patch.js +0 -12
  327. package/src/js/subworkflows/convergence/enums.js +0 -12
  328. package/src/js/subworkflows/convergence/factory.js +0 -15
  329. package/src/js/subworkflows/convergence/non_uniform_kgrid.js +0 -28
  330. package/src/js/subworkflows/convergence/parameter.js +0 -58
  331. package/src/js/subworkflows/convergence/uniform_kgrid.js +0 -22
  332. package/src/js/subworkflows/convergence.js +0 -196
  333. package/src/js/subworkflows/create.js +0 -220
  334. package/src/js/subworkflows/dynamic/espresso/getQpointIrrep.js +0 -35
  335. package/src/js/subworkflows/dynamic/index.js +0 -8
  336. package/src/js/subworkflows/dynamic/surfaceEnergy.js +0 -124
  337. package/src/js/subworkflows/index.js +0 -2
  338. package/src/js/subworkflows/subworkflow.js +0 -345
  339. package/src/js/units/assertion.js +0 -29
  340. package/src/js/units/assignment.js +0 -34
  341. package/src/js/units/base.js +0 -97
  342. package/src/js/units/builders/AssertionUnitConfigBuilder.js +0 -28
  343. package/src/js/units/builders/AssignmentUnitConfigBuilder.js +0 -36
  344. package/src/js/units/builders/ExecutionUnitConfigBuilder.js +0 -59
  345. package/src/js/units/builders/IOUnitConfigBuilder.js +0 -53
  346. package/src/js/units/builders/UnitConfigBuilder.js +0 -92
  347. package/src/js/units/builders/index.js +0 -15
  348. package/src/js/units/condition.js +0 -47
  349. package/src/js/units/execution.js +0 -267
  350. package/src/js/units/factory.js +0 -53
  351. package/src/js/units/index.js +0 -25
  352. package/src/js/units/io.js +0 -163
  353. package/src/js/units/map.js +0 -33
  354. package/src/js/units/processing.js +0 -39
  355. package/src/js/units/reduce.js +0 -17
  356. package/src/js/units/subworkflow.js +0 -15
  357. package/src/js/utils.js +0 -73
  358. package/src/js/workflows/create.js +0 -227
  359. package/src/js/workflows/index.js +0 -98
  360. package/src/js/workflows/relaxation.js +0 -42
  361. package/src/js/workflows/workflow.js +0 -388
@@ -1,61 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.default = void 0;
7
- var _lodash = _interopRequireDefault(require("lodash"));
8
- var _JobContextMixin = require("../../../mixins/JobContextMixin");
9
- var _MaterialContextMixin = require("../../../mixins/MaterialContextMixin");
10
- var _MaterialsContextMixin = require("../../../mixins/MaterialsContextMixin");
11
- var _MaterialsSetContextMixin = require("../../../mixins/MaterialsSetContextMixin");
12
- var _MethodDataContextMixin = require("../../../mixins/MethodDataContextMixin");
13
- var _WorkflowContextMixin = require("../../../mixins/WorkflowContextMixin");
14
- var _ExecutableContextProvider = _interopRequireDefault(require("../ExecutableContextProvider"));
15
- var _QEPWXContextProvider = _interopRequireDefault(require("./QEPWXContextProvider"));
16
- function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
17
- function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
18
- function _toPropertyKey(t) { var i = _toPrimitive(t, "string"); return "symbol" == typeof i ? i : i + ""; }
19
- function _toPrimitive(t, r) { if ("object" != typeof t || !t) return t; var e = t[Symbol.toPrimitive]; if (void 0 !== e) { var i = e.call(t, r || "default"); if ("object" != typeof i) return i; throw new TypeError("@@toPrimitive must return a primitive value."); } return ("string" === r ? String : Number)(t); }
20
- class QENEBContextProvider extends _ExecutableContextProvider.default {
21
- constructor(config) {
22
- super(config);
23
- _defineProperty(this, "jsonSchemaId", "context-providers-directory/by-application/qe-neb-context-provider");
24
- _defineProperty(this, "_material", undefined);
25
- _defineProperty(this, "_materials", []);
26
- _defineProperty(this, "_materialsSet", undefined);
27
- this.initJobContextMixin();
28
- this.initMaterialsContextMixin();
29
- this.initMethodDataContextMixin();
30
- this.initWorkflowContextMixin();
31
- this.initMaterialContextMixin();
32
- this.initMaterialsSetContextMixin();
33
- }
34
- getData() {
35
- const sortedMaterials = this.sortMaterialsByIndexInSet(this.materials);
36
- const PWXContexts = sortedMaterials.map(material => {
37
- const context = {
38
- ...this.config.context,
39
- material
40
- };
41
- const config = {
42
- ...this.config,
43
- context
44
- };
45
- return new _QEPWXContextProvider.default(config).getData();
46
- });
47
- return {
48
- ..._lodash.default.omit(PWXContexts[0], ["ATOMIC_POSITIONS", "ATOMIC_POSITIONS_WITHOUT_CONSTRAINTS"]),
49
- FIRST_IMAGE: PWXContexts[0].ATOMIC_POSITIONS,
50
- LAST_IMAGE: PWXContexts[PWXContexts.length - 1].ATOMIC_POSITIONS,
51
- INTERMEDIATE_IMAGES: PWXContexts.slice(1, PWXContexts.length - 1).map(data => data.ATOMIC_POSITIONS)
52
- };
53
- }
54
- }
55
- exports.default = QENEBContextProvider;
56
- (0, _MaterialContextMixin.materialContextMixin)(QENEBContextProvider.prototype);
57
- (0, _MaterialsContextMixin.materialsContextMixin)(QENEBContextProvider.prototype);
58
- (0, _MethodDataContextMixin.methodDataContextMixin)(QENEBContextProvider.prototype);
59
- (0, _WorkflowContextMixin.workflowContextMixin)(QENEBContextProvider.prototype);
60
- (0, _JobContextMixin.jobContextMixin)(QENEBContextProvider.prototype);
61
- (0, _MaterialsSetContextMixin.materialsSetContextMixin)(QENEBContextProvider.prototype);
@@ -1,150 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.default = void 0;
7
- var _periodicTable = require("@exabyte-io/periodic-table.js");
8
- var _path = _interopRequireDefault(require("path"));
9
- var _underscore = _interopRequireDefault(require("underscore.string"));
10
- var _JobContextMixin = require("../../../mixins/JobContextMixin");
11
- var _MaterialContextMixin = require("../../../mixins/MaterialContextMixin");
12
- var _MaterialsContextMixin = require("../../../mixins/MaterialsContextMixin");
13
- var _MethodDataContextMixin = require("../../../mixins/MethodDataContextMixin");
14
- var _WorkflowContextMixin = require("../../../mixins/WorkflowContextMixin");
15
- var _ExecutableContextProvider = _interopRequireDefault(require("../ExecutableContextProvider"));
16
- function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
17
- function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
18
- function _toPropertyKey(t) { var i = _toPrimitive(t, "string"); return "symbol" == typeof i ? i : i + ""; }
19
- function _toPrimitive(t, r) { if ("object" != typeof t || !t) return t; var e = t[Symbol.toPrimitive]; if (void 0 !== e) { var i = e.call(t, r || "default"); if ("object" != typeof i) return i; throw new TypeError("@@toPrimitive must return a primitive value."); } return ("string" === r ? String : Number)(t); }
20
- class QEPWXContextProvider extends _ExecutableContextProvider.default {
21
- constructor(config) {
22
- super(config);
23
- _defineProperty(this, "jsonSchemaId", "context-providers-directory/by-application/qe-pwx-context-provider");
24
- _defineProperty(this, "_material", undefined);
25
- _defineProperty(this, "_materials", []);
26
- this.initMaterialsContextMixin();
27
- this.initMethodDataContextMixin();
28
- this.initWorkflowContextMixin();
29
- this.initJobContextMixin();
30
- this.initMaterialContextMixin();
31
- }
32
- static atomSymbols(material) {
33
- return material.Basis.uniqueElements;
34
- }
35
- static uniqueElementsWithLabels(material) {
36
- // return unique items
37
- return [...new Set(material.Basis.elementsWithLabelsArray)];
38
- }
39
-
40
- /** Returns the input text block for atomic positions WITH constraints.
41
- */
42
- static atomicPositionsWithConstraints(material) {
43
- return material.Basis.getAtomicPositionsWithConstraintsAsStrings().join("\n");
44
- }
45
-
46
- /** Returns the input text block for atomic positions
47
- * Note: does NOT include constraints
48
- */
49
- static atomicPositions(material) {
50
- return material.Basis.atomicPositions.join("\n");
51
- }
52
- static NAT(material) {
53
- return material.Basis.atomicPositions.length;
54
- }
55
- static NTYP(material) {
56
- return material.Basis.uniqueElements.length;
57
- }
58
- static NTYP_WITH_LABELS(material) {
59
- return this.uniqueElementsWithLabels(material).length;
60
- }
61
- buildQEPWXContext(material) {
62
- const IBRAV = 0; // use CELL_PARAMETERS to define Bravais lattice
63
-
64
- return {
65
- IBRAV,
66
- RESTART_MODE: this.RESTART_MODE,
67
- ATOMIC_SPECIES: this.ATOMIC_SPECIES(material),
68
- ATOMIC_SPECIES_WITH_LABELS: this.ATOMIC_SPECIES_WITH_LABELS(material),
69
- NAT: QEPWXContextProvider.NAT(material),
70
- NTYP: QEPWXContextProvider.NTYP(material),
71
- NTYP_WITH_LABELS: QEPWXContextProvider.NTYP_WITH_LABELS(material),
72
- ATOMIC_POSITIONS: QEPWXContextProvider.atomicPositionsWithConstraints(material),
73
- ATOMIC_POSITIONS_WITHOUT_CONSTRAINTS: QEPWXContextProvider.atomicPositions(material),
74
- CELL_PARAMETERS: QEPWXContextProvider.CELL_PARAMETERS(material)
75
- };
76
- }
77
- getDataPerMaterial() {
78
- if (!this.materials || this.materials.length <= 1) return {};
79
- return {
80
- perMaterial: this.materials.map(material => this.buildQEPWXContext(material))
81
- };
82
- }
83
-
84
- /*
85
- * @NOTE: Overriding getData makes this provider "stateless", ie. delivering data from scratch each time and not
86
- * considering the content of `this.data`, and `this.isEdited` field(s).
87
- */
88
- getData() {
89
- // the below values are read from PlanewaveDataManager instead
90
- // ECUTWFC = 40;
91
- // ECUTRHO = 200;
92
-
93
- return {
94
- ...this.buildQEPWXContext(this.material),
95
- ...this.getDataPerMaterial()
96
- };
97
- }
98
- get RESTART_MODE() {
99
- return this.job.parentJob || this.workflow.hasRelaxation ? "restart" : "from_scratch";
100
- }
101
- getPseudoBySymbol(symbol) {
102
- return (this.methodData.pseudo || []).find(p => p.element === symbol);
103
- }
104
-
105
- /** Builds ATOMIC SPECIES block of pw.x input in the format
106
- * X Mass_X PseudoPot_X
107
- * where X is the atom label
108
- * Mass_X is the mass of element X [amu]
109
- * PseudoPot_X is the pseudopotential filename associated with element X
110
- *
111
- * Note: assumes this.methodData is defined
112
- */
113
- ATOMIC_SPECIES(material) {
114
- return QEPWXContextProvider.atomSymbols(material).map(symbol => {
115
- const pseudo = this.getPseudoBySymbol(symbol);
116
- return QEPWXContextProvider.symbolToAtomicSpecie(symbol, pseudo);
117
- }).join("\n");
118
- }
119
- ATOMIC_SPECIES_WITH_LABELS(material) {
120
- return QEPWXContextProvider.uniqueElementsWithLabels(material).map(symbol => {
121
- const symbolWithoutLabel = symbol.replace(/\d$/, "");
122
- const label = symbol.match(/\d$/g) ? symbol.match(/\d$/g)?.[0] : "";
123
- const pseudo = this.getPseudoBySymbol(symbolWithoutLabel);
124
- return QEPWXContextProvider.elementAndPseudoToAtomicSpecieWithLabels(symbolWithoutLabel, pseudo, label);
125
- }).join("\n");
126
- }
127
- static CELL_PARAMETERS(material) {
128
- return material.Lattice.vectorArrays.map(x => {
129
- return x.map(y => {
130
- return _underscore.default.sprintf("%14.9f", y).trim();
131
- }).join(" ");
132
- }).join("\n");
133
- }
134
- static symbolToAtomicSpecie(symbol, pseudo) {
135
- const el = _periodicTable.PERIODIC_TABLE[symbol];
136
- const filename = pseudo?.filename || _path.default.basename(pseudo?.path || "");
137
- return _underscore.default.sprintf("%s %f %s", symbol, el.atomic_mass, filename) || "";
138
- }
139
- static elementAndPseudoToAtomicSpecieWithLabels(symbol, pseudo, label = "") {
140
- const el = _periodicTable.PERIODIC_TABLE[symbol];
141
- const filename = pseudo?.filename || _path.default.basename(pseudo?.path || "");
142
- return _underscore.default.sprintf("%s%s %f %s", symbol, label, el.atomic_mass, filename) || "";
143
- }
144
- }
145
- exports.default = QEPWXContextProvider;
146
- (0, _MaterialContextMixin.materialContextMixin)(QEPWXContextProvider.prototype);
147
- (0, _MaterialsContextMixin.materialsContextMixin)(QEPWXContextProvider.prototype);
148
- (0, _MethodDataContextMixin.methodDataContextMixin)(QEPWXContextProvider.prototype);
149
- (0, _WorkflowContextMixin.workflowContextMixin)(QEPWXContextProvider.prototype);
150
- (0, _JobContextMixin.jobContextMixin)(QEPWXContextProvider.prototype);
@@ -1,85 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.default = void 0;
7
- var _periodicTable = require("@exabyte-io/periodic-table.js");
8
- var _lodash = _interopRequireDefault(require("lodash"));
9
- var _underscore = _interopRequireDefault(require("underscore"));
10
- var _underscore2 = _interopRequireDefault(require("underscore.string"));
11
- var _JobContextMixin = require("../../../mixins/JobContextMixin");
12
- var _MaterialContextMixin = require("../../../mixins/MaterialContextMixin");
13
- var _MethodDataContextMixin = require("../../../mixins/MethodDataContextMixin");
14
- var _WorkflowContextMixin = require("../../../mixins/WorkflowContextMixin");
15
- var _ExecutableContextProvider = _interopRequireDefault(require("../ExecutableContextProvider"));
16
- function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
17
- function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
18
- function _toPropertyKey(t) { var i = _toPrimitive(t, "string"); return "symbol" == typeof i ? i : i + ""; }
19
- function _toPrimitive(t, r) { if ("object" != typeof t || !t) return t; var e = t[Symbol.toPrimitive]; if (void 0 !== e) { var i = e.call(t, r || "default"); if ("object" != typeof i) return i; throw new TypeError("@@toPrimitive must return a primitive value."); } return ("string" === r ? String : Number)(t); }
20
- class NWChemTotalEnergyContextProvider extends _ExecutableContextProvider.default {
21
- constructor(config) {
22
- super(config);
23
- _defineProperty(this, "jsonSchemaId", "context-providers-directory/by-application/nwchem-total-energy-context-provider");
24
- _defineProperty(this, "_material", undefined);
25
- this.initMethodDataContextMixin();
26
- this.initWorkflowContextMixin();
27
- this.initJobContextMixin();
28
- this.initMaterialContextMixin();
29
- }
30
- get atomicPositionsWithoutConstraints() {
31
- return this.material.Basis.atomicPositions;
32
- }
33
- get atomicPositions() {
34
- const basis = this.material.Basis;
35
- basis.toCartesian();
36
- return basis.getAtomicPositionsWithConstraintsAsStrings();
37
- }
38
- get atomSymbols() {
39
- return this.material.Basis.uniqueElements;
40
- }
41
- get cartesianAtomicPositions() {
42
- return this.material.Basis.toCartesian !== undefined;
43
- }
44
- get ATOMIC_SPECIES() {
45
- return _underscore.default.map(this.atomSymbols, symbol => {
46
- return NWChemTotalEnergyContextProvider.symbolToAtomicSpecies(symbol);
47
- }).join("\n");
48
- }
49
-
50
- /*
51
- * @NOTE: Overriding getData makes this provider "stateless", ie. delivering data from scratch each time and not
52
- * considering the content of `this.data`, and `this.isEdited` field(s).
53
- */
54
- getData() {
55
- /*
56
- TODO: Create ability for user to define CHARGE, MULT, BASIS and FUNCTIONAL parameters.
57
- */
58
- const CHARGE = 0;
59
- const MULT = 1;
60
- const BASIS = "6-31G";
61
- const FUNCTIONAL = "B3LYP";
62
- return {
63
- CHARGE,
64
- MULT,
65
- BASIS,
66
- NAT: this.atomicPositions.length,
67
- NTYP: this.atomSymbols.length,
68
- ATOMIC_POSITIONS: this.atomicPositions.join("\n"),
69
- ATOMIC_POSITIONS_WITHOUT_CONSTRAINTS: this.atomicPositionsWithoutConstraints.join("\n"),
70
- ATOMIC_SPECIES: this.ATOMIC_SPECIES,
71
- FUNCTIONAL,
72
- CARTESIAN: this.cartesianAtomicPositions
73
- };
74
- }
75
- static symbolToAtomicSpecies(symbol, pseudo) {
76
- const el = _periodicTable.PERIODIC_TABLE[symbol];
77
- const filename = pseudo ? _lodash.default.get(pseudo, "filename", _underscore2.default.strRightBack(pseudo.path || "", "/")) : "";
78
- return el ? _underscore2.default.sprintf("%s %f %s", symbol, el.atomic_mass, filename) : undefined;
79
- }
80
- }
81
- exports.default = NWChemTotalEnergyContextProvider;
82
- (0, _MaterialContextMixin.materialContextMixin)(NWChemTotalEnergyContextProvider.prototype);
83
- (0, _MethodDataContextMixin.methodDataContextMixin)(NWChemTotalEnergyContextProvider.prototype);
84
- (0, _WorkflowContextMixin.workflowContextMixin)(NWChemTotalEnergyContextProvider.prototype);
85
- (0, _JobContextMixin.jobContextMixin)(NWChemTotalEnergyContextProvider.prototype);
@@ -1,65 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.default = void 0;
7
- var _JobContextMixin = require("../../../mixins/JobContextMixin");
8
- var _MaterialContextMixin = require("../../../mixins/MaterialContextMixin");
9
- var _MaterialsContextMixin = require("../../../mixins/MaterialsContextMixin");
10
- var _MethodDataContextMixin = require("../../../mixins/MethodDataContextMixin");
11
- var _WorkflowContextMixin = require("../../../mixins/WorkflowContextMixin");
12
- var _ExecutableContextProvider = _interopRequireDefault(require("../ExecutableContextProvider"));
13
- function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
14
- function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
15
- function _toPropertyKey(t) { var i = _toPrimitive(t, "string"); return "symbol" == typeof i ? i : i + ""; }
16
- function _toPrimitive(t, r) { if ("object" != typeof t || !t) return t; var e = t[Symbol.toPrimitive]; if (void 0 !== e) { var i = e.call(t, r || "default"); if ("object" != typeof i) return i; throw new TypeError("@@toPrimitive must return a primitive value."); } return ("string" === r ? String : Number)(t); }
17
- class VASPContextProvider extends _ExecutableContextProvider.default {
18
- constructor(config) {
19
- super(config);
20
- _defineProperty(this, "jsonSchemaId", "context-providers-directory/by-application/vasp-context-provider");
21
- _defineProperty(this, "_material", undefined);
22
- _defineProperty(this, "_materials", []);
23
- this.initJobContextMixin();
24
- this.initMaterialsContextMixin();
25
- this.initMethodDataContextMixin();
26
- this.initWorkflowContextMixin();
27
- this.initMaterialContextMixin();
28
- }
29
-
30
- // eslint-disable-next-line class-methods-use-this
31
- buildVASPContext(material) {
32
- return {
33
- // TODO: figure out whether we need two separate POSCARS, maybe one is enough
34
- POSCAR: material.getAsPOSCAR(true, true),
35
- POSCAR_WITH_CONSTRAINTS: material.getAsPOSCAR(true)
36
- };
37
- }
38
- getDataPerMaterial() {
39
- if (!this.materials || this.materials.length <= 1) return {};
40
- return {
41
- perMaterial: this.materials.map(material => this.buildVASPContext(material))
42
- };
43
- }
44
-
45
- /*
46
- * @NOTE: Overriding getData makes this provider "stateless", ie. delivering data from scratch each time and not
47
- * considering the content of `this.data`, and `this.isEdited` field(s).
48
- */
49
- getData() {
50
- // consider adjusting so that below values are read from PlanewaveDataManager
51
- // ECUTWFC;
52
- // ECUTRHO;
53
-
54
- return {
55
- ...this.buildVASPContext(this.material),
56
- ...this.getDataPerMaterial()
57
- };
58
- }
59
- }
60
- exports.default = VASPContextProvider;
61
- (0, _MaterialContextMixin.materialContextMixin)(VASPContextProvider.prototype);
62
- (0, _MaterialsContextMixin.materialsContextMixin)(VASPContextProvider.prototype);
63
- (0, _MethodDataContextMixin.methodDataContextMixin)(VASPContextProvider.prototype);
64
- (0, _WorkflowContextMixin.workflowContextMixin)(VASPContextProvider.prototype);
65
- (0, _JobContextMixin.jobContextMixin)(VASPContextProvider.prototype);
@@ -1,57 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.default = void 0;
7
- var _JobContextMixin = require("../../../mixins/JobContextMixin");
8
- var _MaterialContextMixin = require("../../../mixins/MaterialContextMixin");
9
- var _MaterialsContextMixin = require("../../../mixins/MaterialsContextMixin");
10
- var _MaterialsSetContextMixin = require("../../../mixins/MaterialsSetContextMixin");
11
- var _MethodDataContextMixin = require("../../../mixins/MethodDataContextMixin");
12
- var _WorkflowContextMixin = require("../../../mixins/WorkflowContextMixin");
13
- var _ExecutableContextProvider = _interopRequireDefault(require("../ExecutableContextProvider"));
14
- var _VASPContextProvider = _interopRequireDefault(require("./VASPContextProvider"));
15
- function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
16
- function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
17
- function _toPropertyKey(t) { var i = _toPrimitive(t, "string"); return "symbol" == typeof i ? i : i + ""; }
18
- function _toPrimitive(t, r) { if ("object" != typeof t || !t) return t; var e = t[Symbol.toPrimitive]; if (void 0 !== e) { var i = e.call(t, r || "default"); if ("object" != typeof i) return i; throw new TypeError("@@toPrimitive must return a primitive value."); } return ("string" === r ? String : Number)(t); }
19
- class VASPNEBContextProvider extends _ExecutableContextProvider.default {
20
- constructor(config) {
21
- super(config);
22
- _defineProperty(this, "jsonSchemaId", "context-providers-directory/by-application/vasp-neb-context-provider");
23
- _defineProperty(this, "_materials", []);
24
- this.initMaterialContextMixin();
25
- this.initMaterialsContextMixin();
26
- this.initMaterialsSetContextMixin();
27
- this.initMethodDataContextMixin();
28
- this.initWorkflowContextMixin();
29
- this.initJobContextMixin();
30
- }
31
- getData() {
32
- const sortedMaterials = this.sortMaterialsByIndexInSet(this.materials);
33
- const VASPContexts = sortedMaterials.map(material => {
34
- const context = {
35
- ...this.config.context,
36
- material
37
- };
38
- const config = {
39
- ...this.config,
40
- context
41
- };
42
- return new _VASPContextProvider.default(config).getData();
43
- });
44
- return {
45
- FIRST_IMAGE: VASPContexts[0].POSCAR_WITH_CONSTRAINTS,
46
- LAST_IMAGE: VASPContexts[VASPContexts.length - 1].POSCAR_WITH_CONSTRAINTS,
47
- INTERMEDIATE_IMAGES: VASPContexts.slice(1, VASPContexts.length - 1).map(data => data.POSCAR_WITH_CONSTRAINTS)
48
- };
49
- }
50
- }
51
- exports.default = VASPNEBContextProvider;
52
- (0, _MaterialContextMixin.materialContextMixin)(VASPNEBContextProvider.prototype);
53
- (0, _MaterialsContextMixin.materialsContextMixin)(VASPNEBContextProvider.prototype);
54
- (0, _MaterialsSetContextMixin.materialsSetContextMixin)(VASPNEBContextProvider.prototype);
55
- (0, _MethodDataContextMixin.methodDataContextMixin)(VASPNEBContextProvider.prototype);
56
- (0, _WorkflowContextMixin.workflowContextMixin)(VASPNEBContextProvider.prototype);
57
- (0, _JobContextMixin.jobContextMixin)(VASPNEBContextProvider.prototype);
@@ -1,199 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.wodeProviders = void 0;
7
- var _context = _interopRequireDefault(require("./context"));
8
- function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
9
- const {
10
- BoundaryConditionsFormDataProvider,
11
- MLSettingsContextProvider,
12
- MLTrainTestSplitContextProvider,
13
- NEBFormDataProvider,
14
- PlanewaveCutoffsContextProvider,
15
- PointsGridFormDataProvider,
16
- PointsPathFormDataProvider,
17
- ExplicitPointsPathFormDataProvider,
18
- ExplicitPointsPath2PIBAFormDataProvider,
19
- HubbardJContextProvider,
20
- HubbardUContextProvider,
21
- HubbardVContextProvider,
22
- HubbardContextProviderLegacy,
23
- IonDynamicsContextProvider,
24
- CollinearMagnetizationContextProvider,
25
- NonCollinearMagnetizationContextProvider,
26
- VASPContextProvider,
27
- VASPNEBContextProvider,
28
- QEPWXContextProvider,
29
- QENEBContextProvider,
30
- NWChemTotalEnergyContextProvider
31
- } = _context.default;
32
- const CONTEXT_DOMAINS = {
33
- important: "important" // used to generate `ImportantSettings` form
34
- };
35
- const _makeImportant = config => Object.assign(config, {
36
- domain: CONTEXT_DOMAINS.important
37
- });
38
-
39
- /** ********************************
40
- * Method-based context providers *
41
- ********************************* */
42
-
43
- const wodeProviders = exports.wodeProviders = {
44
- // NOTE: subworkflow-level data manager. Will override the unit-level data with the same name via subworkflow context.
45
- PlanewaveCutoffDataManager: {
46
- providerCls: PlanewaveCutoffsContextProvider,
47
- config: _makeImportant({
48
- name: "cutoffs",
49
- entityName: "subworkflow"
50
- })
51
- },
52
- KGridFormDataManager: {
53
- providerCls: PointsGridFormDataProvider,
54
- config: _makeImportant({
55
- name: "kgrid"
56
- })
57
- },
58
- QGridFormDataManager: {
59
- providerCls: PointsGridFormDataProvider,
60
- config: _makeImportant({
61
- name: "qgrid",
62
- divisor: 5
63
- }) // Using less points for Qgrid by default
64
- },
65
- IGridFormDataManager: {
66
- providerCls: PointsGridFormDataProvider,
67
- config: _makeImportant({
68
- name: "igrid",
69
- divisor: 0.2
70
- }) // Using more points for interpolated grid by default
71
- },
72
- QPathFormDataManager: {
73
- providerCls: PointsPathFormDataProvider,
74
- config: _makeImportant({
75
- name: "qpath"
76
- })
77
- },
78
- IPathFormDataManager: {
79
- providerCls: PointsPathFormDataProvider,
80
- config: _makeImportant({
81
- name: "ipath"
82
- })
83
- },
84
- KPathFormDataManager: {
85
- providerCls: PointsPathFormDataProvider,
86
- config: _makeImportant({
87
- name: "kpath"
88
- })
89
- },
90
- ExplicitKPathFormDataManager: {
91
- providerCls: ExplicitPointsPathFormDataProvider,
92
- config: _makeImportant({
93
- name: "explicitKPath"
94
- })
95
- },
96
- ExplicitKPath2PIBAFormDataManager: {
97
- providerCls: ExplicitPointsPath2PIBAFormDataProvider,
98
- config: _makeImportant({
99
- name: "explicitKPath2PIBA"
100
- })
101
- },
102
- HubbardJContextManager: {
103
- providerCls: HubbardJContextProvider,
104
- config: _makeImportant({
105
- name: "hubbard_j"
106
- })
107
- },
108
- HubbardUContextManager: {
109
- providerCls: HubbardUContextProvider,
110
- config: _makeImportant({
111
- name: "hubbard_u"
112
- })
113
- },
114
- HubbardVContextManager: {
115
- providerCls: HubbardVContextProvider,
116
- config: _makeImportant({
117
- name: "hubbard_v"
118
- })
119
- },
120
- HubbardContextManagerLegacy: {
121
- providerCls: HubbardContextProviderLegacy,
122
- config: _makeImportant({
123
- name: "hubbard_legacy"
124
- })
125
- },
126
- // NEBFormDataManager context is stored under the same key (`input`) as InputDataManager contexts.
127
- NEBFormDataManager: {
128
- providerCls: NEBFormDataProvider,
129
- config: _makeImportant({
130
- name: "neb"
131
- })
132
- },
133
- BoundaryConditionsFormDataManager: {
134
- providerCls: BoundaryConditionsFormDataProvider,
135
- config: _makeImportant({
136
- name: "boundaryConditions"
137
- })
138
- },
139
- MLSettingsDataManager: {
140
- providerCls: MLSettingsContextProvider,
141
- config: _makeImportant({
142
- name: "mlSettings"
143
- })
144
- },
145
- MLTrainTestSplitDataManager: {
146
- providerCls: MLTrainTestSplitContextProvider,
147
- config: _makeImportant({
148
- name: "mlTrainTestSplit"
149
- })
150
- },
151
- IonDynamicsContextProvider: {
152
- providerCls: IonDynamicsContextProvider,
153
- config: _makeImportant({
154
- name: "dynamics"
155
- })
156
- },
157
- CollinearMagnetizationDataManager: {
158
- providerCls: CollinearMagnetizationContextProvider,
159
- config: _makeImportant({
160
- name: "collinearMagnetization"
161
- })
162
- },
163
- NonCollinearMagnetizationDataManager: {
164
- providerCls: NonCollinearMagnetizationContextProvider,
165
- config: _makeImportant({
166
- name: "nonCollinearMagnetization"
167
- })
168
- },
169
- QEPWXInputDataManager: {
170
- providerCls: QEPWXContextProvider,
171
- config: {
172
- name: "input"
173
- }
174
- },
175
- QENEBInputDataManager: {
176
- providerCls: QENEBContextProvider,
177
- config: {
178
- name: "input"
179
- }
180
- },
181
- VASPInputDataManager: {
182
- providerCls: VASPContextProvider,
183
- config: {
184
- name: "input"
185
- }
186
- },
187
- VASPNEBInputDataManager: {
188
- providerCls: VASPNEBContextProvider,
189
- config: {
190
- name: "input"
191
- }
192
- },
193
- NWChemInputDataManager: {
194
- providerCls: NWChemTotalEnergyContextProvider,
195
- config: {
196
- name: "input"
197
- }
198
- }
199
- };
package/dist/js/patch.js DELETED
@@ -1,19 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- Object.defineProperty(exports, "Template", {
7
- enumerable: true,
8
- get: function () {
9
- return _ade.Template;
10
- }
11
- });
12
- var _ade = require("@mat3ra/ade");
13
- var _providers = require("./context/providers");
14
- // We patch the static providerRegistry here so that
15
- // Template has all context providers available
16
- // to it when creating workflows. It is then re-exported
17
- // from WoDe for use downstream.
18
-
19
- _ade.Template.setContextProvidersConfig(_providers.wodeProviders);
@@ -1,31 +0,0 @@
1
- "use strict";
2
-
3
- Object.defineProperty(exports, "__esModule", {
4
- value: true
5
- });
6
- exports.NonUniformKGridConvergence = void 0;
7
- var _parameter = require("./parameter");
8
- class NonUniformKGridConvergence extends _parameter.ConvergenceParameter {
9
- get increment() {
10
- return `[${this.initialValue}[i] + math.floor(iteration * ${this._increment} * float(context['kgrid']['reciprocalVectorRatios'][i])) for i in range(3)]`;
11
- }
12
- get unitContext() {
13
- return {
14
- kgrid: {
15
- dimensions: [`{{${this.name}[0]}}`, `{{${this.name}[1]}}`, `{{${this.name}[2]}}`],
16
- shifts: [0, 0, 0]
17
- },
18
- isKgridEdited: true,
19
- isUsingJinjaVariables: true
20
- };
21
- }
22
-
23
- // eslint-disable-next-line class-methods-use-this
24
- useVariablesFromUnitContext(flowchartId) {
25
- return [{
26
- scope: flowchartId,
27
- name: "context"
28
- }];
29
- }
30
- }
31
- exports.NonUniformKGridConvergence = NonUniformKGridConvergence;