matterviz 0.3.4 → 0.3.6

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 (852) hide show
  1. package/.vscode/launch.json +13 -0
  2. package/.vscodeignore +7 -0
  3. package/dist/assets/STLExporter-BpTH3YHE.js +8 -0
  4. package/dist/assets/browser-DdDecX_W.js +1 -0
  5. package/dist/assets/export-qgn-H9y6.js +2 -0
  6. package/dist/assets/main-DiKYzti2.css +1 -0
  7. package/dist/assets/moyo_wasm_bg-0ocwg7xY.wasm +0 -0
  8. package/dist/extension.js +31293 -0
  9. package/dist/src/lib/FilePicker.svelte +360 -0
  10. package/dist/src/lib/MillerIndexInput.svelte +66 -0
  11. package/dist/src/lib/api/mp.ts +26 -0
  12. package/dist/src/lib/api/optimade.ts +204 -0
  13. package/dist/src/lib/app.css +247 -0
  14. package/dist/src/lib/brillouin/BrillouinZone.svelte +549 -0
  15. package/dist/src/lib/brillouin/BrillouinZoneControls.svelte +144 -0
  16. package/dist/src/lib/brillouin/BrillouinZoneExportPane.svelte +146 -0
  17. package/dist/src/lib/brillouin/BrillouinZoneInfoPane.svelte +146 -0
  18. package/dist/src/lib/brillouin/BrillouinZoneScene.svelte +476 -0
  19. package/dist/src/lib/brillouin/BrillouinZoneTooltip.svelte +92 -0
  20. package/dist/src/lib/brillouin/compute.ts +529 -0
  21. package/dist/src/lib/brillouin/index.ts +8 -0
  22. package/dist/src/lib/brillouin/types.ts +51 -0
  23. package/dist/src/lib/chempot-diagram/ChemPotDiagram.svelte +327 -0
  24. package/dist/src/lib/chempot-diagram/ChemPotDiagram2D.svelte +846 -0
  25. package/dist/src/lib/chempot-diagram/ChemPotDiagram3D.svelte +3193 -0
  26. package/dist/src/lib/chempot-diagram/async-compute.svelte.ts +94 -0
  27. package/dist/src/lib/chempot-diagram/chempot-worker.ts +11 -0
  28. package/dist/src/lib/chempot-diagram/color.ts +42 -0
  29. package/dist/src/lib/chempot-diagram/compute.ts +1014 -0
  30. package/dist/src/lib/chempot-diagram/index.ts +6 -0
  31. package/dist/src/lib/chempot-diagram/pointer.ts +56 -0
  32. package/dist/src/lib/chempot-diagram/temperature.ts +77 -0
  33. package/dist/src/lib/chempot-diagram/types.ts +130 -0
  34. package/dist/src/lib/colors/index.ts +249 -0
  35. package/dist/src/lib/composition/BarChart.svelte +297 -0
  36. package/dist/src/lib/composition/BubbleChart.svelte +218 -0
  37. package/dist/src/lib/composition/Composition.svelte +165 -0
  38. package/dist/src/lib/composition/Formula.svelte +268 -0
  39. package/dist/src/lib/composition/FormulaFilter.svelte +1257 -0
  40. package/dist/src/lib/composition/PieChart.svelte +323 -0
  41. package/dist/src/lib/composition/format.ts +155 -0
  42. package/dist/src/lib/composition/index.ts +37 -0
  43. package/dist/src/lib/composition/parse.ts +605 -0
  44. package/dist/src/lib/constants.ts +134 -0
  45. package/dist/src/lib/controls.ts +42 -0
  46. package/dist/src/lib/convex-hull/ConvexHull.svelte +157 -0
  47. package/dist/src/lib/convex-hull/ConvexHull2D.svelte +825 -0
  48. package/dist/src/lib/convex-hull/ConvexHull3D.svelte +1801 -0
  49. package/dist/src/lib/convex-hull/ConvexHull4D.svelte +1398 -0
  50. package/dist/src/lib/convex-hull/ConvexHullControls.svelte +535 -0
  51. package/dist/src/lib/convex-hull/ConvexHullInfoPane.svelte +125 -0
  52. package/dist/src/lib/convex-hull/ConvexHullStats.svelte +929 -0
  53. package/dist/src/lib/convex-hull/ConvexHullTooltip.svelte +131 -0
  54. package/dist/src/lib/convex-hull/GasPressureControls.svelte +247 -0
  55. package/dist/src/lib/convex-hull/StructurePopup.svelte +151 -0
  56. package/dist/src/lib/convex-hull/TemperatureSlider.svelte +140 -0
  57. package/dist/src/lib/convex-hull/barycentric-coords.ts +246 -0
  58. package/dist/src/lib/convex-hull/demo-temperature.ts +63 -0
  59. package/dist/src/lib/convex-hull/gas-thermodynamics.ts +405 -0
  60. package/dist/src/lib/convex-hull/helpers.ts +932 -0
  61. package/dist/src/lib/convex-hull/index.ts +202 -0
  62. package/dist/src/lib/convex-hull/thermodynamics.ts +2192 -0
  63. package/dist/src/lib/convex-hull/types.ts +267 -0
  64. package/dist/src/lib/coordination/CoordinationBarPlot.svelte +311 -0
  65. package/dist/src/lib/coordination/calc-coordination.ts +93 -0
  66. package/dist/src/lib/coordination/index.ts +9 -0
  67. package/dist/src/lib/effects.svelte.ts +48 -0
  68. package/dist/src/lib/element/BohrAtom.svelte +147 -0
  69. package/dist/src/lib/element/ElementHeading.svelte +26 -0
  70. package/dist/src/lib/element/ElementPhoto.svelte +57 -0
  71. package/dist/src/lib/element/ElementStats.svelte +80 -0
  72. package/dist/src/lib/element/ElementTile.svelte +484 -0
  73. package/dist/src/lib/element/data.json.gz.d.ts +4 -0
  74. package/dist/src/lib/element/data.ts +14 -0
  75. package/dist/src/lib/element/index.ts +8 -0
  76. package/dist/src/lib/element/types.ts +62 -0
  77. package/dist/src/lib/feedback/ClickFeedback.svelte +58 -0
  78. package/dist/src/lib/feedback/DragOverlay.svelte +42 -0
  79. package/dist/src/lib/feedback/index.ts +4 -0
  80. package/dist/src/lib/fermi-surface/FermiSlice.svelte +189 -0
  81. package/dist/src/lib/fermi-surface/FermiSurface.svelte +600 -0
  82. package/dist/src/lib/fermi-surface/FermiSurfaceControls.svelte +448 -0
  83. package/dist/src/lib/fermi-surface/FermiSurfaceScene.svelte +794 -0
  84. package/dist/src/lib/fermi-surface/FermiSurfaceTooltip.svelte +111 -0
  85. package/dist/src/lib/fermi-surface/compute.ts +728 -0
  86. package/dist/src/lib/fermi-surface/constants.ts +32 -0
  87. package/dist/src/lib/fermi-surface/export.ts +64 -0
  88. package/dist/src/lib/fermi-surface/index.ts +14 -0
  89. package/dist/src/lib/fermi-surface/marching-cubes.ts +3 -0
  90. package/dist/src/lib/fermi-surface/parse.ts +574 -0
  91. package/dist/src/lib/fermi-surface/symmetry.ts +56 -0
  92. package/dist/src/lib/fermi-surface/types.ts +159 -0
  93. package/dist/src/lib/heatmap-matrix/HeatmapMatrix.svelte +1545 -0
  94. package/dist/src/lib/heatmap-matrix/HeatmapMatrixControls.svelte +225 -0
  95. package/dist/src/lib/heatmap-matrix/index.ts +167 -0
  96. package/dist/src/lib/heatmap-matrix/shared.ts +7 -0
  97. package/dist/src/lib/icons.ts +650 -0
  98. package/dist/src/lib/index.ts +61 -0
  99. package/dist/src/lib/io/decompress.ts +92 -0
  100. package/dist/src/lib/io/export.ts +385 -0
  101. package/dist/src/lib/io/fetch.ts +46 -0
  102. package/dist/src/lib/io/file-drop.ts +51 -0
  103. package/dist/src/lib/io/index.ts +7 -0
  104. package/dist/src/lib/io/is-binary.ts +24 -0
  105. package/dist/src/lib/io/types.ts +8 -0
  106. package/dist/src/lib/io/url-drop.ts +141 -0
  107. package/dist/src/lib/isosurface/Isosurface.svelte +285 -0
  108. package/dist/src/lib/isosurface/IsosurfaceControls.svelte +277 -0
  109. package/dist/src/lib/isosurface/index.ts +7 -0
  110. package/dist/src/lib/isosurface/parse.ts +656 -0
  111. package/dist/src/lib/isosurface/slice.ts +175 -0
  112. package/dist/src/lib/isosurface/types.ts +309 -0
  113. package/dist/src/lib/labels.ts +320 -0
  114. package/dist/src/lib/layout/FullscreenToggle.svelte +50 -0
  115. package/dist/src/lib/layout/InfoCard.svelte +120 -0
  116. package/dist/src/lib/layout/InfoTag.svelte +185 -0
  117. package/dist/src/lib/layout/PropertyFilter.svelte +246 -0
  118. package/dist/src/lib/layout/SettingsSection.svelte +148 -0
  119. package/dist/src/lib/layout/SubpageGrid.svelte +82 -0
  120. package/dist/src/lib/layout/fullscreen.ts +65 -0
  121. package/dist/src/lib/layout/index.ts +11 -0
  122. package/dist/src/lib/layout/json-tree/JsonNode.svelte +548 -0
  123. package/dist/src/lib/layout/json-tree/JsonTree.svelte +1230 -0
  124. package/dist/src/lib/layout/json-tree/JsonValue.svelte +334 -0
  125. package/dist/src/lib/layout/json-tree/index.ts +3 -0
  126. package/dist/src/lib/layout/json-tree/types.ts +126 -0
  127. package/dist/src/lib/layout/json-tree/utils.ts +682 -0
  128. package/dist/src/lib/marching-cubes.ts +614 -0
  129. package/dist/src/lib/math.ts +1081 -0
  130. package/dist/src/lib/overlays/ContextMenu.svelte +162 -0
  131. package/dist/src/lib/overlays/CopyButton.svelte +45 -0
  132. package/dist/src/lib/overlays/DragControlTab.svelte +98 -0
  133. package/dist/src/lib/overlays/DraggablePane.svelte +487 -0
  134. package/dist/src/lib/overlays/InfoPaneCards.svelte +149 -0
  135. package/dist/src/lib/overlays/index.ts +3 -0
  136. package/dist/src/lib/periodic-table/PeriodicTable.svelte +469 -0
  137. package/dist/src/lib/periodic-table/PeriodicTableControls.svelte +557 -0
  138. package/dist/src/lib/periodic-table/PropertySelect.svelte +37 -0
  139. package/dist/src/lib/periodic-table/index.ts +12 -0
  140. package/dist/src/lib/phase-diagram/IsobaricBinaryPhaseDiagram.svelte +1086 -0
  141. package/dist/src/lib/phase-diagram/PhaseDiagramControls.svelte +444 -0
  142. package/dist/src/lib/phase-diagram/PhaseDiagramEditorPane.svelte +126 -0
  143. package/dist/src/lib/phase-diagram/PhaseDiagramExportPane.svelte +184 -0
  144. package/dist/src/lib/phase-diagram/PhaseDiagramTooltip.svelte +391 -0
  145. package/dist/src/lib/phase-diagram/TdbInfoPanel.svelte +203 -0
  146. package/dist/src/lib/phase-diagram/build-diagram.ts +186 -0
  147. package/dist/src/lib/phase-diagram/colors.ts +58 -0
  148. package/dist/src/lib/phase-diagram/diagram-input.ts +40 -0
  149. package/dist/src/lib/phase-diagram/index.ts +13 -0
  150. package/dist/src/lib/phase-diagram/parse.ts +348 -0
  151. package/dist/src/lib/phase-diagram/svg-to-diagram.ts +1023 -0
  152. package/dist/src/lib/phase-diagram/types.ts +144 -0
  153. package/dist/src/lib/phase-diagram/utils.ts +775 -0
  154. package/dist/src/lib/plot/AxisLabel.svelte +51 -0
  155. package/dist/src/lib/plot/BarPlot.svelte +2113 -0
  156. package/dist/src/lib/plot/BarPlotControls.svelte +66 -0
  157. package/dist/src/lib/plot/BinnedScatterPlot.svelte +1114 -0
  158. package/dist/src/lib/plot/ColorBar.svelte +721 -0
  159. package/dist/src/lib/plot/ColorScaleSelect.svelte +54 -0
  160. package/dist/src/lib/plot/ElementScatter.svelte +63 -0
  161. package/dist/src/lib/plot/FillArea.svelte +223 -0
  162. package/dist/src/lib/plot/Histogram.svelte +1558 -0
  163. package/dist/src/lib/plot/HistogramControls.svelte +212 -0
  164. package/dist/src/lib/plot/InteractiveAxisLabel.svelte +96 -0
  165. package/dist/src/lib/plot/Line.svelte +84 -0
  166. package/dist/src/lib/plot/PlotAxis.svelte +169 -0
  167. package/dist/src/lib/plot/PlotControls.svelte +537 -0
  168. package/dist/src/lib/plot/PlotLegend.svelte +569 -0
  169. package/dist/src/lib/plot/PlotTooltip.svelte +67 -0
  170. package/dist/src/lib/plot/PortalSelect.svelte +253 -0
  171. package/dist/src/lib/plot/ReferenceLine3D.svelte +156 -0
  172. package/dist/src/lib/plot/ReferencePlane.svelte +175 -0
  173. package/dist/src/lib/plot/ScatterPlot.svelte +2778 -0
  174. package/dist/src/lib/plot/ScatterPlot3D.svelte +529 -0
  175. package/dist/src/lib/plot/ScatterPlot3DControls.svelte +437 -0
  176. package/dist/src/lib/plot/ScatterPlot3DScene.svelte +912 -0
  177. package/dist/src/lib/plot/ScatterPlotControls.svelte +306 -0
  178. package/dist/src/lib/plot/ScatterPoint.svelte +182 -0
  179. package/dist/src/lib/plot/SpacegroupBarPlot.svelte +293 -0
  180. package/dist/src/lib/plot/Surface3D.svelte +197 -0
  181. package/dist/src/lib/plot/ZeroLines.svelte +97 -0
  182. package/dist/src/lib/plot/ZoomRect.svelte +23 -0
  183. package/dist/src/lib/plot/adaptive-density.ts +316 -0
  184. package/dist/src/lib/plot/auto-place.ts +184 -0
  185. package/dist/src/lib/plot/axis-utils.ts +122 -0
  186. package/dist/src/lib/plot/binned-scatter-types.ts +83 -0
  187. package/dist/src/lib/plot/data-cleaning.ts +1069 -0
  188. package/dist/src/lib/plot/data-transform.ts +69 -0
  189. package/dist/src/lib/plot/defaults.ts +9 -0
  190. package/dist/src/lib/plot/fill-utils.ts +494 -0
  191. package/dist/src/lib/plot/hover-lock.svelte.ts +60 -0
  192. package/dist/src/lib/plot/index.ts +53 -0
  193. package/dist/src/lib/plot/interactions.ts +119 -0
  194. package/dist/src/lib/plot/layout.ts +425 -0
  195. package/dist/src/lib/plot/reference-line.ts +426 -0
  196. package/dist/src/lib/plot/scales.ts +654 -0
  197. package/dist/src/lib/plot/svg.ts +23 -0
  198. package/dist/src/lib/plot/types.ts +1144 -0
  199. package/dist/src/lib/plot/utils/label-placement.ts +541 -0
  200. package/dist/src/lib/plot/utils/series-visibility.ts +140 -0
  201. package/dist/src/lib/plot/utils.ts +11 -0
  202. package/dist/src/lib/rdf/RdfPlot.svelte +247 -0
  203. package/dist/src/lib/rdf/calc-rdf.ts +167 -0
  204. package/dist/src/lib/rdf/index.ts +27 -0
  205. package/dist/src/lib/sanitize.ts +126 -0
  206. package/dist/src/lib/settings.ts +1479 -0
  207. package/dist/src/lib/spectral/Bands.svelte +1040 -0
  208. package/dist/src/lib/spectral/BandsAndDos.svelte +134 -0
  209. package/dist/src/lib/spectral/BrillouinBandsDos.svelte +252 -0
  210. package/dist/src/lib/spectral/Dos.svelte +697 -0
  211. package/dist/src/lib/spectral/helpers.ts +1381 -0
  212. package/dist/src/lib/spectral/index.ts +8 -0
  213. package/dist/src/lib/spectral/types.ts +112 -0
  214. package/dist/src/lib/state.svelte.ts +64 -0
  215. package/dist/src/lib/structure/Arrow.svelte +72 -0
  216. package/dist/src/lib/structure/AtomLegend.svelte +815 -0
  217. package/dist/src/lib/structure/Bond.svelte +140 -0
  218. package/dist/src/lib/structure/CanvasTooltip.svelte +33 -0
  219. package/dist/src/lib/structure/CellSelect.svelte +349 -0
  220. package/dist/src/lib/structure/Cylinder.svelte +45 -0
  221. package/dist/src/lib/structure/Lattice.svelte +196 -0
  222. package/dist/src/lib/structure/Structure.svelte +2248 -0
  223. package/dist/src/lib/structure/StructureControls.svelte +1273 -0
  224. package/dist/src/lib/structure/StructureExportPane.svelte +252 -0
  225. package/dist/src/lib/structure/StructureInfoPane.svelte +737 -0
  226. package/dist/src/lib/structure/StructureScene.svelte +2255 -0
  227. package/dist/src/lib/structure/atom-properties.ts +316 -0
  228. package/dist/src/lib/structure/bond-order-perception.ts +447 -0
  229. package/dist/src/lib/structure/bonding.ts +944 -0
  230. package/dist/src/lib/structure/export.ts +861 -0
  231. package/dist/src/lib/structure/index.ts +291 -0
  232. package/dist/src/lib/structure/label-placement.ts +130 -0
  233. package/dist/src/lib/structure/measure.ts +45 -0
  234. package/dist/src/lib/structure/parse.ts +1705 -0
  235. package/dist/src/lib/structure/partial-occupancy.ts +183 -0
  236. package/dist/src/lib/structure/pbc.ts +164 -0
  237. package/dist/src/lib/structure/supercell.ts +226 -0
  238. package/dist/src/lib/structure/validation.ts +11 -0
  239. package/dist/src/lib/symmetry/SymmetryStats.svelte +226 -0
  240. package/dist/src/lib/symmetry/WyckoffTable.svelte +120 -0
  241. package/dist/src/lib/symmetry/cell-transform.ts +118 -0
  242. package/dist/src/lib/symmetry/index.ts +348 -0
  243. package/dist/src/lib/symmetry/spacegroups.ts +404 -0
  244. package/dist/src/lib/table/HeatmapTable.svelte +1833 -0
  245. package/dist/src/lib/table/ToggleMenu.svelte +385 -0
  246. package/dist/src/lib/table/index.ts +139 -0
  247. package/dist/src/lib/theme/ThemeControl.svelte +53 -0
  248. package/dist/src/lib/theme/index.ts +107 -0
  249. package/dist/src/lib/theme/themes.mjs +297 -0
  250. package/dist/src/lib/time.ts +71 -0
  251. package/dist/src/lib/tooltip/TooltipContent.svelte +58 -0
  252. package/dist/src/lib/tooltip/index.ts +2 -0
  253. package/dist/src/lib/tooltip/types.ts +13 -0
  254. package/dist/src/lib/trajectory/Trajectory.svelte +1545 -0
  255. package/dist/src/lib/trajectory/TrajectoryError.svelte +128 -0
  256. package/dist/src/lib/trajectory/TrajectoryExportPane.svelte +357 -0
  257. package/dist/src/lib/trajectory/TrajectoryInfoPane.svelte +313 -0
  258. package/dist/src/lib/trajectory/constants.ts +7 -0
  259. package/dist/src/lib/trajectory/extract.ts +196 -0
  260. package/dist/src/lib/trajectory/format-detect.ts +96 -0
  261. package/dist/src/lib/trajectory/frame-reader.ts +456 -0
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  263. package/dist/src/lib/trajectory/index.ts +218 -0
  264. package/dist/src/lib/trajectory/parse/ase.ts +109 -0
  265. package/dist/src/lib/trajectory/parse/hdf5.ts +173 -0
  266. package/dist/src/lib/trajectory/parse/index.ts +411 -0
  267. package/dist/src/lib/trajectory/parse/lammps.ts +215 -0
  268. package/dist/src/lib/trajectory/parse/vasp.ts +102 -0
  269. package/dist/src/lib/trajectory/parse/xyz.ts +143 -0
  270. package/dist/src/lib/trajectory/plotting.ts +599 -0
  271. package/dist/src/lib/trajectory/types.ts +13 -0
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  273. package/dist/src/lib/xrd/XrdPlot.svelte +615 -0
  274. package/dist/src/lib/xrd/broadening.ts +130 -0
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  276. package/dist/src/lib/xrd/index.ts +38 -0
  277. package/dist/src/lib/xrd/parse.ts +858 -0
  278. package/dist/webview.js +29421 -0
  279. package/icon.png +0 -0
  280. package/license +1 -1
  281. package/matterviz-0.3.2.vsix +0 -0
  282. package/matterviz-0.3.4.vsix +0 -0
  283. package/matterviz-0.3.5.vsix +0 -0
  284. package/package.json +1461 -231
  285. package/readme.md +171 -98
  286. package/scripts/sync-config.ts +101 -0
  287. package/src/declarations.d.ts +2 -0
  288. package/src/extension.ts +972 -0
  289. package/src/node-io.ts +65 -0
  290. package/src/types.ts +17 -0
  291. package/src/webview/JsonBrowser.svelte +1079 -0
  292. package/src/webview/PlotPanel.svelte +346 -0
  293. package/src/webview/detect.ts +444 -0
  294. package/src/webview/main.ts +764 -0
  295. package/src/webview/plot-utils.ts +250 -0
  296. package/test-fixtures/all-viz-types.json.gz +0 -0
  297. package/test-fixtures/plot-demo-data.json.gz +0 -0
  298. package/tests/detect.test.ts +604 -0
  299. package/tests/extension.test.ts +2041 -0
  300. package/tests/node-io.test.ts +39 -0
  301. package/tests/plot-utils.test.ts +302 -0
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  304. package/tests/webview.test.ts +231 -0
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  313. package/dist/MillerIndexInput.svelte +0 -66
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  315. package/dist/api/mp.d.ts +0 -6
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  317. package/dist/api/optimade.d.ts +0 -45
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  320. package/dist/brillouin/BrillouinZone.svelte +0 -543
  321. package/dist/brillouin/BrillouinZone.svelte.d.ts +0 -83
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  660. package/dist/plot/fill-utils.js +0 -337
  661. package/dist/plot/hover-lock.svelte.d.ts +0 -14
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  669. package/dist/plot/reference-line.d.ts +0 -60
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  675. package/dist/plot/types.d.ts +0 -863
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  677. package/dist/plot/utils/label-placement.d.ts +0 -47
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  679. package/dist/plot/utils/series-visibility.d.ts +0 -9
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  681. package/dist/plot/utils.d.ts +0 -1
  682. package/dist/plot/utils.js +0 -14
  683. package/dist/rdf/RdfPlot.svelte +0 -247
  684. package/dist/rdf/RdfPlot.svelte.d.ts +0 -27
  685. package/dist/rdf/calc-rdf.d.ts +0 -4
  686. package/dist/rdf/calc-rdf.js +0 -111
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  691. package/dist/settings.d.ts +0 -253
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  699. package/dist/spectral/Dos.svelte +0 -697
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  822. package/dist/utils.d.ts +0 -5
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  824. package/dist/xrd/XrdPlot.svelte +0 -615
  825. package/dist/xrd/XrdPlot.svelte.d.ts +0 -28
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  834. /package/dist/{EmptyState.svelte → src/lib/EmptyState.svelte} +0 -0
  835. /package/dist/{Icon.svelte → src/lib/Icon.svelte} +0 -0
  836. /package/dist/{chempot-diagram → src/lib/chempot-diagram}/ChemPotScene3D.svelte +0 -0
  837. /package/dist/{colors → src/lib/colors}/alloy-colors.json +0 -0
  838. /package/dist/{colors → src/lib/colors}/dark-mode-colors.json +0 -0
  839. /package/dist/{colors → src/lib/colors}/jmol-colors.json +0 -0
  840. /package/dist/{colors → src/lib/colors}/muted-colors.json +0 -0
  841. /package/dist/{colors → src/lib/colors}/pastel-colors.json +0 -0
  842. /package/dist/{colors → src/lib/colors}/vesta-colors.json +0 -0
  843. /package/dist/{element → src/lib/element}/Nucleus.svelte +0 -0
  844. /package/dist/{element → src/lib/element}/data.json +0 -0
  845. /package/dist/{element → src/lib/element}/data.json.gz +0 -0
  846. /package/dist/{element → src/lib/element}/data.schema.json +0 -0
  847. /package/dist/{element-image-urls.json → src/lib/element-image-urls.json} +0 -0
  848. /package/dist/{feedback → src/lib/feedback}/Spinner.svelte +0 -0
  849. /package/dist/{feedback → src/lib/feedback}/StatusMessage.svelte +0 -0
  850. /package/dist/{periodic-table → src/lib/periodic-table}/TableInset.svelte +0 -0
  851. /package/dist/{plot → src/lib/plot}/ReferenceLine.svelte +0 -0
  852. /package/dist/{xrd → src/lib/xrd}/atomic_scattering_params.json +0 -0
@@ -0,0 +1,32 @@
1
+ // Constants and thresholds for Fermi surface computation
2
+
3
+ // Maximum triangles for BZ symmetry tiling (48x for Oh symmetry)
4
+ // Above this, tiling is auto-disabled for performance
5
+ export const MAX_TRIANGLES_FOR_TILING = 50_000
6
+
7
+ // Throttle interval (ms) for pointer move events during hover
8
+ // Prevents expensive nearest-vertex O(n) lookups from causing UI jank
9
+ export const HOVER_THROTTLE_MS = 16 // ~60fps
10
+
11
+ // Numerical tolerances
12
+ export const CLOSED_CONTOUR_TOLERANCE = 1e-6 // Distance threshold for detecting closed contours
13
+ export const IRREDUCIBLE_BZ_TOLERANCE = 0.01 // Threshold for detecting irreducible BZ (vertices in positive octant)
14
+ export const IRREDUCIBLE_BZ_MIN_VERTICES = 10 // Minimum significant vertex count for irreducible BZ detection
15
+
16
+ export const SPANNING_THRESHOLD = 0.8 // Fraction of BZ extent a surface must cover to be considered "spanning" that direction
17
+ export const BOHR_TO_ANGSTROM = 0.529177 // 1 Bohr = 0.529177 Angstrom
18
+ export const HARTREE_TO_EV = 27.2114 // 1 Hartree = 27.2114 eV
19
+
20
+ // Band colors (ColorBrewer Set1 palette for categorical data)
21
+ export const BAND_COLORS = [
22
+ `#e41a1c`, // red
23
+ `#377eb8`, // blue
24
+ `#4daf4a`, // green
25
+ `#984ea3`, // purple
26
+ `#ff7f00`, // orange
27
+ `#ffff33`, // yellow
28
+ `#a65628`, // brown
29
+ `#f781bf`, // pink
30
+ `#999999`, // gray
31
+ `#66c2a5`, // teal
32
+ ] as const
@@ -0,0 +1,64 @@
1
+ // Export Fermi surface to various 3D formats
2
+ import type { Scene } from 'three'
3
+
4
+ // Helper to trigger file download
5
+ function download_file(content: string | ArrayBuffer, filename: string, mime_type: string) {
6
+ const blob = new Blob([content], { type: mime_type })
7
+ const url = URL.createObjectURL(blob)
8
+ const link = document.createElement(`a`)
9
+ link.href = url
10
+ link.download = filename
11
+ document.body.appendChild(link)
12
+ link.click()
13
+ document.body.removeChild(link)
14
+ URL.revokeObjectURL(url)
15
+ }
16
+
17
+ // Export scene to STL format (good for 3D printing)
18
+ export async function export_to_stl(scene: Scene, filename: string): Promise<void> {
19
+ const { STLExporter } = await import(`three/addons/exporters/STLExporter.js`)
20
+ const exporter = new STLExporter()
21
+ const result = exporter.parse(scene, { binary: true })
22
+ // Binary STL returns DataView, convert to ArrayBuffer for Blob
23
+ const buffer = result instanceof DataView ? result.buffer : result
24
+ download_file(buffer, `${filename}.stl`, `application/octet-stream`)
25
+ }
26
+
27
+ // Export scene to OBJ format (widely compatible)
28
+ export async function export_to_obj(scene: Scene, filename: string): Promise<void> {
29
+ const { OBJExporter } = await import(`three/addons/exporters/OBJExporter.js`)
30
+ const exporter = new OBJExporter()
31
+ const result = exporter.parse(scene)
32
+ download_file(result, `${filename}.obj`, `text/plain`)
33
+ }
34
+
35
+ // Export scene to GLTF format (modern web/AR standard)
36
+ export async function export_to_gltf(scene: Scene, filename: string): Promise<void> {
37
+ const { GLTFExporter } = await import(`three/addons/exporters/GLTFExporter.js`)
38
+ const exporter = new GLTFExporter()
39
+
40
+ return new Promise((resolve, reject) => {
41
+ exporter.parse(
42
+ scene,
43
+ (gltf) => {
44
+ const output = JSON.stringify(gltf, null, 2)
45
+ download_file(output, `${filename}.gltf`, `application/json`)
46
+ resolve()
47
+ },
48
+ (error) => reject(error),
49
+ { binary: false },
50
+ )
51
+ })
52
+ }
53
+
54
+ // Main export function that dispatches to the appropriate format
55
+ export function export_scene(
56
+ scene: Scene,
57
+ format: `stl` | `obj` | `gltf`,
58
+ filename: string,
59
+ ): Promise<void> {
60
+ if (format === `stl`) return export_to_stl(scene, filename)
61
+ if (format === `obj`) return export_to_obj(scene, filename)
62
+ if (format === `gltf`) return export_to_gltf(scene, filename)
63
+ return Promise.reject(new Error(`Unsupported export format: ${format}`))
64
+ }
@@ -0,0 +1,14 @@
1
+ // Fermi surface visualization module
2
+ export { default as FermiSlice } from './FermiSlice.svelte'
3
+ export { default as FermiSurface } from './FermiSurface.svelte'
4
+ export { default as FermiSurfaceControls } from './FermiSurfaceControls.svelte'
5
+ export { default as FermiSurfaceScene } from './FermiSurfaceScene.svelte'
6
+ export { default as FermiSurfaceTooltip } from './FermiSurfaceTooltip.svelte'
7
+
8
+ export * from './compute'
9
+ export * from './constants'
10
+ export * from './export'
11
+ export * from './marching-cubes'
12
+ export * from './parse'
13
+ export * from './symmetry'
14
+ export * from './types'
@@ -0,0 +1,3 @@
1
+ // Re-export from shared location for backward compatibility
2
+ export { compute_vertex_normals, marching_cubes } from '$lib/marching-cubes'
3
+ export type { MarchingCubesOptions, MarchingCubesResult } from '$lib/marching-cubes'
@@ -0,0 +1,574 @@
1
+ // Parsers for Fermi surface file formats (BXSF, FRMSF, JSON)
2
+ import type { Matrix3x3, Vec3 } from '$lib/math'
3
+ import * as constants from './constants'
4
+ import { compute_vertex_normals } from './marching-cubes'
5
+ import type {
6
+ BandGridData,
7
+ EnergyGrid5D,
8
+ FermiSurfaceData,
9
+ Isosurface,
10
+ SpinChannel,
11
+ SurfaceDimensionality,
12
+ } from './types'
13
+
14
+ const parse_number_tokens = (line: string): string[] => line.split(/\s+/).filter(Boolean)
15
+
16
+ // Parse whitespace-separated floats from a line (optimized with unary +)
17
+ const parse_floats = (line: string): number[] => parse_number_tokens(line).map((part) => +part)
18
+
19
+ // Parse whitespace-separated integers from a line
20
+ const parse_ints = (line: string): number[] =>
21
+ parse_number_tokens(line).map((part) => parseInt(part, 10))
22
+
23
+ // Parse BXSF (Band-XSF) format used by XCrySDen, Quantum ESPRESSO, etc.
24
+ // Format specification: http://www.xcrysden.org/doc/XSF.html
25
+ function parse_bxsf(content: string): BandGridData {
26
+ const lines = content.split(/\r?\n/).map((line) => line.trim())
27
+ let line_idx = 0
28
+
29
+ // Helper to get next non-empty, non-comment line
30
+ const next_line = (): string => {
31
+ while (line_idx < lines.length) {
32
+ const line = lines[line_idx++]
33
+ if (line && !line.startsWith(`#`)) return line
34
+ }
35
+ throw new Error(`Unexpected end of BXSF file`)
36
+ }
37
+
38
+ // Find BEGIN_BLOCK_BANDGRID_3D
39
+ while (line_idx < lines.length) {
40
+ if (lines[line_idx].includes(`BEGIN_BLOCK_BANDGRID_3D`)) {
41
+ line_idx++
42
+ break
43
+ }
44
+ line_idx++
45
+ }
46
+ if (line_idx >= lines.length) {
47
+ throw new Error(`BXSF file missing BEGIN_BLOCK_BANDGRID_3D`)
48
+ }
49
+
50
+ // Skip block identifier line (e.g. "band_energies")
51
+ next_line()
52
+
53
+ // Parse BEGIN_BANDGRID_3D or BANDGRID_3D_BANDS (both variants exist)
54
+ const bandgrid_line = next_line()
55
+ if (!bandgrid_line.includes(`BANDGRID_3D`)) {
56
+ throw new Error(`Expected BANDGRID_3D header, got: ${bandgrid_line}`)
57
+ }
58
+
59
+ // Parse number of bands
60
+ const n_bands = parseInt(next_line(), 10)
61
+ if (isNaN(n_bands) || n_bands <= 0) {
62
+ throw new Error(`Invalid number of bands in BXSF file`)
63
+ }
64
+
65
+ // Parse grid dimensions (nx ny nz)
66
+ const grid_dims = parse_ints(next_line())
67
+ if (grid_dims.length !== 3) {
68
+ throw new Error(`Expected 3 grid dimensions, got ${grid_dims.length}`)
69
+ }
70
+ const k_grid: Vec3 = [grid_dims[0], grid_dims[1], grid_dims[2]]
71
+
72
+ // Parse origin
73
+ const origin_vals = parse_floats(next_line())
74
+ if (origin_vals.length !== 3) {
75
+ throw new Error(`Expected 3 origin values, got ${origin_vals.length}`)
76
+ }
77
+ const origin: Vec3 = [origin_vals[0], origin_vals[1], origin_vals[2]]
78
+
79
+ // Parse 3 spanning vectors (reciprocal lattice)
80
+ const spanning_vectors: Matrix3x3 = [
81
+ parse_floats(next_line()).slice(0, 3) as Vec3,
82
+ parse_floats(next_line()).slice(0, 3) as Vec3,
83
+ parse_floats(next_line()).slice(0, 3) as Vec3,
84
+ ]
85
+
86
+ // Validate spanning vectors
87
+ for (const vec of spanning_vectors) {
88
+ if (vec.length !== 3 || vec.some(isNaN)) {
89
+ throw new Error(`Invalid spanning vector in BXSF file`)
90
+ }
91
+ }
92
+
93
+ // Parse band data
94
+ // Format: BAND: band_number followed by energy values on grid
95
+ const energies: EnergyGrid5D = [[]] // [spin=1][band][kx][ky][kz]
96
+ const [nx, ny, nz] = k_grid
97
+ const total_points = nx * ny * nz
98
+
99
+ for (let band_idx = 0; band_idx < n_bands; band_idx++) {
100
+ // Find BAND: line
101
+ let band_line = next_line()
102
+ while (!band_line.startsWith(`BAND:`)) {
103
+ band_line = next_line()
104
+ }
105
+
106
+ // Read energy values for this band
107
+ const energy_values: number[] = []
108
+ while (energy_values.length < total_points) {
109
+ const line = next_line()
110
+ if (line.startsWith(`END_BANDGRID`) || line.startsWith(`BAND:`)) {
111
+ // Unread this line: after next_line() returns, line_idx points past the
112
+ // returned line, so decrementing by 1 restores to the line just read
113
+ line_idx--
114
+ break
115
+ }
116
+ energy_values.push(...parse_floats(line))
117
+ }
118
+
119
+ if (energy_values.length < total_points) {
120
+ throw new Error(
121
+ `Band ${band_idx}: expected ${total_points} values, got ${energy_values.length}`,
122
+ )
123
+ }
124
+
125
+ // Reshape into 3D grid [kx][ky][kz] (preallocated for speed)
126
+ const band_grid: number[][][] = Array(nx)
127
+ let val_idx = 0
128
+ for (let ix = 0; ix < nx; ix++) {
129
+ const iy_arr: number[][] = Array(ny)
130
+ for (let iy = 0; iy < ny; iy++) {
131
+ const iz_arr = energy_values.slice(val_idx, val_idx + nz)
132
+ val_idx += nz
133
+ iy_arr[iy] = iz_arr
134
+ }
135
+ band_grid[ix] = iy_arr
136
+ }
137
+ energies[0].push(band_grid)
138
+ }
139
+
140
+ // Try to find Fermi energy (often in a comment or as FERMI_ENERGY keyword)
141
+ let fermi_energy = 0
142
+ for (const line of lines) {
143
+ const lower = line.toLowerCase()
144
+ if (lower.includes(`fermi`) && lower.includes(`energy`)) {
145
+ // Match patterns like "Fermi Energy = 5.123" or "fermi_energy: -0.5"
146
+ const match = /(?:=|:)\s*([-+]?\d*\.?\d+(?:[eE][-+]?\d+)?)/i.exec(line)
147
+ if (match) {
148
+ fermi_energy = parseFloat(match[1])
149
+ break
150
+ }
151
+ }
152
+ }
153
+
154
+ return {
155
+ energies,
156
+ k_grid,
157
+ k_lattice: spanning_vectors,
158
+ fermi_energy,
159
+ n_bands,
160
+ n_spins: 1,
161
+ origin,
162
+ }
163
+ }
164
+
165
+ // Parse FRMSF format used by FermiSurfer
166
+ // Format: https://mitsuaki1987.github.io/fermisurfer/en/_build/html/ops.html
167
+ function parse_frmsf(content: string): BandGridData {
168
+ const lines = content
169
+ .split(/\r?\n/)
170
+ .map((line) => line.trim())
171
+ .filter(Boolean)
172
+ let line_idx = 0
173
+
174
+ // Line 1: grid dimensions (ng[0] ng[1] ng[2])
175
+ const grid_dims = parse_ints(lines[line_idx++])
176
+ if (grid_dims.length !== 3) {
177
+ throw new Error(`FRMSF: Expected 3 grid dimensions`)
178
+ }
179
+ const k_grid: Vec3 = [grid_dims[0], grid_dims[1], grid_dims[2]]
180
+
181
+ // Line 2: lshift (grid shift type)
182
+ // 0 = Monkhorst-Pack grid (shifted)
183
+ // 1 = Gamma-centered grid
184
+ // 2 = Gamma + half grid shift
185
+ const lshift = parseInt(lines[line_idx++], 10)
186
+ if (isNaN(lshift) || lshift < 0 || lshift > 2) {
187
+ throw new Error(`FRMSF: Invalid lshift value (expected 0, 1, or 2)`)
188
+ }
189
+
190
+ // Line 3: number of bands
191
+ const n_bands = parseInt(lines[line_idx++], 10)
192
+ if (isNaN(n_bands) || n_bands <= 0) {
193
+ throw new Error(`FRMSF: Invalid number of bands`)
194
+ }
195
+
196
+ // FRMSF format has single spin channel (no spin-polarized support in standard format)
197
+ const n_spins = 1
198
+
199
+ // Lines 4-6: reciprocal lattice vectors (in Bohr^-1, convert to Å^-1)
200
+ const inv_bohr = 1 / constants.BOHR_TO_ANGSTROM
201
+ const k_lattice: Matrix3x3 = [
202
+ parse_floats(lines[line_idx++])
203
+ .slice(0, 3)
204
+ .map((val) => val * inv_bohr) as Vec3,
205
+ parse_floats(lines[line_idx++])
206
+ .slice(0, 3)
207
+ .map((val) => val * inv_bohr) as Vec3,
208
+ parse_floats(lines[line_idx++])
209
+ .slice(0, 3)
210
+ .map((val) => val * inv_bohr) as Vec3,
211
+ ]
212
+
213
+ const [nx, ny, nz] = k_grid
214
+ const total_points = nx * ny * nz
215
+
216
+ // Parse band energies for each spin and band
217
+ // FRMSF format: one energy value per line per grid point. Any additional columns
218
+ // (e.g. auxiliary color/velocity data) are ignored to prevent grid corruption.
219
+ const energies: EnergyGrid5D = []
220
+ for (let spin_idx = 0; spin_idx < n_spins; spin_idx++) {
221
+ energies[spin_idx] = []
222
+ for (let band_idx = 0; band_idx < n_bands; band_idx++) {
223
+ const energy_values: number[] = []
224
+
225
+ // Read energy values (first value per line only, ignore auxiliary columns)
226
+ while (energy_values.length < total_points && line_idx < lines.length) {
227
+ const line = lines[line_idx]
228
+ const first_token = line?.split(/\s+/)[0]
229
+ if (first_token && !isNaN(parseFloat(first_token))) {
230
+ energy_values.push(parseFloat(first_token))
231
+ line_idx++
232
+ } else {
233
+ break
234
+ }
235
+ }
236
+
237
+ if (energy_values.length < total_points) {
238
+ throw new Error(
239
+ `FRMSF spin ${spin_idx} band ${band_idx}: expected ${total_points} values, got ${energy_values.length}`,
240
+ )
241
+ }
242
+
243
+ // Reshape into 3D grid [kx][ky][kz]
244
+ const band_grid: number[][][] = []
245
+ let val_idx = 0
246
+ for (let ix = 0; ix < nx; ix++) {
247
+ band_grid[ix] = []
248
+ for (let iy = 0; iy < ny; iy++) {
249
+ band_grid[ix][iy] = []
250
+ for (let iz = 0; iz < nz; iz++) {
251
+ // FRMSF uses Hartree, convert to eV
252
+ band_grid[ix][iy][iz] = energy_values[val_idx++] * constants.HARTREE_TO_EV
253
+ }
254
+ }
255
+ }
256
+ energies[spin_idx].push(band_grid)
257
+ }
258
+ }
259
+
260
+ return {
261
+ energies,
262
+ k_grid,
263
+ k_lattice,
264
+ fermi_energy: 0, // FRMSF typically expects Fermi level at 0
265
+ n_bands,
266
+ n_spins,
267
+ }
268
+ }
269
+
270
+ // Validate that an object has the required Isosurface shape
271
+ function is_valid_isosurface(obj: unknown): obj is Isosurface {
272
+ if (!obj || typeof obj !== `object`) return false
273
+ const isosurface_obj = obj as Record<string, unknown>
274
+ const vertices = isosurface_obj.vertices
275
+ const faces = isosurface_obj.faces
276
+ const normals = isosurface_obj.normals
277
+ const band_index = isosurface_obj.band_index
278
+ const spin = isosurface_obj.spin
279
+
280
+ if (!Array.isArray(vertices) || vertices.length === 0) return false
281
+ if (!Array.isArray(faces)) return false
282
+ if (!Array.isArray(normals)) return false
283
+ if (typeof band_index !== `number` || !Number.isFinite(band_index)) return false
284
+ if (spin !== null && spin !== `up` && spin !== `down`) return false
285
+
286
+ return true
287
+ }
288
+
289
+ // Validate FermiSurfaceData shape
290
+ function is_valid_fermi_surface_data(obj: unknown): obj is FermiSurfaceData {
291
+ if (!obj || typeof obj !== `object`) return false
292
+ const data = obj as Record<string, unknown>
293
+
294
+ // Check required fields
295
+ if (!Array.isArray(data.isosurfaces)) return false
296
+ if (!Array.isArray(data.k_lattice) || data.k_lattice.length !== 3) return false
297
+ if (typeof data.fermi_energy !== `number`) return false
298
+ if (data.reciprocal_cell !== `wigner_seitz` && data.reciprocal_cell !== `parallelepiped`) {
299
+ return false
300
+ }
301
+ if (!data.metadata || typeof data.metadata !== `object`) return false
302
+
303
+ // Validate each isosurface
304
+ for (const iso of data.isosurfaces) {
305
+ if (!is_valid_isosurface(iso)) return false
306
+ }
307
+
308
+ return true
309
+ }
310
+
311
+ // Parse Matterviz/IFermi JSON format for Fermi surface data
312
+ // Throws on invalid input; returns parsed data on success
313
+ function parse_fermi_json(content: string): FermiSurfaceData | BandGridData {
314
+ const data = JSON.parse(content)
315
+
316
+ // Check if it's already in our FermiSurfaceData format with full validation
317
+ if (data.isosurfaces && Array.isArray(data.isosurfaces)) {
318
+ if (is_valid_fermi_surface_data(data)) {
319
+ return data
320
+ }
321
+ throw new Error(
322
+ `Invalid FermiSurfaceData JSON: isosurfaces array present but missing required fields`,
323
+ )
324
+ }
325
+
326
+ // Check if it's IFermi format (isosurfaces is an object keyed by band index)
327
+ if (
328
+ data[`@class`] === `FermiSurface` &&
329
+ data.isosurfaces &&
330
+ typeof data.isosurfaces === `object`
331
+ ) {
332
+ return parse_ifermi_surface(data)
333
+ }
334
+
335
+ // Check if it's BandGridData (raw grid data)
336
+ if (data.energies && data.k_grid && data.k_lattice) {
337
+ // Minimal validation of required fields
338
+ if (
339
+ !Array.isArray(data.energies) ||
340
+ !Array.isArray(data.k_grid) ||
341
+ data.k_grid.length !== 3 ||
342
+ !Array.isArray(data.k_lattice) ||
343
+ data.k_lattice.length !== 3
344
+ )
345
+ throw new Error(`Invalid BandGridData JSON: malformed required fields`)
346
+ return data as BandGridData
347
+ }
348
+
349
+ // Try to extract from nested structure (e.g. IFermi output)
350
+ if (data.fermi_surface) {
351
+ return data.fermi_surface as FermiSurfaceData
352
+ }
353
+
354
+ if (data.band_structure?.energies || data.bands?.energies) {
355
+ const bs = data.band_structure ?? data.bands
356
+ return {
357
+ energies: bs.energies,
358
+ k_grid: bs.k_grid ?? bs.kgrid,
359
+ k_lattice: bs.k_lattice ?? bs.reciprocal_lattice,
360
+ fermi_energy: bs.fermi_energy ?? bs.efermi ?? 0,
361
+ n_bands: bs.n_bands || bs.nbands || bs.energies[0]?.length || 0,
362
+ n_spins: bs.n_spins || bs.nspins || bs.energies.length || 1,
363
+ } as BandGridData
364
+ }
365
+
366
+ // Check for pymatgen BandStructure format (k-path, not k-grid)
367
+ // These files cannot be used for Fermi surface visualization directly
368
+ if (data.bs?.[`@class`] === `BandStructure` || data[`@class`] === `BandStructure`) {
369
+ throw new Error(
370
+ `This is a pymatgen BandStructure file (band data along k-path). ` +
371
+ `Fermi surface visualization requires a uniform 3D k-grid of eigenvalues. ` +
372
+ `Use IFermi or a BXSF/FRMSF file instead.`,
373
+ )
374
+ }
375
+
376
+ throw new Error(`Unrecognized JSON format: missing required fields for Fermi surface data`)
377
+ }
378
+
379
+ // Helper type for IFermi Isosurface format
380
+ interface IFermiIsosurface {
381
+ vertices: number[][]
382
+ faces: number[][]
383
+ band_idx: number
384
+ properties?: Record<string, number[]>
385
+ dimensionality?: string
386
+ orientation?: number[] | null
387
+ }
388
+
389
+ // Parse IFermi's JSON output format
390
+ function parse_ifermi_surface(data: Record<string, unknown>): FermiSurfaceData {
391
+ const isosurfaces_obj = data.isosurfaces as Record<string, IFermiIsosurface[]>
392
+ const reciprocal_space = data.reciprocal_space as
393
+ | {
394
+ reciprocal_lattice?: number[][]
395
+ vertices?: number[][]
396
+ faces?: number[][]
397
+ }
398
+ | undefined
399
+
400
+ // Extract reciprocal lattice
401
+ const k_lattice: Matrix3x3 = reciprocal_space?.reciprocal_lattice
402
+ ? (reciprocal_space.reciprocal_lattice as Matrix3x3)
403
+ : [
404
+ [1, 0, 0],
405
+ [0, 1, 0],
406
+ [0, 0, 1],
407
+ ]
408
+
409
+ // Convert IFermi isosurfaces to our format
410
+ const isosurfaces: Isosurface[] = []
411
+ const band_indices = new Set<number>()
412
+ let has_spin = false
413
+
414
+ for (const [band_key, iso_list] of Object.entries(isosurfaces_obj)) {
415
+ const band_index = parseInt(band_key, 10)
416
+ // spin is determined by sign: positive = up, negative = down
417
+ const spin: SpinChannel = band_index < 0 ? `down` : `up`
418
+ const abs_band_idx = Math.abs(band_index)
419
+ band_indices.add(abs_band_idx)
420
+ if (band_index < 0) has_spin = true
421
+
422
+ for (const ifermi_iso of iso_list) {
423
+ const vertices = ifermi_iso.vertices as Vec3[]
424
+ const faces = ifermi_iso.faces
425
+
426
+ // Compute vertex normals from faces
427
+ const normals = compute_vertex_normals(vertices, faces)
428
+
429
+ // Extract properties if available
430
+ let properties: number[] | undefined
431
+ if (ifermi_iso.properties) {
432
+ // IFermi stores properties like fermi_velocity, spin, etc.
433
+ const prop_keys = Object.keys(ifermi_iso.properties)
434
+ if (prop_keys.length > 0) {
435
+ // Use first available property as vertex colors
436
+ properties = ifermi_iso.properties[prop_keys[0]]
437
+ }
438
+ }
439
+
440
+ // Parse dimensionality
441
+ let dimensionality: SurfaceDimensionality | undefined
442
+ if (ifermi_iso.dimensionality) {
443
+ const dim = ifermi_iso.dimensionality.toLowerCase()
444
+ if (dim.includes(`1d`) || dim === `1d`) dimensionality = `1D`
445
+ else if (dim.includes(`quasi`) || dim === `quasi-2d`) dimensionality = `quasi-2D`
446
+ else if (dim.includes(`2d`) || dim === `2d`) dimensionality = `2D`
447
+ else if (dim.includes(`3d`) || dim === `3d`) dimensionality = `3D`
448
+ }
449
+
450
+ // Compute area for this isosurface using fan triangulation for N-gons
451
+ let area = 0
452
+ for (const face of faces) {
453
+ if (face.length < 3) continue
454
+ // Validate face indices are within bounds to prevent NaN from undefined vertices
455
+ if (face.some((idx) => idx < 0 || idx >= vertices.length)) continue
456
+ // Fan triangulation: for N vertices, create N-2 triangles (0,1,2), (0,2,3), ...
457
+ const v0 = vertices[face[0]]
458
+ for (let fan_idx = 1; fan_idx < face.length - 1; fan_idx++) {
459
+ const v1 = vertices[face[fan_idx]]
460
+ const v2 = vertices[face[fan_idx + 1]]
461
+ const e1: Vec3 = [v1[0] - v0[0], v1[1] - v0[1], v1[2] - v0[2]]
462
+ const e2: Vec3 = [v2[0] - v0[0], v2[1] - v0[1], v2[2] - v0[2]]
463
+ const cross: Vec3 = [
464
+ e1[1] * e2[2] - e1[2] * e2[1],
465
+ e1[2] * e2[0] - e1[0] * e2[2],
466
+ e1[0] * e2[1] - e1[1] * e2[0],
467
+ ]
468
+ area += 0.5 * Math.hypot(cross[0], cross[1], cross[2])
469
+ }
470
+ }
471
+
472
+ isosurfaces.push({
473
+ vertices,
474
+ faces,
475
+ normals,
476
+ properties,
477
+ band_index: abs_band_idx,
478
+ spin,
479
+ area,
480
+ dimensionality,
481
+ orientation: ifermi_iso.orientation as Vec3 | null,
482
+ })
483
+ }
484
+ }
485
+
486
+ // Compute total surface area
487
+ const total_area = isosurfaces.reduce((sum, iso) => sum + (iso.area ?? 0), 0)
488
+
489
+ return {
490
+ isosurfaces,
491
+ k_lattice,
492
+ fermi_energy: 0, // IFermi surfaces are typically relative to Fermi level
493
+ reciprocal_cell: `wigner_seitz`, // IFermi typically uses Wigner-Seitz cells
494
+ metadata: {
495
+ n_bands: band_indices.size,
496
+ n_surfaces: isosurfaces.length,
497
+ total_area,
498
+ source_format: `ifermi-json`,
499
+ has_spin,
500
+ has_velocities: isosurfaces.some((iso) => iso.properties !== undefined),
501
+ },
502
+ }
503
+ }
504
+
505
+ // Auto-detect file format and parse accordingly
506
+ export function parse_fermi_file(
507
+ content: string,
508
+ filename?: string,
509
+ ): BandGridData | FermiSurfaceData | null {
510
+ const lower_name = filename?.toLowerCase() || ``
511
+
512
+ // Detect by filename extension
513
+ if (lower_name.endsWith(`.bxsf`) || lower_name.endsWith(`.bxsf.gz`)) {
514
+ try {
515
+ return parse_bxsf(content)
516
+ } catch (error) {
517
+ console.error(`BXSF parse error:`, error)
518
+ return null
519
+ }
520
+ }
521
+
522
+ if (lower_name.endsWith(`.frmsf`) || lower_name.endsWith(`.frmsf.gz`)) {
523
+ try {
524
+ return parse_frmsf(content)
525
+ } catch (error) {
526
+ console.error(`FRMSF parse error:`, error)
527
+ return null
528
+ }
529
+ }
530
+
531
+ if (lower_name.endsWith(`.json`) || lower_name.endsWith(`.json.gz`)) {
532
+ try {
533
+ return parse_fermi_json(content)
534
+ } catch (error) {
535
+ console.error(`JSON parse error:`, error)
536
+ return null
537
+ }
538
+ }
539
+
540
+ // Try auto-detection based on content
541
+ const trimmed = content.trim()
542
+
543
+ // BXSF format detection
544
+ if (trimmed.includes(`BEGIN_BLOCK_BANDGRID_3D`) || trimmed.includes(`BEGIN_BANDGRID_3D`)) {
545
+ try {
546
+ return parse_bxsf(content)
547
+ } catch (error) {
548
+ console.error(`BXSF auto-detect parse error:`, error)
549
+ }
550
+ }
551
+
552
+ // JSON format detection
553
+ if (trimmed.startsWith(`{`) || trimmed.startsWith(`[`)) {
554
+ try {
555
+ return parse_fermi_json(content)
556
+ } catch (error) {
557
+ console.error(`JSON auto-detect parse error:`, error)
558
+ }
559
+ }
560
+
561
+ // FRMSF format detection (starts with grid dimensions)
562
+ const first_line = trimmed.split(/\r?\n/)[0]
563
+ const first_tokens = first_line.split(/\s+/).filter(Boolean)
564
+ if (first_tokens.length === 3 && first_tokens.every((token) => /^\d+$/.test(token))) {
565
+ try {
566
+ return parse_frmsf(content)
567
+ } catch (error) {
568
+ console.error(`FRMSF auto-detect parse error:`, error)
569
+ }
570
+ }
571
+
572
+ console.warn(`Could not detect Fermi surface file format for: ${filename}`)
573
+ return null
574
+ }