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
  /**
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
  */
6
- export declare const text_frag = "\nprecision highp float;\nprecision highp int;\n\n#include common\n#include common_frag_params\n#include color_frag_params\n#include common_clip\n\nuniform sampler2D tFont;\n\nuniform vec3 uBorderColor;\nuniform float uBorderWidth;\nuniform vec3 uBackgroundColor;\nuniform float uBackgroundOpacity;\n\nvarying vec2 vTexCoord;\n\nconst float smoothness = 32.0;\nconst float gamma = 2.2;\n\nvoid main2(){\n gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);\n}\n\nvoid main(){\n #include fade_lod\n #include clip_pixel\n\n float fragmentDepth = gl_FragCoord.z;\n #include assign_material_color\n\n if (vTexCoord.x > 1.0) {\n #if defined(dRenderVariant_color)\n material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);\n #endif\n } else {\n // retrieve signed distance\n float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;\n\n // perform adaptive anti-aliasing of the edges\n float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);\n float a = smoothstep(0.5 - w, 0.5 + w, sdf);\n\n // gamma correction for linear attenuation\n a = pow(a, 1.0 / gamma);\n\n if (a < 0.5) discard;\n\n #if defined(dRenderVariant_color)\n material.a *= a;\n\n // add border\n float t = 0.5 + uBorderWidth;\n if (uBorderWidth > 0.0 && sdf < t) {\n material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));\n }\n #endif\n }\n\n #if defined(dRenderVariant_pick)\n #include check_picking_alpha\n #ifdef requiredDrawBuffers\n gl_FragColor = vObject;\n gl_FragData[1] = vInstance;\n gl_FragData[2] = vGroup;\n gl_FragData[3] = packDepthToRGBA(fragmentDepth);\n #else\n gl_FragColor = vColor;\n #endif\n #elif defined(dRenderVariant_depth)\n gl_FragColor = material;\n #elif defined(dRenderVariant_marking)\n gl_FragColor = material;\n #elif defined(dRenderVariant_color)\n gl_FragColor = material;\n\n #include apply_marker_color\n #include apply_fog\n #include wboit_write\n #include dpoit_write\n #endif\n}\n";
6
+ export declare const text_frag = "\nprecision highp float;\nprecision highp int;\n\n#include common\n#include common_frag_params\n#include color_frag_params\n#include common_clip\n\nuniform sampler2D tFont;\n\nuniform vec3 uBorderColor;\nuniform float uBorderWidth;\nuniform vec3 uBackgroundColor;\nuniform float uBackgroundOpacity;\n\nvarying vec2 vTexCoord;\n\nconst float smoothness = 32.0;\nconst float gamma = 2.2;\n\nvoid main2(){\n gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);\n}\n\nvoid main(){\n #include fade_lod\n #include clip_pixel\n\n float fragmentDepth = gl_FragCoord.z;\n #include assign_material_color\n\n if (vTexCoord.x > 1.0) {\n #if defined(dRenderVariant_color)\n material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);\n #endif\n } else {\n // retrieve signed distance\n float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;\n\n // perform adaptive anti-aliasing of the edges\n float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);\n float a = clamp(0.0, 1.0, smoothstep(0.5 - w, 0.5 + w, sdf));\n\n // gamma correction for linear attenuation\n a = pow(a, 1.0 / gamma);\n\n if (a < 0.5) discard;\n\n #if defined(dRenderVariant_color)\n // add border\n float t = 0.5 + uBorderWidth;\n if (uBorderWidth > 0.0 && sdf < t) {\n material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));\n }\n #endif\n }\n\n #include check_transparency\n\n #if defined(dRenderVariant_pick)\n #include check_picking_alpha\n #ifdef requiredDrawBuffers\n gl_FragColor = vObject;\n gl_FragData[1] = vInstance;\n gl_FragData[2] = vGroup;\n gl_FragData[3] = packDepthToRGBA(fragmentDepth);\n #else\n gl_FragColor = vColor;\n #endif\n #elif defined(dRenderVariant_depth)\n gl_FragColor = material;\n #elif defined(dRenderVariant_marking)\n gl_FragColor = material;\n #elif defined(dRenderVariant_emissive)\n gl_FragColor = material;\n #elif defined(dRenderVariant_color)\n gl_FragColor = material;\n\n #include apply_marker_color\n #include apply_fog\n #include wboit_write\n #include dpoit_write\n #endif\n}\n";
@@ -1,92 +1,94 @@
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
  */
7
7
  Object.defineProperty(exports, "__esModule", { value: true });
8
8
  exports.text_frag = void 0;
9
- exports.text_frag = `
10
- precision highp float;
11
- precision highp int;
12
-
13
- #include common
14
- #include common_frag_params
15
- #include color_frag_params
16
- #include common_clip
17
-
18
- uniform sampler2D tFont;
19
-
20
- uniform vec3 uBorderColor;
21
- uniform float uBorderWidth;
22
- uniform vec3 uBackgroundColor;
23
- uniform float uBackgroundOpacity;
24
-
25
- varying vec2 vTexCoord;
26
-
27
- const float smoothness = 32.0;
28
- const float gamma = 2.2;
29
-
30
- void main2(){
31
- gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);
32
- }
33
-
34
- void main(){
35
- #include fade_lod
36
- #include clip_pixel
37
-
38
- float fragmentDepth = gl_FragCoord.z;
39
- #include assign_material_color
40
-
41
- if (vTexCoord.x > 1.0) {
42
- #if defined(dRenderVariant_color)
43
- material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);
44
- #endif
45
- } else {
46
- // retrieve signed distance
47
- float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;
48
-
49
- // perform adaptive anti-aliasing of the edges
50
- float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);
51
- float a = smoothstep(0.5 - w, 0.5 + w, sdf);
52
-
53
- // gamma correction for linear attenuation
54
- a = pow(a, 1.0 / gamma);
55
-
56
- if (a < 0.5) discard;
57
-
58
- #if defined(dRenderVariant_color)
59
- material.a *= a;
60
-
61
- // add border
62
- float t = 0.5 + uBorderWidth;
63
- if (uBorderWidth > 0.0 && sdf < t) {
64
- material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));
65
- }
66
- #endif
67
- }
68
-
69
- #if defined(dRenderVariant_pick)
70
- #include check_picking_alpha
71
- #ifdef requiredDrawBuffers
72
- gl_FragColor = vObject;
73
- gl_FragData[1] = vInstance;
74
- gl_FragData[2] = vGroup;
75
- gl_FragData[3] = packDepthToRGBA(fragmentDepth);
76
- #else
77
- gl_FragColor = vColor;
78
- #endif
79
- #elif defined(dRenderVariant_depth)
80
- gl_FragColor = material;
81
- #elif defined(dRenderVariant_marking)
82
- gl_FragColor = material;
83
- #elif defined(dRenderVariant_color)
84
- gl_FragColor = material;
85
-
86
- #include apply_marker_color
87
- #include apply_fog
88
- #include wboit_write
89
- #include dpoit_write
90
- #endif
91
- }
9
+ exports.text_frag = `
10
+ precision highp float;
11
+ precision highp int;
12
+
13
+ #include common
14
+ #include common_frag_params
15
+ #include color_frag_params
16
+ #include common_clip
17
+
18
+ uniform sampler2D tFont;
19
+
20
+ uniform vec3 uBorderColor;
21
+ uniform float uBorderWidth;
22
+ uniform vec3 uBackgroundColor;
23
+ uniform float uBackgroundOpacity;
24
+
25
+ varying vec2 vTexCoord;
26
+
27
+ const float smoothness = 32.0;
28
+ const float gamma = 2.2;
29
+
30
+ void main2(){
31
+ gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);
32
+ }
33
+
34
+ void main(){
35
+ #include fade_lod
36
+ #include clip_pixel
37
+
38
+ float fragmentDepth = gl_FragCoord.z;
39
+ #include assign_material_color
40
+
41
+ if (vTexCoord.x > 1.0) {
42
+ #if defined(dRenderVariant_color)
43
+ material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);
44
+ #endif
45
+ } else {
46
+ // retrieve signed distance
47
+ float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;
48
+
49
+ // perform adaptive anti-aliasing of the edges
50
+ float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);
51
+ float a = clamp(0.0, 1.0, smoothstep(0.5 - w, 0.5 + w, sdf));
52
+
53
+ // gamma correction for linear attenuation
54
+ a = pow(a, 1.0 / gamma);
55
+
56
+ if (a < 0.5) discard;
57
+
58
+ #if defined(dRenderVariant_color)
59
+ // add border
60
+ float t = 0.5 + uBorderWidth;
61
+ if (uBorderWidth > 0.0 && sdf < t) {
62
+ material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));
63
+ }
64
+ #endif
65
+ }
66
+
67
+ #include check_transparency
68
+
69
+ #if defined(dRenderVariant_pick)
70
+ #include check_picking_alpha
71
+ #ifdef requiredDrawBuffers
72
+ gl_FragColor = vObject;
73
+ gl_FragData[1] = vInstance;
74
+ gl_FragData[2] = vGroup;
75
+ gl_FragData[3] = packDepthToRGBA(fragmentDepth);
76
+ #else
77
+ gl_FragColor = vColor;
78
+ #endif
79
+ #elif defined(dRenderVariant_depth)
80
+ gl_FragColor = material;
81
+ #elif defined(dRenderVariant_marking)
82
+ gl_FragColor = material;
83
+ #elif defined(dRenderVariant_emissive)
84
+ gl_FragColor = material;
85
+ #elif defined(dRenderVariant_color)
86
+ gl_FragColor = material;
87
+
88
+ #include apply_marker_color
89
+ #include apply_fog
90
+ #include wboit_write
91
+ #include dpoit_write
92
+ #endif
93
+ }
92
94
  `;
@@ -6,89 +6,89 @@
6
6
  */
7
7
  Object.defineProperty(exports, "__esModule", { value: true });
8
8
  exports.text_vert = void 0;
9
- exports.text_vert = `
10
- precision highp float;
11
- precision highp int;
12
-
13
- #include common
14
- #include read_from_texture
15
- #include common_vert_params
16
- #include color_vert_params
17
- #include size_vert_params
18
- #include common_clip
19
-
20
- uniform mat4 uModelView;
21
-
22
- attribute vec3 aPosition;
23
- attribute vec2 aMapping;
24
- attribute float aDepth;
25
- attribute vec2 aTexCoord;
26
- attribute mat4 aTransform;
27
- attribute float aInstance;
28
- attribute float aGroup;
29
-
30
- uniform float uOffsetX;
31
- uniform float uOffsetY;
32
- uniform float uOffsetZ;
33
-
34
- uniform float uIsOrtho;
35
- uniform float uPixelRatio;
36
- uniform vec4 uViewport;
37
-
38
- varying vec2 vTexCoord;
39
-
40
- #include matrix_scale
41
-
42
- void main(void){
43
- #include assign_group
44
- #include assign_color_varying
45
- #include assign_marker_varying
46
- #include assign_clipping_varying
47
- #include assign_size
48
-
49
- vTexCoord = aTexCoord;
50
-
51
- float scale = matrixScale(uModelView);
52
-
53
- float offsetX = uOffsetX * scale;
54
- float offsetY = uOffsetY * scale;
55
- float offsetZ = (uOffsetZ + aDepth * 0.95) * scale;
56
-
57
- vec4 position4 = vec4(aPosition, 1.0);
58
- vec4 mvPosition = uModelView * aTransform * position4;
59
-
60
- vModelPosition = (uModel * aTransform * position4).xyz; // for clipping in frag shader
61
-
62
- // TODO
63
- // #ifdef FIXED_SIZE
64
- // if (ortho) {
65
- // scale /= pixelRatio * ((uViewport.w / 2.0) / -uCameraPosition.z) * 0.1;
66
- // } else {
67
- // scale /= pixelRatio * ((uViewport.w / 2.0) / -mvPosition.z) * 0.1;
68
- // }
69
- // #endif
70
-
71
- vec4 mvCorner = vec4(mvPosition.xyz, 1.0);
72
-
73
- if (vTexCoord.x == 10.0) { // indicates background plane
74
- // move a bit to the back, taking distance to camera into account to avoid z-fighting
75
- offsetZ -= 0.001 * distance(uCameraPosition, (uProjection * mvCorner).xyz);
76
- }
77
-
78
- mvCorner.xy += aMapping * size * scale;
79
- mvCorner.x += offsetX;
80
- mvCorner.y += offsetY;
81
-
82
- if (uIsOrtho == 1.0) {
83
- mvCorner.z += offsetZ;
84
- } else {
85
- mvCorner.xyz += normalize(-mvCorner.xyz) * offsetZ;
86
- }
87
-
88
- gl_Position = uProjection * mvCorner;
89
-
90
- vViewPosition = -mvCorner.xyz;
91
-
92
- #include clip_instance
93
- }
9
+ exports.text_vert = `
10
+ precision highp float;
11
+ precision highp int;
12
+
13
+ #include common
14
+ #include read_from_texture
15
+ #include common_vert_params
16
+ #include color_vert_params
17
+ #include size_vert_params
18
+ #include common_clip
19
+
20
+ uniform mat4 uModelView;
21
+
22
+ attribute vec3 aPosition;
23
+ attribute vec2 aMapping;
24
+ attribute float aDepth;
25
+ attribute vec2 aTexCoord;
26
+ attribute mat4 aTransform;
27
+ attribute float aInstance;
28
+ attribute float aGroup;
29
+
30
+ uniform float uOffsetX;
31
+ uniform float uOffsetY;
32
+ uniform float uOffsetZ;
33
+
34
+ uniform float uIsOrtho;
35
+ uniform float uPixelRatio;
36
+ uniform vec4 uViewport;
37
+
38
+ varying vec2 vTexCoord;
39
+
40
+ #include matrix_scale
41
+
42
+ void main(void){
43
+ #include assign_group
44
+ #include assign_color_varying
45
+ #include assign_marker_varying
46
+ #include assign_clipping_varying
47
+ #include assign_size
48
+
49
+ vTexCoord = aTexCoord;
50
+
51
+ float scale = matrixScale(uModelView);
52
+
53
+ float offsetX = uOffsetX * scale;
54
+ float offsetY = uOffsetY * scale;
55
+ float offsetZ = (uOffsetZ + aDepth * 0.95) * scale;
56
+
57
+ vec4 position4 = vec4(aPosition, 1.0);
58
+ vec4 mvPosition = uModelView * aTransform * position4;
59
+
60
+ vModelPosition = (uModel * aTransform * position4).xyz; // for clipping in frag shader
61
+
62
+ // TODO
63
+ // #ifdef FIXED_SIZE
64
+ // if (ortho) {
65
+ // scale /= pixelRatio * ((uViewport.w / 2.0) / -uCameraPosition.z) * 0.1;
66
+ // } else {
67
+ // scale /= pixelRatio * ((uViewport.w / 2.0) / -mvPosition.z) * 0.1;
68
+ // }
69
+ // #endif
70
+
71
+ vec4 mvCorner = vec4(mvPosition.xyz, 1.0);
72
+
73
+ if (vTexCoord.x == 10.0) { // indicates background plane
74
+ // move a bit to the back, taking distance to camera into account to avoid z-fighting
75
+ offsetZ -= 0.001 * distance(uCameraPosition, (uProjection * mvCorner).xyz);
76
+ }
77
+
78
+ mvCorner.xy += aMapping * size * scale;
79
+ mvCorner.x += offsetX;
80
+ mvCorner.y += offsetY;
81
+
82
+ if (uIsOrtho == 1.0) {
83
+ mvCorner.z += offsetZ;
84
+ } else {
85
+ mvCorner.xyz += normalize(-mvCorner.xyz) * offsetZ;
86
+ }
87
+
88
+ gl_Position = uProjection * mvCorner;
89
+
90
+ vViewPosition = -mvCorner.xyz;
91
+
92
+ #include clip_instance
93
+ }
94
94
  `;
@@ -6,50 +6,50 @@
6
6
  */
7
7
  Object.defineProperty(exports, "__esModule", { value: true });
8
8
  exports.grid3dTemplate_frag = void 0;
9
- exports.grid3dTemplate_frag = `
10
- precision highp float;
11
- precision highp int;
12
- precision highp sampler2D;
13
-
14
- uniform vec2 uQuadShift;
15
- uniform vec3 uDimensions;
16
- uniform vec3 uMin;
17
- uniform vec3 uDelta;
18
- uniform bool uLittleEndian;
19
- uniform float uWidth;
20
-
21
- #ifdef CUMULATIVE
22
- uniform sampler2D tCumulativeSum;
23
- #endif
24
-
25
- {UNIFORMS}
26
-
27
- {UTILS}
28
-
29
- #include float_to_rgba
30
- #ifdef CUMULATIVE
31
- #include rgba_to_float
32
- #endif
33
-
34
- float intDiv(float a, float b) { return float(int(a) / int(b)); }
35
- float intMod(float a, float b) { return a - b * float(int(a) / int(b)); }
36
-
37
- void main(void) {
38
- float offset = floor(gl_FragCoord.x) + floor(gl_FragCoord.y) * uWidth;
39
-
40
- // axis order fast to slow Z, Y, X
41
- // TODO: support arbitrary axis orders?
42
- float k = intMod(offset, uDimensions.z), kk = intDiv(offset, uDimensions.z);
43
- float j = intMod(kk, uDimensions.y);
44
- float i = intDiv(kk, uDimensions.y);
45
-
46
- vec3 xyz = uMin + uDelta * vec3(i, j, k);
47
-
48
- {MAIN}
49
-
50
- #ifdef CUMULATIVE
51
- float current = rgbaToFloat(texture2D(tCumulativeSum, gl_FragCoord.xy / vec2(uWidth, uWidth)), uLittleEndian);
52
- #endif
53
- gl_FragColor = floatToRgba({RETURN}, uLittleEndian);
54
- }
9
+ exports.grid3dTemplate_frag = `
10
+ precision highp float;
11
+ precision highp int;
12
+ precision highp sampler2D;
13
+
14
+ uniform vec2 uQuadShift;
15
+ uniform vec3 uDimensions;
16
+ uniform vec3 uMin;
17
+ uniform vec3 uDelta;
18
+ uniform bool uLittleEndian;
19
+ uniform float uWidth;
20
+
21
+ #ifdef CUMULATIVE
22
+ uniform sampler2D tCumulativeSum;
23
+ #endif
24
+
25
+ {UNIFORMS}
26
+
27
+ {UTILS}
28
+
29
+ #include float_to_rgba
30
+ #ifdef CUMULATIVE
31
+ #include rgba_to_float
32
+ #endif
33
+
34
+ float intDiv(float a, float b) { return float(int(a) / int(b)); }
35
+ float intMod(float a, float b) { return a - b * float(int(a) / int(b)); }
36
+
37
+ void main(void) {
38
+ float offset = floor(gl_FragCoord.x) + floor(gl_FragCoord.y) * uWidth;
39
+
40
+ // axis order fast to slow Z, Y, X
41
+ // TODO: support arbitrary axis orders?
42
+ float k = intMod(offset, uDimensions.z), kk = intDiv(offset, uDimensions.z);
43
+ float j = intMod(kk, uDimensions.y);
44
+ float i = intDiv(kk, uDimensions.y);
45
+
46
+ vec3 xyz = uMin + uDelta * vec3(i, j, k);
47
+
48
+ {MAIN}
49
+
50
+ #ifdef CUMULATIVE
51
+ float current = rgbaToFloat(texture2D(tCumulativeSum, gl_FragCoord.xy / vec2(uWidth, uWidth)), uLittleEndian);
52
+ #endif
53
+ gl_FragColor = floatToRgba({RETURN}, uLittleEndian);
54
+ }
55
55
  `;
@@ -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
  */
@@ -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 assign_material_color_glsl_1 = require("./shader/chunks/assign-material-co
22
22
  const assign_position_glsl_1 = require("./shader/chunks/assign-position.glsl");
23
23
  const assign_size_glsl_1 = require("./shader/chunks/assign-size.glsl");
24
24
  const check_picking_alpha_glsl_1 = require("./shader/chunks/check-picking-alpha.glsl");
25
+ const check_transparency_glsl_1 = require("./shader/chunks/check-transparency.glsl");
25
26
  const clip_instance_glsl_1 = require("./shader/chunks/clip-instance.glsl");
26
27
  const clip_pixel_glsl_1 = require("./shader/chunks/clip-pixel.glsl");
27
28
  const color_frag_params_glsl_1 = require("./shader/chunks/color-frag-params.glsl");
@@ -56,6 +57,7 @@ const ShaderChunks = {
56
57
  assign_position: assign_position_glsl_1.assign_position,
57
58
  assign_size: assign_size_glsl_1.assign_size,
58
59
  check_picking_alpha: check_picking_alpha_glsl_1.check_picking_alpha,
60
+ check_transparency: check_transparency_glsl_1.check_transparency,
59
61
  clip_instance: clip_instance_glsl_1.clip_instance,
60
62
  clip_pixel: clip_pixel_glsl_1.clip_pixel,
61
63
  color_frag_params: color_frag_params_glsl_1.color_frag_params,
@@ -131,13 +133,17 @@ function ignoreDefine(name, variant, defines) {
131
133
  }
132
134
  }
133
135
  else {
134
- return [
136
+ const ignore = [
135
137
  'dColorType', 'dUsePalette',
136
138
  'dLightCount', 'dXrayShaded',
137
139
  'dOverpaintType', 'dOverpaint',
138
140
  'dSubstanceType', 'dSubstance',
139
141
  'dColorMarker',
140
- ].includes(name);
142
+ ];
143
+ if (variant !== 'emissive') {
144
+ ignore.push('dEmissiveType', 'dEmissive');
145
+ }
146
+ return ignore.includes(name);
141
147
  }
142
148
  return false;
143
149
  }
@@ -259,22 +265,22 @@ function getGlsl100FragPrefix(extensions, shaderExtensions) {
259
265
  }
260
266
  return prefix.join('\n') + '\n';
261
267
  }
262
- const glsl300VertPrefixCommon = `
263
- #define attribute in
264
- #define varying out
265
- #define texture2D texture
268
+ const glsl300VertPrefixCommon = `
269
+ #define attribute in
270
+ #define varying out
271
+ #define texture2D texture
266
272
  `;
267
- const glsl300FragPrefixCommon = `
268
- #define varying in
269
- #define texture2D texture
270
- #define textureCube texture
271
- #define texture2DLodEXT textureLod
272
- #define textureCubeLodEXT textureLod
273
-
274
- #define gl_FragColor out_FragData0
275
- #define gl_FragDepthEXT gl_FragDepth
276
-
277
- #define depthTextureSupport
273
+ const glsl300FragPrefixCommon = `
274
+ #define varying in
275
+ #define texture2D texture
276
+ #define textureCube texture
277
+ #define texture2DLodEXT textureLod
278
+ #define textureCubeLodEXT textureLod
279
+
280
+ #define gl_FragColor out_FragData0
281
+ #define gl_FragDepthEXT gl_FragDepth
282
+
283
+ #define depthTextureSupport
278
284
  `;
279
285
  function getGlsl300VertPrefix(extensions, shaderExtensions) {
280
286
  const prefix = [
@@ -460,19 +460,19 @@ function getNoNonInstancedActiveAttribs(gl) {
460
460
  }
461
461
  exports.getNoNonInstancedActiveAttribs = getNoNonInstancedActiveAttribs;
462
462
  //
463
- const TextureTestVertShader = `
464
- attribute vec4 aPosition;
465
-
466
- void main() {
467
- gl_Position = aPosition;
463
+ const TextureTestVertShader = `
464
+ attribute vec4 aPosition;
465
+
466
+ void main() {
467
+ gl_Position = aPosition;
468
468
  }`;
469
- const TextureTestFragShader = `
470
- precision mediump float;
471
- uniform vec4 uColor;
472
- uniform sampler2D uTexture;
473
-
474
- void main() {
475
- gl_FragColor = texture2D(uTexture, vec2(0.5, 0.5)) * uColor;
469
+ const TextureTestFragShader = `
470
+ precision mediump float;
471
+ uniform vec4 uColor;
472
+ uniform sampler2D uTexture;
473
+
474
+ void main() {
475
+ gl_FragColor = texture2D(uTexture, vec2(0.5, 0.5)) * uColor;
476
476
  }`;
477
477
  const TextureTestTexCoords = new Float32Array([
478
478
  -1.0, -1.0, 1.0, -1.0, -1.0, 1.0, -1.0, 1.0, 1.0, -1.0, 1.0, 1.0
@@ -38,9 +38,10 @@ declare const GraphicsRenderVariant: {
38
38
  pick: string;
39
39
  depth: string;
40
40
  marking: string;
41
+ emissive: string;
41
42
  };
42
43
  export type GraphicsRenderVariant = keyof typeof GraphicsRenderVariant;
43
- export declare const GraphicsRenderVariants: ("color" | "depth" | "pick" | "marking")[];
44
+ export declare const GraphicsRenderVariants: ("color" | "emissive" | "depth" | "pick" | "marking")[];
44
45
  declare const ComputeRenderVariant: {
45
46
  compute: string;
46
47
  };
@@ -48,7 +49,7 @@ export type ComputeRenderVariant = keyof typeof ComputeRenderVariant;
48
49
  export declare const ComputeRenderVariants: "compute"[];
49
50
  export type Transparency = 'blended' | 'wboit' | 'dpoit' | undefined;
50
51
  export type GraphicsRenderItem = RenderItem<GraphicsRenderVariant>;
51
- export declare function createGraphicsRenderItem(ctx: WebGLContext, drawMode: DrawMode, shaderCode: ShaderCode, schema: RenderableSchema, values: RenderableValues, materialId: number, transparency: Transparency): RenderItem<"color" | "depth" | "pick" | "marking">;
52
+ export declare function createGraphicsRenderItem(ctx: WebGLContext, drawMode: DrawMode, shaderCode: ShaderCode, schema: RenderableSchema, values: RenderableValues, materialId: number, transparency: Transparency): RenderItem<"color" | "emissive" | "depth" | "pick" | "marking">;
52
53
  export type ComputeRenderItem = RenderItem<ComputeRenderVariant>;
53
54
  export declare function createComputeRenderItem(ctx: WebGLContext, drawMode: DrawMode, shaderCode: ShaderCode, schema: RenderableSchema, values: RenderableValues, materialId?: number): RenderItem<"compute">;
54
55
  /**
@@ -33,7 +33,7 @@ function getDrawMode(ctx, drawMode) {
33
33
  }
34
34
  exports.getDrawMode = getDrawMode;
35
35
  //
36
- const GraphicsRenderVariant = { color: '', pick: '', depth: '', marking: '' };
36
+ const GraphicsRenderVariant = { color: '', pick: '', depth: '', marking: '', emissive: '' };
37
37
  exports.GraphicsRenderVariants = Object.keys(GraphicsRenderVariant);
38
38
  const ComputeRenderVariant = { compute: '' };
39
39
  exports.ComputeRenderVariants = Object.keys(ComputeRenderVariant);
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2017 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2017-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * Adapted from CIFTools.js (https://github.com/dsehnal/CIFTools.js; MIT) and MMTF (https://github.com/rcsb/mmtf-javascript/; MIT)
5
5
  *
@@ -1,6 +1,6 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2017 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2017-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * Adapted from CIFTools.js (https://github.com/dsehnal/CIFTools.js; MIT) and MMTF (https://github.com/rcsb/mmtf-javascript/; MIT)
6
6
  *
@@ -49,8 +49,11 @@ var ArrayEncoder;
49
49
  ArrayEncoder.by = by;
50
50
  function fromEncoding(encoding) {
51
51
  let e = by(getProvider(encoding[0]));
52
- for (let i = 1; i < encoding.length; i++)
52
+ for (let i = 1; i < encoding.length; i++) {
53
+ if (encoding[i - 1].kind === 'IntegerPacking')
54
+ break;
53
55
  e = e.and(getProvider(encoding[i]));
56
+ }
54
57
  return e;
55
58
  }
56
59
  ArrayEncoder.fromEncoding = fromEncoding;
@@ -1,7 +1,7 @@
1
1
  /**
2
2
  * Copyright (c) 2017-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
- * Code-generated 'BIRD' schema file. Dictionary versions: mmCIF 5.386, IHM 1.25, MA 1.4.6.
4
+ * Code-generated 'BIRD' schema file. Dictionary versions: mmCIF 5.391, IHM 1.25, MA 1.4.6.
5
5
  *
6
6
  * @author molstar/ciftools package
7
7
  */