molstar 4.0.1 → 4.2.0

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 (907) hide show
  1. package/LICENSE +20 -20
  2. package/README.md +197 -197
  3. package/build/viewer/embedded.html +52 -52
  4. package/build/viewer/index.html +129 -129
  5. package/build/viewer/molstar.js +1 -1
  6. package/build/viewer/molstar.js.LICENSE.txt +0 -9
  7. package/lib/apps/docking-viewer/index.html +36 -36
  8. package/lib/apps/docking-viewer/viewport.d.ts +8 -8
  9. package/lib/apps/mesoscale-explorer/behavior/camera.d.ts +1 -1
  10. package/lib/apps/mesoscale-explorer/behavior/select.d.ts +1 -1
  11. package/lib/apps/mesoscale-explorer/data/cellpack/model.d.ts +2 -2
  12. package/lib/apps/mesoscale-explorer/data/cellpack/preset.d.ts +1 -1
  13. package/lib/apps/mesoscale-explorer/data/cellpack/preset.js +5 -5
  14. package/lib/apps/mesoscale-explorer/data/generic/preset.d.ts +1 -1
  15. package/lib/apps/mesoscale-explorer/data/generic/preset.js +3 -3
  16. package/lib/apps/mesoscale-explorer/data/mmcif/preset.d.ts +1 -1
  17. package/lib/apps/mesoscale-explorer/data/mmcif/preset.js +3 -3
  18. package/lib/apps/mesoscale-explorer/data/petworld/preset.d.ts +1 -1
  19. package/lib/apps/mesoscale-explorer/data/petworld/preset.js +3 -3
  20. package/lib/apps/mesoscale-explorer/data/state.d.ts +19 -10
  21. package/lib/apps/mesoscale-explorer/data/state.js +14 -2
  22. package/lib/apps/mesoscale-explorer/index.html +100 -100
  23. package/lib/apps/mesoscale-explorer/style.scss +33 -33
  24. package/lib/apps/mesoscale-explorer/ui/entities.d.ts +19 -13
  25. package/lib/apps/mesoscale-explorer/ui/entities.js +23 -4
  26. package/lib/apps/viewer/app.d.ts +30 -24
  27. package/lib/apps/viewer/app.js +6 -6
  28. package/lib/apps/viewer/embedded.html +52 -52
  29. package/lib/apps/viewer/index.html +129 -129
  30. package/lib/cli/chem-comp-dict/create-ions.js +9 -9
  31. package/lib/cli/chem-comp-dict/create-saccharides.js +9 -9
  32. package/lib/cli/chem-comp-dict/util.d.ts +112 -112
  33. package/lib/cli/cifschema/util/cif-dic.js +1 -0
  34. package/lib/cli/cifschema/util/generate.js +12 -12
  35. package/lib/cli/lipid-params/index.js +9 -9
  36. package/lib/cli/mvs/mvs-print-schema.d.ts +1 -0
  37. package/lib/cli/mvs/mvs-print-schema.js +1 -0
  38. package/lib/cli/mvs/mvs-render.d.ts +1 -0
  39. package/lib/cli/mvs/mvs-render.js +1 -0
  40. package/lib/cli/mvs/mvs-validate.d.ts +1 -0
  41. package/lib/cli/mvs/mvs-validate.js +1 -0
  42. package/lib/commonjs/apps/docking-viewer/viewport.d.ts +8 -8
  43. package/lib/commonjs/apps/mesoscale-explorer/behavior/camera.d.ts +1 -1
  44. package/lib/commonjs/apps/mesoscale-explorer/behavior/select.d.ts +1 -1
  45. package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/model.d.ts +2 -2
  46. package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/preset.d.ts +1 -1
  47. package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/preset.js +5 -5
  48. package/lib/commonjs/apps/mesoscale-explorer/data/generic/preset.d.ts +1 -1
  49. package/lib/commonjs/apps/mesoscale-explorer/data/generic/preset.js +3 -3
  50. package/lib/commonjs/apps/mesoscale-explorer/data/mmcif/preset.d.ts +1 -1
  51. package/lib/commonjs/apps/mesoscale-explorer/data/mmcif/preset.js +3 -3
  52. package/lib/commonjs/apps/mesoscale-explorer/data/petworld/preset.d.ts +1 -1
  53. package/lib/commonjs/apps/mesoscale-explorer/data/petworld/preset.js +3 -3
  54. package/lib/commonjs/apps/mesoscale-explorer/data/state.d.ts +19 -10
  55. package/lib/commonjs/apps/mesoscale-explorer/data/state.js +15 -3
  56. package/lib/commonjs/apps/mesoscale-explorer/ui/entities.d.ts +19 -13
  57. package/lib/commonjs/apps/mesoscale-explorer/ui/entities.js +22 -3
  58. package/lib/commonjs/apps/viewer/app.d.ts +30 -24
  59. package/lib/commonjs/apps/viewer/app.js +6 -6
  60. package/lib/commonjs/cli/chem-comp-dict/create-ions.js +9 -9
  61. package/lib/commonjs/cli/chem-comp-dict/create-saccharides.js +9 -9
  62. package/lib/commonjs/cli/chem-comp-dict/util.d.ts +112 -112
  63. package/lib/commonjs/cli/cifschema/util/cif-dic.js +1 -0
  64. package/lib/commonjs/cli/cifschema/util/generate.js +12 -12
  65. package/lib/commonjs/cli/lipid-params/index.js +9 -9
  66. package/lib/commonjs/cli/mvs/mvs-print-schema.d.ts +1 -0
  67. package/lib/commonjs/cli/mvs/mvs-print-schema.js +1 -0
  68. package/lib/commonjs/cli/mvs/mvs-render.d.ts +1 -0
  69. package/lib/commonjs/cli/mvs/mvs-render.js +1 -0
  70. package/lib/commonjs/cli/mvs/mvs-validate.d.ts +1 -0
  71. package/lib/commonjs/cli/mvs/mvs-validate.js +1 -0
  72. package/lib/commonjs/examples/alpha-orbitals/example-data.js +160 -160
  73. package/lib/commonjs/extensions/alpha-orbitals/gpu/shader.frag.js +136 -136
  74. package/lib/commonjs/extensions/alpha-orbitals/transforms.d.ts +2 -2
  75. package/lib/commonjs/extensions/anvil/behavior.d.ts +10 -9
  76. package/lib/commonjs/extensions/anvil/representation.d.ts +5 -0
  77. package/lib/commonjs/extensions/assembly-symmetry/behavior.d.ts +2 -1
  78. package/lib/commonjs/extensions/assembly-symmetry/prop.js +24 -24
  79. package/lib/commonjs/extensions/assembly-symmetry/representation.d.ts +1 -0
  80. package/lib/commonjs/extensions/backgrounds/index.d.ts +2 -2
  81. package/lib/commonjs/extensions/backgrounds/index.js +2 -1
  82. package/lib/commonjs/extensions/dnatco/behavior.d.ts +1 -1
  83. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.d.ts +10 -10
  84. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.js +5 -5
  85. package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.d.ts +3 -0
  86. package/lib/commonjs/extensions/dnatco/ntc-tube/behavior.d.ts +10 -10
  87. package/lib/commonjs/extensions/dnatco/ntc-tube/behavior.js +5 -5
  88. package/lib/commonjs/extensions/dnatco/ntc-tube/representation.d.ts +3 -0
  89. package/lib/commonjs/extensions/g3d/format.d.ts +6 -6
  90. package/lib/commonjs/extensions/geo-export/glb-exporter.d.ts +1 -1
  91. package/lib/commonjs/extensions/geo-export/glb-exporter.js +6 -4
  92. package/lib/commonjs/extensions/geo-export/index.d.ts +1 -1
  93. package/lib/commonjs/extensions/geo-export/usdz-exporter.js +41 -41
  94. package/lib/commonjs/extensions/meshes/mesh-extension.d.ts +2 -3
  95. package/lib/commonjs/extensions/meshes/mesh-streaming/behavior.d.ts +1 -1
  96. package/lib/commonjs/extensions/meshes/mesh-streaming/server-info.d.ts +2 -2
  97. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.d.ts +9 -9
  98. package/lib/commonjs/extensions/model-export/index.d.ts +1 -1
  99. package/lib/commonjs/extensions/mp4-export/index.d.ts +1 -1
  100. package/lib/commonjs/extensions/mvs/behavior.d.ts +1 -1
  101. package/lib/commonjs/extensions/mvs/camera.d.ts +2 -0
  102. package/lib/commonjs/extensions/mvs/camera.js +29 -2
  103. package/lib/commonjs/extensions/mvs/components/annotation-label/representation.d.ts +4 -0
  104. package/lib/commonjs/extensions/mvs/components/annotation-label/visual.d.ts +1 -0
  105. package/lib/commonjs/extensions/mvs/components/custom-label/representation.d.ts +4 -2
  106. package/lib/commonjs/extensions/mvs/components/custom-label/visual.d.ts +1 -0
  107. package/lib/commonjs/extensions/mvs/components/formats.d.ts +6 -4
  108. package/lib/commonjs/extensions/mvs/components/formats.js +2 -1
  109. package/lib/commonjs/extensions/mvs/load-helpers.d.ts +1 -1
  110. package/lib/commonjs/extensions/mvs/load.d.ts +2 -0
  111. package/lib/commonjs/extensions/mvs/load.js +12 -6
  112. package/lib/commonjs/extensions/mvs/tree/mvs/mvs-builder.d.ts +2 -8
  113. package/lib/commonjs/extensions/pdbe/structure-quality-report/behavior.d.ts +1 -1
  114. package/lib/commonjs/extensions/rcsb/validation-report/behavior.d.ts +22 -22
  115. package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts +5 -0
  116. package/lib/commonjs/extensions/sb-ncbr/partial-charges/behavior.d.ts +1 -1
  117. package/lib/commonjs/extensions/sb-ncbr/partial-charges/preset.d.ts +4 -4
  118. package/lib/commonjs/extensions/volumes-and-segmentations/entry-meshes.d.ts +1 -1
  119. package/lib/commonjs/extensions/volumes-and-segmentations/entry-root.d.ts +5 -5
  120. package/lib/commonjs/extensions/volumes-and-segmentations/entry-segmentation.d.ts +1 -1
  121. package/lib/commonjs/extensions/volumes-and-segmentations/entry-state.d.ts +2 -2
  122. package/lib/commonjs/extensions/volumes-and-segmentations/global-state.d.ts +2 -2
  123. package/lib/commonjs/extensions/volumes-and-segmentations/helpers.d.ts +1 -1
  124. package/lib/commonjs/extensions/volumes-and-segmentations/index.d.ts +1 -1
  125. package/lib/commonjs/extensions/wwpdb/ccd/behavior.d.ts +1 -1
  126. package/lib/commonjs/extensions/wwpdb/ccd/representation.d.ts +4 -4
  127. package/lib/commonjs/extensions/zenodo/index.d.ts +1 -1
  128. package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +14 -2
  129. package/lib/commonjs/mol-canvas3d/canvas3d.js +2 -2
  130. package/lib/commonjs/mol-canvas3d/controls/trackball.js +1 -1
  131. package/lib/commonjs/mol-canvas3d/helper/handle-helper.d.ts +1 -0
  132. package/lib/commonjs/mol-canvas3d/helper/helper.d.ts +2 -0
  133. package/lib/commonjs/mol-canvas3d/passes/background.d.ts +6 -1
  134. package/lib/commonjs/mol-canvas3d/passes/background.js +13 -1
  135. package/lib/commonjs/mol-canvas3d/passes/bloom.d.ts +37 -0
  136. package/lib/commonjs/mol-canvas3d/passes/bloom.js +272 -0
  137. package/lib/commonjs/mol-canvas3d/passes/dpoit.js +4 -2
  138. package/lib/commonjs/mol-canvas3d/passes/draw.d.ts +11 -7
  139. package/lib/commonjs/mol-canvas3d/passes/draw.js +29 -3
  140. package/lib/commonjs/mol-canvas3d/passes/image.d.ts +6 -0
  141. package/lib/commonjs/mol-canvas3d/passes/postprocessing.d.ts +31 -5
  142. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +35 -40
  143. package/lib/commonjs/mol-geo/geometry/base.d.ts +3 -1
  144. package/lib/commonjs/mol-geo/geometry/base.js +4 -1
  145. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +2 -1
  146. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +4 -1
  147. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.d.ts +2 -1
  148. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +4 -1
  149. package/lib/commonjs/mol-geo/geometry/emissive-data.d.ts +26 -0
  150. package/lib/commonjs/mol-geo/geometry/emissive-data.js +80 -0
  151. package/lib/commonjs/mol-geo/geometry/image/image.d.ts +2 -1
  152. package/lib/commonjs/mol-geo/geometry/image/image.js +4 -1
  153. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +3 -2
  154. package/lib/commonjs/mol-geo/geometry/lines/lines.js +4 -1
  155. package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.d.ts +2 -1
  156. package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.js +36 -2
  157. package/lib/commonjs/mol-geo/geometry/mesh/mesh.d.ts +2 -1
  158. package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +11 -4
  159. package/lib/commonjs/mol-geo/geometry/points/points.d.ts +3 -2
  160. package/lib/commonjs/mol-geo/geometry/points/points.js +4 -1
  161. package/lib/commonjs/mol-geo/geometry/spheres/spheres.d.ts +2 -2
  162. package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +7 -3
  163. package/lib/commonjs/mol-geo/geometry/text/text.d.ts +2 -1
  164. package/lib/commonjs/mol-geo/geometry/text/text.js +4 -1
  165. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.d.ts +2 -1
  166. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.js +34 -2
  167. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +3 -1
  168. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +14 -4
  169. package/lib/commonjs/mol-geo/util/location-iterator.d.ts +5 -2
  170. package/lib/commonjs/mol-geo/util/location-iterator.js +8 -3
  171. package/lib/commonjs/mol-gl/renderable/cylinders.d.ts +10 -0
  172. package/lib/commonjs/mol-gl/renderable/direct-volume.d.ts +10 -0
  173. package/lib/commonjs/mol-gl/renderable/image.d.ts +10 -0
  174. package/lib/commonjs/mol-gl/renderable/lines.d.ts +10 -0
  175. package/lib/commonjs/mol-gl/renderable/mesh.d.ts +10 -0
  176. package/lib/commonjs/mol-gl/renderable/points.d.ts +10 -0
  177. package/lib/commonjs/mol-gl/renderable/schema.d.ts +24 -1
  178. package/lib/commonjs/mol-gl/renderable/schema.js +15 -2
  179. package/lib/commonjs/mol-gl/renderable/spheres.d.ts +10 -0
  180. package/lib/commonjs/mol-gl/renderable/text.d.ts +10 -0
  181. package/lib/commonjs/mol-gl/renderable/texture-mesh.d.ts +10 -0
  182. package/lib/commonjs/mol-gl/renderable.d.ts +1 -1
  183. package/lib/commonjs/mol-gl/renderable.js +2 -2
  184. package/lib/commonjs/mol-gl/renderer.d.ts +2 -1
  185. package/lib/commonjs/mol-gl/renderer.js +58 -49
  186. package/lib/commonjs/mol-gl/scene.d.ts +3 -1
  187. package/lib/commonjs/mol-gl/scene.js +26 -1
  188. package/lib/commonjs/mol-gl/shader/background.frag.d.ts +1 -1
  189. package/lib/commonjs/mol-gl/shader/background.frag.js +95 -94
  190. package/lib/commonjs/mol-gl/shader/background.vert.js +11 -11
  191. package/lib/commonjs/mol-gl/shader/blend-back-dpoit.frag.js +13 -13
  192. package/lib/commonjs/mol-gl/shader/bloom/blur.frag.d.ts +1 -0
  193. package/lib/commonjs/mol-gl/shader/bloom/blur.frag.js +32 -0
  194. package/lib/commonjs/mol-gl/shader/bloom/composite.frag.d.ts +1 -0
  195. package/lib/commonjs/mol-gl/shader/bloom/composite.frag.js +37 -0
  196. package/lib/commonjs/mol-gl/shader/bloom/luminosity.frag.d.ts +1 -0
  197. package/lib/commonjs/mol-gl/shader/bloom/luminosity.frag.js +56 -0
  198. package/lib/commonjs/mol-gl/shader/cas.frag.js +144 -144
  199. package/lib/commonjs/mol-gl/shader/chunks/apply-fog.glsl.js +31 -31
  200. package/lib/commonjs/mol-gl/shader/chunks/apply-interior-color.glsl.js +12 -12
  201. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.d.ts +2 -2
  202. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.js +78 -70
  203. package/lib/commonjs/mol-gl/shader/chunks/apply-marker-color.glsl.js +16 -16
  204. package/lib/commonjs/mol-gl/shader/chunks/assign-clipping-varying.glsl.js +8 -8
  205. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.d.ts +1 -1
  206. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.js +140 -112
  207. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.js +6 -6
  208. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.js +8 -8
  209. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.d.ts +1 -1
  210. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.js +112 -123
  211. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.js +14 -14
  212. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.js +18 -18
  213. package/lib/commonjs/mol-gl/shader/chunks/check-picking-alpha.glsl.js +12 -12
  214. package/lib/commonjs/mol-gl/shader/chunks/check-transparency.glsl.d.ts +1 -0
  215. package/lib/commonjs/mol-gl/shader/chunks/check-transparency.glsl.js +20 -0
  216. package/lib/commonjs/mol-gl/shader/chunks/clip-instance.glsl.js +7 -7
  217. package/lib/commonjs/mol-gl/shader/chunks/clip-pixel.glsl.js +5 -5
  218. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.d.ts +1 -1
  219. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.js +60 -51
  220. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.d.ts +1 -1
  221. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.js +122 -92
  222. package/lib/commonjs/mol-gl/shader/chunks/common-clip.glsl.js +104 -104
  223. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.d.ts +1 -1
  224. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.js +150 -149
  225. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.js +61 -61
  226. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.js +234 -234
  227. package/lib/commonjs/mol-gl/shader/chunks/dpoit-write.glsl.js +62 -62
  228. package/lib/commonjs/mol-gl/shader/chunks/fade-lod.glsl.js +42 -42
  229. package/lib/commonjs/mol-gl/shader/chunks/float-to-rgba.glsl.js +39 -39
  230. package/lib/commonjs/mol-gl/shader/chunks/light-frag-params.glsl.js +127 -127
  231. package/lib/commonjs/mol-gl/shader/chunks/matrix-scale.glsl.js +5 -5
  232. package/lib/commonjs/mol-gl/shader/chunks/normal-frag-params.glsl.js +2 -2
  233. package/lib/commonjs/mol-gl/shader/chunks/read-from-texture.glsl.js +14 -14
  234. package/lib/commonjs/mol-gl/shader/chunks/rgba-to-float.glsl.js +84 -84
  235. package/lib/commonjs/mol-gl/shader/chunks/size-vert-params.glsl.js +11 -11
  236. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-1d-trilinear.glsl.js +23 -23
  237. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-2d-linear.glsl.js +17 -17
  238. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-2d-nearest.glsl.js +8 -8
  239. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.js +25 -25
  240. package/lib/commonjs/mol-gl/shader/compose.frag.js +12 -12
  241. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.frag.js +23 -23
  242. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.js +43 -43
  243. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/normalize.frag.js +15 -15
  244. package/lib/commonjs/mol-gl/shader/copy.frag.js +11 -11
  245. package/lib/commonjs/mol-gl/shader/cylinders.frag.d.ts +2 -2
  246. package/lib/commonjs/mol-gl/shader/cylinders.frag.js +267 -264
  247. package/lib/commonjs/mol-gl/shader/cylinders.vert.js +89 -89
  248. package/lib/commonjs/mol-gl/shader/depth-merge.frag.js +23 -23
  249. package/lib/commonjs/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  250. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +362 -356
  251. package/lib/commonjs/mol-gl/shader/direct-volume.vert.js +41 -41
  252. package/lib/commonjs/mol-gl/shader/evaluate-dpoit.frag.js +10 -10
  253. package/lib/commonjs/mol-gl/shader/evaluate-wboit.frag.js +17 -17
  254. package/lib/commonjs/mol-gl/shader/fxaa.frag.js +228 -228
  255. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.js +49 -49
  256. package/lib/commonjs/mol-gl/shader/gaussian-density.vert.js +27 -27
  257. package/lib/commonjs/mol-gl/shader/hi-z.frag.js +18 -18
  258. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.js +58 -58
  259. package/lib/commonjs/mol-gl/shader/histogram-pyramid/sum.frag.js +19 -19
  260. package/lib/commonjs/mol-gl/shader/image.frag.d.ts +2 -2
  261. package/lib/commonjs/mol-gl/shader/image.frag.js +170 -161
  262. package/lib/commonjs/mol-gl/shader/image.vert.js +21 -21
  263. package/lib/commonjs/mol-gl/shader/lines.frag.d.ts +2 -2
  264. package/lib/commonjs/mol-gl/shader/lines.frag.js +43 -40
  265. package/lib/commonjs/mol-gl/shader/lines.vert.js +117 -117
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  821. package/lib/mol-repr/shape/loci/common.d.ts +1 -0
  822. package/lib/mol-repr/shape/loci/dihedral.d.ts +1 -0
  823. package/lib/mol-repr/shape/loci/distance.d.ts +1 -0
  824. package/lib/mol-repr/shape/loci/label.d.ts +1 -0
  825. package/lib/mol-repr/shape/loci/orientation.d.ts +1 -0
  826. package/lib/mol-repr/shape/loci/plane.d.ts +1 -0
  827. package/lib/mol-repr/shape/model/unitcell.d.ts +1 -0
  828. package/lib/mol-repr/structure/complex-representation.d.ts +1 -1
  829. package/lib/mol-repr/structure/complex-representation.js +7 -1
  830. package/lib/mol-repr/structure/complex-visual.d.ts +8 -1
  831. package/lib/mol-repr/structure/complex-visual.js +5 -1
  832. package/lib/mol-repr/structure/params.d.ts +8 -0
  833. package/lib/mol-repr/structure/registry.d.ts +14 -0
  834. package/lib/mol-repr/structure/representation/backbone.d.ts +3 -0
  835. package/lib/mol-repr/structure/representation/ball-and-stick.d.ts +3 -0
  836. package/lib/mol-repr/structure/representation/carbohydrate.d.ts +3 -0
  837. package/lib/mol-repr/structure/representation/cartoon.d.ts +3 -0
  838. package/lib/mol-repr/structure/representation/ellipsoid.d.ts +3 -0
  839. package/lib/mol-repr/structure/representation/gaussian-surface.d.ts +3 -0
  840. package/lib/mol-repr/structure/representation/gaussian-volume.d.ts +3 -0
  841. package/lib/mol-repr/structure/representation/label.d.ts +3 -0
  842. package/lib/mol-repr/structure/representation/line.d.ts +3 -0
  843. package/lib/mol-repr/structure/representation/molecular-surface.d.ts +3 -0
  844. package/lib/mol-repr/structure/representation/orientation.d.ts +3 -0
  845. package/lib/mol-repr/structure/representation/point.d.ts +3 -0
  846. package/lib/mol-repr/structure/representation/putty.d.ts +3 -0
  847. package/lib/mol-repr/structure/representation/spacefill.d.ts +3 -0
  848. package/lib/mol-repr/structure/units-representation.d.ts +1 -1
  849. package/lib/mol-repr/structure/units-representation.js +9 -3
  850. package/lib/mol-repr/structure/units-visual.d.ts +9 -1
  851. package/lib/mol-repr/structure/units-visual.js +5 -1
  852. package/lib/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +2 -0
  853. package/lib/mol-repr/structure/visual/bond-inter-unit-line.d.ts +1 -0
  854. package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +2 -0
  855. package/lib/mol-repr/structure/visual/bond-intra-unit-line.d.ts +1 -0
  856. package/lib/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +1 -0
  857. package/lib/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +1 -0
  858. package/lib/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +1 -0
  859. package/lib/mol-repr/structure/visual/element-cross.d.ts +1 -0
  860. package/lib/mol-repr/structure/visual/element-point.d.ts +1 -0
  861. package/lib/mol-repr/structure/visual/element-sphere.d.ts +4 -0
  862. package/lib/mol-repr/structure/visual/ellipsoid-mesh.d.ts +1 -0
  863. package/lib/mol-repr/structure/visual/gaussian-density-volume.d.ts +2 -0
  864. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.d.ts +4 -0
  865. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.js +1 -1
  866. package/lib/mol-repr/structure/visual/gaussian-surface-wireframe.d.ts +1 -0
  867. package/lib/mol-repr/structure/visual/label-text.d.ts +1 -0
  868. package/lib/mol-repr/structure/visual/molecular-surface-mesh.d.ts +1 -0
  869. package/lib/mol-repr/structure/visual/molecular-surface-wireframe.d.ts +1 -0
  870. package/lib/mol-repr/structure/visual/nucleotide-atomic-bond.d.ts +2 -0
  871. package/lib/mol-repr/structure/visual/nucleotide-atomic-element.d.ts +2 -0
  872. package/lib/mol-repr/structure/visual/nucleotide-atomic-ring-fill.d.ts +1 -0
  873. package/lib/mol-repr/structure/visual/nucleotide-block-mesh.d.ts +1 -0
  874. package/lib/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts +1 -0
  875. package/lib/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts +1 -0
  876. package/lib/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts +2 -0
  877. package/lib/mol-repr/structure/visual/polymer-backbone-sphere.d.ts +2 -0
  878. package/lib/mol-repr/structure/visual/polymer-direction-wedge.d.ts +1 -0
  879. package/lib/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +1 -0
  880. package/lib/mol-repr/structure/visual/polymer-trace-mesh.d.ts +1 -0
  881. package/lib/mol-repr/structure/visual/polymer-tube-mesh.d.ts +1 -0
  882. package/lib/mol-repr/visual.d.ts +6 -1
  883. package/lib/mol-repr/visual.js +57 -3
  884. package/lib/mol-repr/volume/direct-volume.d.ts +3 -0
  885. package/lib/mol-repr/volume/isosurface.d.ts +6 -0
  886. package/lib/mol-repr/volume/registry.d.ts +4 -0
  887. package/lib/mol-repr/volume/representation.d.ts +2 -1
  888. package/lib/mol-repr/volume/representation.js +9 -2
  889. package/lib/mol-repr/volume/segment.d.ts +5 -0
  890. package/lib/mol-repr/volume/slice.d.ts +3 -0
  891. package/lib/mol-script/language/symbol-table/core.d.ts +3 -3
  892. package/lib/mol-state/tree/immutable.d.ts +1 -1
  893. package/lib/mol-state/tree/transient.d.ts +2 -2
  894. package/lib/mol-theme/color/external-volume.d.ts +3 -1
  895. package/lib/mol-theme/color/external-volume.js +8 -2
  896. package/lib/mol-theme/color.d.ts +1 -0
  897. package/lib/mol-theme/emissive.d.ts +40 -0
  898. package/lib/mol-theme/emissive.js +134 -0
  899. package/lib/mol-theme/substance.d.ts +1 -1
  900. package/lib/mol-theme/substance.js +2 -2
  901. package/lib/mol-theme/transparency.d.ts +0 -1
  902. package/lib/mol-util/input/input-observer.js +2 -0
  903. package/lib/mol-util/set.d.ts +1 -1
  904. package/lib/mol-util/set.js +17 -1
  905. package/lib/servers/common/swagger-ui/indexTemplate.js +66 -66
  906. package/lib/servers/volume/config.js +5 -5
  907. package/package.json +195 -193
@@ -1,6 +1,6 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2018-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  * @author David Sehnal <david.sehnal@gmail.com>
@@ -24,6 +24,7 @@ const clipping_data_1 = require("../clipping-data");
24
24
  const array_1 = require("../../../mol-util/array");
25
25
  const misc_1 = require("../../../mol-math/misc");
26
26
  const substance_data_1 = require("../substance-data");
27
+ const emissive_data_1 = require("../emissive-data");
27
28
  var Mesh;
28
29
  (function (Mesh) {
29
30
  function create(vertices, indices, normals, groups, vertexCount, triangleCount, mesh) {
@@ -572,14 +573,18 @@ var Mesh;
572
573
  const instanceCount = transform.instanceCount.ref.value;
573
574
  const location = (0, location_iterator_1.PositionLocation)();
574
575
  const p = location.position;
575
- const v = mesh.vertexBuffer.ref.value;
576
+ const n = location.normal;
577
+ const vs = mesh.vertexBuffer.ref.value;
578
+ const ns = mesh.normalBuffer.ref.value;
576
579
  const m = transform.aTransform.ref.value;
577
580
  const getLocation = (groupIndex, instanceIndex) => {
578
581
  if (instanceIndex < 0) {
579
- linear_algebra_1.Vec3.fromArray(p, v, groupIndex * 3);
582
+ linear_algebra_1.Vec3.fromArray(p, vs, groupIndex * 3);
583
+ linear_algebra_1.Vec3.fromArray(n, ns, groupIndex * 3);
580
584
  }
581
585
  else {
582
- linear_algebra_1.Vec3.transformMat4Offset(p, v, m, 0, groupIndex * 3, instanceIndex * 16);
586
+ linear_algebra_1.Vec3.transformMat4Offset(p, vs, m, 0, groupIndex * 3, instanceIndex * 16);
587
+ linear_algebra_1.Vec3.transformDirectionOffset(n, ns, m, 0, groupIndex * 3, instanceIndex * 16);
583
588
  }
584
589
  return location;
585
590
  };
@@ -594,6 +599,7 @@ var Mesh;
594
599
  : (0, marker_data_1.createMarkers)(instanceCount * groupCount, 'groupInstance');
595
600
  const overpaint = (0, overpaint_data_1.createEmptyOverpaint)();
596
601
  const transparency = (0, transparency_data_1.createEmptyTransparency)();
602
+ const emissive = (0, emissive_data_1.createEmptyEmissive)();
597
603
  const material = (0, substance_data_1.createEmptySubstance)();
598
604
  const clipping = (0, clipping_data_1.createEmptyClipping)();
599
605
  const counts = { drawCount: mesh.triangleCount * 3, vertexCount: mesh.vertexCount, groupCount, instanceCount };
@@ -613,6 +619,7 @@ var Mesh;
613
619
  ...marker,
614
620
  ...overpaint,
615
621
  ...transparency,
622
+ ...emissive,
616
623
  ...material,
617
624
  ...clipping,
618
625
  ...transform,
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2018-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
@@ -42,7 +42,7 @@ export declare namespace Points {
42
42
  alpha: PD.Numeric;
43
43
  quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
44
44
  material: PD.Group<PD.Normalize<{
45
- metalness: number; /** Number of vertices in the point cloud */
45
+ metalness: number;
46
46
  roughness: number;
47
47
  bumpiness: number;
48
48
  }>>;
@@ -56,6 +56,7 @@ export declare namespace Points {
56
56
  scale: any;
57
57
  }>[];
58
58
  }>>;
59
+ emissive: PD.Numeric;
59
60
  instanceGranularity: PD.BooleanParam;
60
61
  lod: PD.Vec3;
61
62
  cellSize: PD.Numeric;
@@ -1,6 +1,6 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2018-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  */
@@ -22,6 +22,7 @@ const transparency_data_1 = require("../transparency-data");
22
22
  const util_3 = require("../../../mol-data/util");
23
23
  const clipping_data_1 = require("../clipping-data");
24
24
  const substance_data_1 = require("../substance-data");
25
+ const emissive_data_1 = require("../emissive-data");
25
26
  var Points;
26
27
  (function (Points) {
27
28
  function create(centers, groups, pointCount, points) {
@@ -138,6 +139,7 @@ var Points;
138
139
  : (0, marker_data_1.createMarkers)(instanceCount * groupCount, 'groupInstance');
139
140
  const overpaint = (0, overpaint_data_1.createEmptyOverpaint)();
140
141
  const transparency = (0, transparency_data_1.createEmptyTransparency)();
142
+ const emissive = (0, emissive_data_1.createEmptyEmissive)();
141
143
  const material = (0, substance_data_1.createEmptySubstance)();
142
144
  const clipping = (0, clipping_data_1.createEmptyClipping)();
143
145
  const counts = { drawCount: points.pointCount, vertexCount: points.pointCount, groupCount, instanceCount };
@@ -155,6 +157,7 @@ var Points;
155
157
  ...marker,
156
158
  ...overpaint,
157
159
  ...transparency,
160
+ ...emissive,
158
161
  ...material,
159
162
  ...clipping,
160
163
  ...transform,
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
@@ -70,7 +70,6 @@ export declare namespace Spheres {
70
70
  material: PD.Group<PD.Normalize<{
71
71
  metalness: number;
72
72
  roughness: number;
73
- /** Number of spheres */
74
73
  bumpiness: number;
75
74
  }>>;
76
75
  clip: PD.Group<PD.Normalize<{
@@ -83,6 +82,7 @@ export declare namespace Spheres {
83
82
  scale: any;
84
83
  }>[];
85
84
  }>>;
85
+ emissive: PD.Numeric;
86
86
  instanceGranularity: PD.BooleanParam;
87
87
  lod: PD.Vec3;
88
88
  cellSize: PD.Numeric;
@@ -1,6 +1,6 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  */
@@ -22,6 +22,7 @@ const util_3 = require("../../util");
22
22
  const clipping_data_1 = require("../clipping-data");
23
23
  const linear_algebra_1 = require("../../../mol-math/linear-algebra");
24
24
  const substance_data_1 = require("../substance-data");
25
+ const emissive_data_1 = require("../emissive-data");
25
26
  var Spheres;
26
27
  (function (Spheres) {
27
28
  function create(centers, groups, sphereCount, spheres) {
@@ -60,7 +61,7 @@ var Spheres;
60
61
  get boundingSphere() {
61
62
  const newHash = hashCode(spheres);
62
63
  if (newHash !== currentHash) {
63
- const b = (0, util_1.calculateInvariantBoundingSphere)(spheres.centerBuffer.ref.value, spheres.sphereCount * 4, 4);
64
+ const b = (0, util_1.calculateInvariantBoundingSphere)(spheres.centerBuffer.ref.value, spheres.sphereCount, 1);
64
65
  geometry_1.Sphere3D.copy(boundingSphere, b);
65
66
  currentHash = newHash;
66
67
  }
@@ -68,7 +69,7 @@ var Spheres;
68
69
  },
69
70
  get groupMapping() {
70
71
  if (spheres.groupBuffer.ref.version !== currentGroup) {
71
- groupMapping = (0, util_3.createGroupMapping)(spheres.groupBuffer.ref.value, spheres.sphereCount, 4);
72
+ groupMapping = (0, util_3.createGroupMapping)(spheres.groupBuffer.ref.value, spheres.sphereCount);
72
73
  currentGroup = spheres.groupBuffer.ref.version;
73
74
  }
74
75
  return groupMapping;
@@ -97,6 +98,7 @@ var Spheres;
97
98
  }
98
99
  },
99
100
  };
101
+ spheres.shaderData.update();
100
102
  return spheres;
101
103
  }
102
104
  function update(centers, groups, sphereCount, spheres) {
@@ -250,6 +252,7 @@ var Spheres;
250
252
  : (0, marker_data_1.createMarkers)(instanceCount * groupCount, 'groupInstance');
251
253
  const overpaint = (0, overpaint_data_1.createEmptyOverpaint)();
252
254
  const transparency = (0, transparency_data_1.createEmptyTransparency)();
255
+ const emissive = (0, emissive_data_1.createEmptyEmissive)();
253
256
  const material = (0, substance_data_1.createEmptySubstance)();
254
257
  const clipping = (0, clipping_data_1.createEmptyClipping)();
255
258
  const counts = { drawCount: spheres.sphereCount * 2 * 3, vertexCount: spheres.sphereCount * 6, groupCount, instanceCount };
@@ -269,6 +272,7 @@ var Spheres;
269
272
  ...marker,
270
273
  ...overpaint,
271
274
  ...transparency,
275
+ ...emissive,
272
276
  ...material,
273
277
  ...clipping,
274
278
  ...transform,
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
@@ -75,6 +75,7 @@ export declare namespace Text {
75
75
  scale: any;
76
76
  }>[];
77
77
  }>>;
78
+ emissive: PD.Numeric;
78
79
  instanceGranularity: PD.BooleanParam;
79
80
  lod: PD.Vec3;
80
81
  cellSize: PD.Numeric;
@@ -1,6 +1,6 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  */
@@ -26,6 +26,7 @@ const util_2 = require("../../../mol-data/util");
26
26
  const util_3 = require("../../util");
27
27
  const clipping_data_1 = require("../clipping-data");
28
28
  const substance_data_1 = require("../substance-data");
29
+ const emissive_data_1 = require("../emissive-data");
29
30
  var Text;
30
31
  (function (Text) {
31
32
  function create(fontTexture, centers, mappings, depths, indices, groups, tcoords, charCount, text) {
@@ -163,6 +164,7 @@ var Text;
163
164
  : (0, marker_data_1.createMarkers)(instanceCount * groupCount, 'groupInstance');
164
165
  const overpaint = (0, overpaint_data_1.createEmptyOverpaint)();
165
166
  const transparency = (0, transparency_data_1.createEmptyTransparency)();
167
+ const emissive = (0, emissive_data_1.createEmptyEmissive)();
166
168
  const substance = (0, substance_data_1.createEmptySubstance)();
167
169
  const clipping = (0, clipping_data_1.createEmptyClipping)();
168
170
  const counts = { drawCount: text.charCount * 2 * 3, vertexCount: text.charCount * 4, groupCount, instanceCount };
@@ -184,6 +186,7 @@ var Text;
184
186
  ...marker,
185
187
  ...overpaint,
186
188
  ...transparency,
189
+ ...emissive,
187
190
  ...substance,
188
191
  ...clipping,
189
192
  ...transform,
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2021-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2021-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
@@ -64,5 +64,6 @@ export declare function calcTextureMeshColorSmoothing(input: ColorSmoothingInput
64
64
  export declare function applyTextureMeshColorSmoothing(values: TextureMeshValues, resolution: number, stride: number, webgl: WebGLContext, colorTexture?: Texture): void;
65
65
  export declare function applyTextureMeshOverpaintSmoothing(values: TextureMeshValues, resolution: number, stride: number, webgl: WebGLContext, colorTexture?: Texture): void;
66
66
  export declare function applyTextureMeshTransparencySmoothing(values: TextureMeshValues, resolution: number, stride: number, webgl: WebGLContext, colorTexture?: Texture): void;
67
+ export declare function applyTextureMeshEmissiveSmoothing(values: TextureMeshValues, resolution: number, stride: number, webgl: WebGLContext, colorTexture?: Texture): void;
67
68
  export declare function applyTextureMeshSubstanceSmoothing(values: TextureMeshValues, resolution: number, stride: number, webgl: WebGLContext, colorTexture?: Texture): void;
68
69
  export {};
@@ -1,11 +1,11 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2021-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2021-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  */
7
7
  Object.defineProperty(exports, "__esModule", { value: true });
8
- exports.applyTextureMeshSubstanceSmoothing = exports.applyTextureMeshTransparencySmoothing = exports.applyTextureMeshOverpaintSmoothing = exports.applyTextureMeshColorSmoothing = exports.calcTextureMeshColorSmoothing = exports.ColorNormalizeSchema = exports.ColorAccumulateSchema = void 0;
8
+ exports.applyTextureMeshSubstanceSmoothing = exports.applyTextureMeshEmissiveSmoothing = exports.applyTextureMeshTransparencySmoothing = exports.applyTextureMeshOverpaintSmoothing = exports.applyTextureMeshColorSmoothing = exports.calcTextureMeshColorSmoothing = exports.ColorNormalizeSchema = exports.ColorAccumulateSchema = void 0;
9
9
  const mol_util_1 = require("../../../mol-util");
10
10
  const renderable_1 = require("../../../mol-gl/renderable");
11
11
  const texture_1 = require("../../../mol-gl/webgl/texture");
@@ -418,6 +418,38 @@ function applyTextureMeshTransparencySmoothing(values, resolution, stride, webgl
418
418
  mol_util_1.ValueCell.update(values.uTransparencyGridTransform, smoothingData.gridTransform);
419
419
  }
420
420
  exports.applyTextureMeshTransparencySmoothing = applyTextureMeshTransparencySmoothing;
421
+ function isSupportedEmissiveType(x) {
422
+ return x === 'groupInstance';
423
+ }
424
+ function applyTextureMeshEmissiveSmoothing(values, resolution, stride, webgl, colorTexture) {
425
+ if (!isSupportedEmissiveType(values.dEmissiveType.ref.value))
426
+ return;
427
+ stride *= 3; // triple because TextureMesh is never indexed (no elements buffer)
428
+ if (!webgl.namedTextures[ColorSmoothingAlphaName]) {
429
+ webgl.namedTextures[ColorSmoothingAlphaName] = webgl.resources.texture('image-uint8', 'alpha', 'ubyte', 'nearest');
430
+ }
431
+ const colorData = webgl.namedTextures[ColorSmoothingAlphaName];
432
+ colorData.load(values.tEmissive.ref.value);
433
+ const smoothingData = calcTextureMeshColorSmoothing({
434
+ vertexCount: values.uVertexCount.ref.value,
435
+ instanceCount: values.uInstanceCount.ref.value,
436
+ groupCount: values.uGroupCount.ref.value,
437
+ transformBuffer: values.aTransform.ref.value,
438
+ instanceBuffer: values.aInstance.ref.value,
439
+ positionTexture: values.tPosition.ref.value,
440
+ groupTexture: values.tGroup.ref.value,
441
+ colorData,
442
+ colorType: values.dEmissiveType.ref.value,
443
+ boundingSphere: values.boundingSphere.ref.value,
444
+ invariantBoundingSphere: values.invariantBoundingSphere.ref.value,
445
+ }, resolution, stride, webgl, colorTexture);
446
+ mol_util_1.ValueCell.updateIfChanged(values.dEmissiveType, smoothingData.type);
447
+ mol_util_1.ValueCell.update(values.tEmissiveGrid, smoothingData.texture);
448
+ mol_util_1.ValueCell.update(values.uEmissiveTexDim, smoothingData.gridTexDim);
449
+ mol_util_1.ValueCell.update(values.uEmissiveGridDim, smoothingData.gridDim);
450
+ mol_util_1.ValueCell.update(values.uEmissiveGridTransform, smoothingData.gridTransform);
451
+ }
452
+ exports.applyTextureMeshEmissiveSmoothing = applyTextureMeshEmissiveSmoothing;
421
453
  function isSupportedSubstanceType(x) {
422
454
  return x === 'groupInstance';
423
455
  }
@@ -1,7 +1,8 @@
1
1
  /**
2
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
+ * @author Cai Huiyu <szmun.caihy@gmail.com>
5
6
  */
6
7
  import { ValueCell } from '../../../mol-util';
7
8
  import { Sphere3D } from '../../../mol-math/geometry';
@@ -68,6 +69,7 @@ export declare namespace TextureMesh {
68
69
  scale: any;
69
70
  }>[];
70
71
  }>>;
72
+ emissive: PD.Numeric;
71
73
  instanceGranularity: PD.BooleanParam;
72
74
  lod: PD.Vec3;
73
75
  cellSize: PD.Numeric;
@@ -1,8 +1,9 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
+ * @author Cai Huiyu <szmun.caihy@gmail.com>
6
7
  */
7
8
  Object.defineProperty(exports, "__esModule", { value: true });
8
9
  exports.TextureMesh = void 0;
@@ -21,6 +22,7 @@ const linear_algebra_1 = require("../../../mol-math/linear-algebra");
21
22
  const clipping_data_1 = require("../clipping-data");
22
23
  const location_1 = require("../../../mol-model/location");
23
24
  const substance_data_1 = require("../substance-data");
25
+ const emissive_data_1 = require("../emissive-data");
24
26
  var TextureMesh;
25
27
  (function (TextureMesh) {
26
28
  class DoubleBuffer {
@@ -121,18 +123,24 @@ var TextureMesh;
121
123
  framebuffer.bind();
122
124
  textureMesh.vertexTexture.ref.value.attachFramebuffer(framebuffer, 0);
123
125
  webgl.readPixels(0, 0, width, height, vertices);
126
+ const normals = new Float32Array(width * height * 4);
127
+ framebuffer.bind();
128
+ textureMesh.normalTexture.ref.value.attachFramebuffer(framebuffer, 0);
129
+ webgl.readPixels(0, 0, width, height, normals);
124
130
  const groupCount = textureMesh.vertexCount;
125
131
  const instanceCount = transform.instanceCount.ref.value;
126
132
  const location = (0, location_iterator_1.PositionLocation)();
127
133
  const p = location.position;
128
- const v = vertices;
134
+ const n = location.normal;
129
135
  const m = transform.aTransform.ref.value;
130
136
  const getLocation = (groupIndex, instanceIndex) => {
131
137
  if (instanceIndex < 0) {
132
- linear_algebra_1.Vec3.fromArray(p, v, groupIndex * 4);
138
+ linear_algebra_1.Vec3.fromArray(p, vertices, groupIndex * 4);
139
+ linear_algebra_1.Vec3.fromArray(n, normals, groupIndex * 4);
133
140
  }
134
141
  else {
135
- linear_algebra_1.Vec3.transformMat4Offset(p, v, m, 0, groupIndex * 4, instanceIndex * 16);
142
+ linear_algebra_1.Vec3.transformMat4Offset(p, vertices, m, 0, groupIndex * 4, instanceIndex * 16);
143
+ linear_algebra_1.Vec3.transformDirectionOffset(n, normals, m, 0, groupIndex * 4, instanceIndex * 16);
136
144
  }
137
145
  return location;
138
146
  };
@@ -147,6 +155,7 @@ var TextureMesh;
147
155
  : (0, marker_data_1.createMarkers)(instanceCount * groupCount, 'groupInstance');
148
156
  const overpaint = (0, overpaint_data_1.createEmptyOverpaint)();
149
157
  const transparency = (0, transparency_data_1.createEmptyTransparency)();
158
+ const emissive = (0, emissive_data_1.createEmptyEmissive)();
150
159
  const substance = (0, substance_data_1.createEmptySubstance)();
151
160
  const clipping = (0, clipping_data_1.createEmptyClipping)();
152
161
  const counts = { drawCount: textureMesh.vertexCount, vertexCount: textureMesh.vertexCount, groupCount, instanceCount };
@@ -166,6 +175,7 @@ var TextureMesh;
166
175
  ...marker,
167
176
  ...overpaint,
168
177
  ...transparency,
178
+ ...emissive,
169
179
  ...substance,
170
180
  ...clipping,
171
181
  ...transform,
@@ -1,8 +1,9 @@
1
1
  /**
2
- * Copyright (c) 2018-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  * @author Gianluca Tomasello <giagitom@gmail.com>
6
+ * @author Cai Huiyu <szmun.caihy@gmail.com>
6
7
  */
7
8
  import { Iterator } from '../../mol-data';
8
9
  import { Vec3 } from '../../mol-math/linear-algebra';
@@ -36,7 +37,9 @@ export declare function LocationIterator(groupCount: number, instanceCount: numb
36
37
  export interface PositionLocation {
37
38
  readonly kind: 'position-location';
38
39
  readonly position: Vec3;
40
+ /** Normal vector at the position (used for surface coloring) */
41
+ readonly normal: Vec3;
39
42
  }
40
- export declare function PositionLocation(position?: Vec3): PositionLocation;
43
+ export declare function PositionLocation(position?: Vec3, normal?: Vec3): PositionLocation;
41
44
  export declare function isPositionLocation(x: any): x is PositionLocation;
42
45
  export {};
@@ -1,9 +1,10 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2018-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  * @author Gianluca Tomasello <giagitom@gmail.com>
7
+ * @author Cai Huiyu <szmun.caihy@gmail.com>
7
8
  */
8
9
  Object.defineProperty(exports, "__esModule", { value: true });
9
10
  exports.isPositionLocation = exports.PositionLocation = exports.LocationIterator = void 0;
@@ -85,8 +86,12 @@ function LocationIterator(groupCount, instanceCount, stride, getLocation, nonIns
85
86
  };
86
87
  }
87
88
  exports.LocationIterator = LocationIterator;
88
- function PositionLocation(position) {
89
- return { kind: 'position-location', position: position ? linear_algebra_1.Vec3.clone(position) : (0, linear_algebra_1.Vec3)() };
89
+ function PositionLocation(position, normal) {
90
+ return {
91
+ kind: 'position-location',
92
+ position: position ? linear_algebra_1.Vec3.clone(position) : (0, linear_algebra_1.Vec3)(),
93
+ normal: normal ? linear_algebra_1.Vec3.clone(normal) : (0, linear_algebra_1.Vec3)()
94
+ };
90
95
  }
91
96
  exports.PositionLocation = PositionLocation;
92
97
  function isPositionLocation(x) {
@@ -45,6 +45,7 @@ export declare const CylindersSchema: {
45
45
  uMetalness: UniformSpec<"f">;
46
46
  uRoughness: UniformSpec<"f">;
47
47
  uBumpiness: UniformSpec<"f">;
48
+ uEmissive: UniformSpec<"f">;
48
49
  uVertexCount: UniformSpec<"i">;
49
50
  uInstanceCount: UniformSpec<"i">;
50
51
  uGroupCount: UniformSpec<"i">;
@@ -73,6 +74,15 @@ export declare const CylindersSchema: {
73
74
  tSubstanceGrid: import("./schema").TextureSpec<"texture">;
74
75
  dSubstanceType: DefineSpec<"string">;
75
76
  uSubstanceStrength: UniformSpec<"f">;
77
+ uEmissiveTexDim: UniformSpec<"v2">;
78
+ tEmissive: import("./schema").TextureSpec<"image-uint8">;
79
+ dEmissive: DefineSpec<"boolean">;
80
+ emissiveAverage: ValueSpec<"number">;
81
+ uEmissiveGridDim: UniformSpec<"v3">;
82
+ uEmissiveGridTransform: UniformSpec<"v4">;
83
+ tEmissiveGrid: import("./schema").TextureSpec<"texture">;
84
+ dEmissiveType: DefineSpec<"string">;
85
+ uEmissiveStrength: UniformSpec<"f">;
76
86
  uTransparencyTexDim: UniformSpec<"v2">;
77
87
  tTransparency: import("./schema").TextureSpec<"image-uint8">;
78
88
  dTransparency: DefineSpec<"boolean">;
@@ -46,6 +46,7 @@ export declare const DirectVolumeSchema: {
46
46
  uMetalness: UniformSpec<"f">;
47
47
  uRoughness: UniformSpec<"f">;
48
48
  uBumpiness: UniformSpec<"f">;
49
+ uEmissive: UniformSpec<"f">;
49
50
  uVertexCount: UniformSpec<"i">;
50
51
  uInstanceCount: UniformSpec<"i">;
51
52
  uGroupCount: UniformSpec<"i">;
@@ -74,6 +75,15 @@ export declare const DirectVolumeSchema: {
74
75
  tSubstanceGrid: TextureSpec<"texture">;
75
76
  dSubstanceType: DefineSpec<"string">;
76
77
  uSubstanceStrength: UniformSpec<"f">;
78
+ uEmissiveTexDim: UniformSpec<"v2">;
79
+ tEmissive: TextureSpec<"image-uint8">;
80
+ dEmissive: DefineSpec<"boolean">;
81
+ emissiveAverage: import("./schema").ValueSpec<"number">;
82
+ uEmissiveGridDim: UniformSpec<"v3">;
83
+ uEmissiveGridTransform: UniformSpec<"v4">;
84
+ tEmissiveGrid: TextureSpec<"texture">;
85
+ dEmissiveType: DefineSpec<"string">;
86
+ uEmissiveStrength: UniformSpec<"f">;
77
87
  uTransparencyTexDim: UniformSpec<"v2">;
78
88
  tTransparency: TextureSpec<"image-uint8">;
79
89
  dTransparency: DefineSpec<"boolean">;
@@ -31,6 +31,7 @@ export declare const ImageSchema: {
31
31
  uMetalness: UniformSpec<"f">;
32
32
  uRoughness: UniformSpec<"f">;
33
33
  uBumpiness: UniformSpec<"f">;
34
+ uEmissive: UniformSpec<"f">;
34
35
  uVertexCount: UniformSpec<"i">;
35
36
  uInstanceCount: UniformSpec<"i">;
36
37
  uGroupCount: UniformSpec<"i">;
@@ -59,6 +60,15 @@ export declare const ImageSchema: {
59
60
  tSubstanceGrid: TextureSpec<"texture">;
60
61
  dSubstanceType: DefineSpec<"string">;
61
62
  uSubstanceStrength: UniformSpec<"f">;
63
+ uEmissiveTexDim: UniformSpec<"v2">;
64
+ tEmissive: TextureSpec<"image-uint8">;
65
+ dEmissive: DefineSpec<"boolean">;
66
+ emissiveAverage: import("./schema").ValueSpec<"number">;
67
+ uEmissiveGridDim: UniformSpec<"v3">;
68
+ uEmissiveGridTransform: UniformSpec<"v4">;
69
+ tEmissiveGrid: TextureSpec<"texture">;
70
+ dEmissiveType: DefineSpec<"string">;
71
+ uEmissiveStrength: UniformSpec<"f">;
62
72
  uTransparencyTexDim: UniformSpec<"v2">;
63
73
  tTransparency: TextureSpec<"image-uint8">;
64
74
  dTransparency: DefineSpec<"boolean">;
@@ -36,6 +36,7 @@ export declare const LinesSchema: {
36
36
  uMetalness: UniformSpec<"f">;
37
37
  uRoughness: UniformSpec<"f">;
38
38
  uBumpiness: UniformSpec<"f">;
39
+ uEmissive: UniformSpec<"f">;
39
40
  uVertexCount: UniformSpec<"i">;
40
41
  uInstanceCount: UniformSpec<"i">;
41
42
  uGroupCount: UniformSpec<"i">;
@@ -64,6 +65,15 @@ export declare const LinesSchema: {
64
65
  tSubstanceGrid: import("./schema").TextureSpec<"texture">;
65
66
  dSubstanceType: DefineSpec<"string">;
66
67
  uSubstanceStrength: UniformSpec<"f">;
68
+ uEmissiveTexDim: UniformSpec<"v2">;
69
+ tEmissive: import("./schema").TextureSpec<"image-uint8">;
70
+ dEmissive: DefineSpec<"boolean">;
71
+ emissiveAverage: import("./schema").ValueSpec<"number">;
72
+ uEmissiveGridDim: UniformSpec<"v3">;
73
+ uEmissiveGridTransform: UniformSpec<"v4">;
74
+ tEmissiveGrid: import("./schema").TextureSpec<"texture">;
75
+ dEmissiveType: DefineSpec<"string">;
76
+ uEmissiveStrength: UniformSpec<"f">;
67
77
  uTransparencyTexDim: UniformSpec<"v2">;
68
78
  tTransparency: import("./schema").TextureSpec<"image-uint8">;
69
79
  dTransparency: DefineSpec<"boolean">;
@@ -37,6 +37,7 @@ export declare const MeshSchema: {
37
37
  readonly uMetalness: UniformSpec<"f">;
38
38
  readonly uRoughness: UniformSpec<"f">;
39
39
  readonly uBumpiness: UniformSpec<"f">;
40
+ readonly uEmissive: UniformSpec<"f">;
40
41
  readonly uVertexCount: UniformSpec<"i">;
41
42
  readonly uInstanceCount: UniformSpec<"i">;
42
43
  readonly uGroupCount: UniformSpec<"i">;
@@ -65,6 +66,15 @@ export declare const MeshSchema: {
65
66
  readonly tSubstanceGrid: import("./schema").TextureSpec<"texture">;
66
67
  readonly dSubstanceType: DefineSpec<"string">;
67
68
  readonly uSubstanceStrength: UniformSpec<"f">;
69
+ readonly uEmissiveTexDim: UniformSpec<"v2">;
70
+ readonly tEmissive: import("./schema").TextureSpec<"image-uint8">;
71
+ readonly dEmissive: DefineSpec<"boolean">;
72
+ readonly emissiveAverage: ValueSpec<"number">;
73
+ readonly uEmissiveGridDim: UniformSpec<"v3">;
74
+ readonly uEmissiveGridTransform: UniformSpec<"v4">;
75
+ readonly tEmissiveGrid: import("./schema").TextureSpec<"texture">;
76
+ readonly dEmissiveType: DefineSpec<"string">;
77
+ readonly uEmissiveStrength: UniformSpec<"f">;
68
78
  readonly uTransparencyTexDim: UniformSpec<"v2">;
69
79
  readonly tTransparency: import("./schema").TextureSpec<"image-uint8">;
70
80
  readonly dTransparency: DefineSpec<"boolean">;
@@ -32,6 +32,7 @@ export declare const PointsSchema: {
32
32
  uMetalness: import("./schema").UniformSpec<"f">;
33
33
  uRoughness: import("./schema").UniformSpec<"f">;
34
34
  uBumpiness: import("./schema").UniformSpec<"f">;
35
+ uEmissive: import("./schema").UniformSpec<"f">;
35
36
  uVertexCount: import("./schema").UniformSpec<"i">;
36
37
  uInstanceCount: import("./schema").UniformSpec<"i">;
37
38
  uGroupCount: import("./schema").UniformSpec<"i">;
@@ -60,6 +61,15 @@ export declare const PointsSchema: {
60
61
  tSubstanceGrid: import("./schema").TextureSpec<"texture">;
61
62
  dSubstanceType: DefineSpec<"string">;
62
63
  uSubstanceStrength: import("./schema").UniformSpec<"f">;
64
+ uEmissiveTexDim: import("./schema").UniformSpec<"v2">;
65
+ tEmissive: import("./schema").TextureSpec<"image-uint8">;
66
+ dEmissive: DefineSpec<"boolean">;
67
+ emissiveAverage: import("./schema").ValueSpec<"number">;
68
+ uEmissiveGridDim: import("./schema").UniformSpec<"v3">;
69
+ uEmissiveGridTransform: import("./schema").UniformSpec<"v4">;
70
+ tEmissiveGrid: import("./schema").TextureSpec<"texture">;
71
+ dEmissiveType: DefineSpec<"string">;
72
+ uEmissiveStrength: import("./schema").UniformSpec<"f">;
63
73
  uTransparencyTexDim: import("./schema").UniformSpec<"v2">;
64
74
  tTransparency: import("./schema").TextureSpec<"image-uint8">;
65
75
  dTransparency: DefineSpec<"boolean">;
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2018-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  * @author Gianluca Tomasello <giagitom@gmail.com>
@@ -211,6 +211,19 @@ export declare const TransparencySchema: {
211
211
  };
212
212
  export type TransparencySchema = typeof TransparencySchema;
213
213
  export type TransparencyValues = Values<TransparencySchema>;
214
+ export declare const EmissiveSchema: {
215
+ readonly uEmissiveTexDim: UniformSpec<"v2">;
216
+ readonly tEmissive: TextureSpec<"image-uint8">;
217
+ readonly dEmissive: DefineSpec<"boolean">;
218
+ readonly emissiveAverage: ValueSpec<"number">;
219
+ readonly uEmissiveGridDim: UniformSpec<"v3">;
220
+ readonly uEmissiveGridTransform: UniformSpec<"v4">;
221
+ readonly tEmissiveGrid: TextureSpec<"texture">;
222
+ readonly dEmissiveType: DefineSpec<"string">;
223
+ readonly uEmissiveStrength: UniformSpec<"f">;
224
+ };
225
+ export type EmissiveSchema = typeof EmissiveSchema;
226
+ export type EmissiveValues = Values<EmissiveSchema>;
214
227
  export declare const SubstanceSchema: {
215
228
  readonly uSubstanceTexDim: UniformSpec<"v2">;
216
229
  readonly tSubstance: TextureSpec<"image-uint8">;
@@ -254,6 +267,7 @@ export declare const BaseSchema: {
254
267
  readonly uMetalness: UniformSpec<"f">;
255
268
  readonly uRoughness: UniformSpec<"f">;
256
269
  readonly uBumpiness: UniformSpec<"f">;
270
+ readonly uEmissive: UniformSpec<"f">;
257
271
  readonly uVertexCount: UniformSpec<"i">;
258
272
  readonly uInstanceCount: UniformSpec<"i">;
259
273
  readonly uGroupCount: UniformSpec<"i">;
@@ -290,6 +304,15 @@ export declare const BaseSchema: {
290
304
  readonly tSubstanceGrid: TextureSpec<"texture">;
291
305
  readonly dSubstanceType: DefineSpec<"string">;
292
306
  readonly uSubstanceStrength: UniformSpec<"f">;
307
+ readonly uEmissiveTexDim: UniformSpec<"v2">;
308
+ readonly tEmissive: TextureSpec<"image-uint8">;
309
+ readonly dEmissive: DefineSpec<"boolean">;
310
+ readonly emissiveAverage: ValueSpec<"number">;
311
+ readonly uEmissiveGridDim: UniformSpec<"v3">;
312
+ readonly uEmissiveGridTransform: UniformSpec<"v4">;
313
+ readonly tEmissiveGrid: TextureSpec<"texture">;
314
+ readonly dEmissiveType: DefineSpec<"string">;
315
+ readonly uEmissiveStrength: UniformSpec<"f">;
293
316
  readonly uTransparencyTexDim: UniformSpec<"v2">;
294
317
  readonly tTransparency: TextureSpec<"image-uint8">;
295
318
  readonly dTransparency: DefineSpec<"boolean">;