molstar 4.2.0 → 4.3.0

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 (339) 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 +9 -0
  7. package/lib/apps/docking-viewer/index.html +36 -36
  8. package/lib/apps/mesoscale-explorer/index.html +100 -100
  9. package/lib/apps/mesoscale-explorer/style.scss +33 -33
  10. package/lib/apps/viewer/app.d.ts +2 -1
  11. package/lib/apps/viewer/app.js +2 -1
  12. package/lib/apps/viewer/embedded.html +52 -52
  13. package/lib/apps/viewer/index.html +129 -129
  14. package/lib/cli/chem-comp-dict/create-ions.js +9 -9
  15. package/lib/cli/chem-comp-dict/create-saccharides.js +9 -9
  16. package/lib/cli/cifschema/util/generate.js +12 -12
  17. package/lib/cli/lipid-params/index.js +9 -9
  18. package/lib/commonjs/apps/viewer/app.d.ts +2 -1
  19. package/lib/commonjs/apps/viewer/app.js +1 -0
  20. package/lib/commonjs/cli/chem-comp-dict/create-ions.js +9 -9
  21. package/lib/commonjs/cli/chem-comp-dict/create-saccharides.js +9 -9
  22. package/lib/commonjs/cli/cifschema/util/generate.js +12 -12
  23. package/lib/commonjs/cli/lipid-params/index.js +9 -9
  24. package/lib/commonjs/examples/alpha-orbitals/example-data.js +160 -160
  25. package/lib/commonjs/extensions/alpha-orbitals/gpu/shader.frag.js +136 -136
  26. package/lib/commonjs/extensions/assembly-symmetry/prop.js +24 -24
  27. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.js +5 -5
  28. package/lib/commonjs/extensions/dnatco/ntc-tube/behavior.js +5 -5
  29. package/lib/commonjs/extensions/geo-export/usdz-exporter.js +41 -41
  30. package/lib/commonjs/extensions/meshes/mesh-extension.d.ts +1 -0
  31. package/lib/commonjs/extensions/mp4-export/encoder.js +1 -1
  32. package/lib/commonjs/extensions/mvs/components/annotation-label/representation.d.ts +0 -2
  33. package/lib/commonjs/extensions/mvs/components/custom-label/representation.d.ts +2 -2
  34. package/lib/commonjs/extensions/mvs/tree/mvs/mvs-builder.d.ts +8 -2
  35. package/lib/commonjs/extensions/sb-ncbr/index.d.ts +8 -0
  36. package/lib/commonjs/extensions/sb-ncbr/index.js +14 -1
  37. package/lib/commonjs/extensions/sb-ncbr/tunnels/actions.d.ts +20 -0
  38. package/lib/commonjs/extensions/sb-ncbr/tunnels/actions.js +89 -0
  39. package/lib/commonjs/extensions/sb-ncbr/tunnels/algorithm.d.ts +26 -0
  40. package/lib/commonjs/extensions/sb-ncbr/tunnels/algorithm.js +474 -0
  41. package/lib/commonjs/extensions/sb-ncbr/tunnels/behavior.d.ts +40 -0
  42. package/lib/commonjs/extensions/sb-ncbr/tunnels/behavior.js +96 -0
  43. package/lib/commonjs/extensions/sb-ncbr/tunnels/data-model.d.ts +146 -0
  44. package/lib/commonjs/extensions/sb-ncbr/tunnels/data-model.js +28 -0
  45. package/lib/commonjs/extensions/sb-ncbr/tunnels/examples.d.ts +12 -0
  46. package/lib/commonjs/extensions/sb-ncbr/tunnels/examples.js +54 -0
  47. package/lib/commonjs/extensions/sb-ncbr/tunnels/props.d.ts +19 -0
  48. package/lib/commonjs/extensions/sb-ncbr/tunnels/props.js +26 -0
  49. package/lib/commonjs/extensions/sb-ncbr/tunnels/representation.d.ts +29 -0
  50. package/lib/commonjs/extensions/sb-ncbr/tunnels/representation.js +99 -0
  51. package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +17 -0
  52. package/lib/commonjs/mol-canvas3d/canvas3d.js +4 -0
  53. package/lib/commonjs/mol-canvas3d/passes/dof.d.ts +34 -0
  54. package/lib/commonjs/mol-canvas3d/passes/dof.js +167 -0
  55. package/lib/commonjs/mol-canvas3d/passes/draw.d.ts +2 -0
  56. package/lib/commonjs/mol-canvas3d/passes/draw.js +31 -8
  57. package/lib/commonjs/mol-canvas3d/passes/image.d.ts +8 -0
  58. package/lib/commonjs/mol-canvas3d/passes/postprocessing.d.ts +8 -0
  59. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +5 -0
  60. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +0 -1
  61. package/lib/commonjs/mol-gl/shader/background.frag.js +95 -95
  62. package/lib/commonjs/mol-gl/shader/background.vert.js +11 -11
  63. package/lib/commonjs/mol-gl/shader/blend-back-dpoit.frag.js +13 -13
  64. package/lib/commonjs/mol-gl/shader/bloom/blur.frag.js +28 -28
  65. package/lib/commonjs/mol-gl/shader/bloom/composite.frag.js +33 -33
  66. package/lib/commonjs/mol-gl/shader/bloom/luminosity.frag.js +52 -52
  67. package/lib/commonjs/mol-gl/shader/cas.frag.js +144 -144
  68. package/lib/commonjs/mol-gl/shader/chunks/apply-fog.glsl.js +31 -31
  69. package/lib/commonjs/mol-gl/shader/chunks/apply-interior-color.glsl.js +12 -12
  70. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.js +77 -77
  71. package/lib/commonjs/mol-gl/shader/chunks/apply-marker-color.glsl.js +16 -16
  72. package/lib/commonjs/mol-gl/shader/chunks/assign-clipping-varying.glsl.js +8 -8
  73. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.js +140 -140
  74. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.js +6 -6
  75. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.js +8 -8
  76. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.js +112 -112
  77. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.js +14 -14
  78. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.js +18 -18
  79. package/lib/commonjs/mol-gl/shader/chunks/check-picking-alpha.glsl.js +12 -12
  80. package/lib/commonjs/mol-gl/shader/chunks/check-transparency.glsl.js +16 -16
  81. package/lib/commonjs/mol-gl/shader/chunks/clip-instance.glsl.js +7 -7
  82. package/lib/commonjs/mol-gl/shader/chunks/clip-pixel.glsl.js +5 -5
  83. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.js +60 -60
  84. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.js +122 -122
  85. package/lib/commonjs/mol-gl/shader/chunks/common-clip.glsl.js +104 -104
  86. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.js +150 -150
  87. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.js +61 -61
  88. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.js +234 -234
  89. package/lib/commonjs/mol-gl/shader/chunks/dpoit-write.glsl.js +62 -62
  90. package/lib/commonjs/mol-gl/shader/chunks/fade-lod.glsl.js +42 -42
  91. package/lib/commonjs/mol-gl/shader/chunks/float-to-rgba.glsl.js +39 -39
  92. package/lib/commonjs/mol-gl/shader/chunks/light-frag-params.glsl.js +127 -127
  93. package/lib/commonjs/mol-gl/shader/chunks/matrix-scale.glsl.js +5 -5
  94. package/lib/commonjs/mol-gl/shader/chunks/normal-frag-params.glsl.js +2 -2
  95. package/lib/commonjs/mol-gl/shader/chunks/read-from-texture.glsl.js +14 -14
  96. package/lib/commonjs/mol-gl/shader/chunks/rgba-to-float.glsl.js +84 -84
  97. package/lib/commonjs/mol-gl/shader/chunks/size-vert-params.glsl.js +11 -11
  98. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-1d-trilinear.glsl.js +23 -23
  99. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-2d-linear.glsl.js +17 -17
  100. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-2d-nearest.glsl.js +8 -8
  101. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.js +25 -25
  102. package/lib/commonjs/mol-gl/shader/compose.frag.js +12 -12
  103. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.frag.js +23 -23
  104. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.js +43 -43
  105. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/normalize.frag.js +15 -15
  106. package/lib/commonjs/mol-gl/shader/copy.frag.js +11 -11
  107. package/lib/commonjs/mol-gl/shader/cylinders.frag.js +266 -266
  108. package/lib/commonjs/mol-gl/shader/cylinders.vert.js +89 -89
  109. package/lib/commonjs/mol-gl/shader/depth-merge.frag.js +23 -23
  110. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +362 -362
  111. package/lib/commonjs/mol-gl/shader/direct-volume.vert.js +41 -41
  112. package/lib/commonjs/mol-gl/shader/dof.frag.d.ts +7 -0
  113. package/lib/commonjs/mol-gl/shader/dof.frag.js +122 -0
  114. package/lib/commonjs/mol-gl/shader/evaluate-dpoit.frag.js +10 -10
  115. package/lib/commonjs/mol-gl/shader/evaluate-wboit.frag.js +17 -17
  116. package/lib/commonjs/mol-gl/shader/fxaa.frag.js +228 -228
  117. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.js +49 -49
  118. package/lib/commonjs/mol-gl/shader/gaussian-density.vert.js +27 -27
  119. package/lib/commonjs/mol-gl/shader/hi-z.frag.js +18 -18
  120. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.js +58 -58
  121. package/lib/commonjs/mol-gl/shader/histogram-pyramid/sum.frag.js +19 -19
  122. package/lib/commonjs/mol-gl/shader/image.frag.js +169 -169
  123. package/lib/commonjs/mol-gl/shader/image.vert.js +21 -21
  124. package/lib/commonjs/mol-gl/shader/lines.frag.js +42 -42
  125. package/lib/commonjs/mol-gl/shader/lines.vert.js +117 -117
  126. package/lib/commonjs/mol-gl/shader/marching-cubes/active-voxels.frag.js +70 -70
  127. package/lib/commonjs/mol-gl/shader/marching-cubes/isosurface.frag.js +311 -311
  128. package/lib/commonjs/mol-gl/shader/marking/edge.frag.js +28 -28
  129. package/lib/commonjs/mol-gl/shader/marking/overlay.frag.js +26 -26
  130. package/lib/commonjs/mol-gl/shader/mesh.frag.js +65 -65
  131. package/lib/commonjs/mol-gl/shader/mesh.vert.js +49 -49
  132. package/lib/commonjs/mol-gl/shader/outlines.frag.js +95 -95
  133. package/lib/commonjs/mol-gl/shader/points.frag.js +59 -59
  134. package/lib/commonjs/mol-gl/shader/points.vert.js +38 -38
  135. package/lib/commonjs/mol-gl/shader/postprocessing.frag.js +150 -150
  136. package/lib/commonjs/mol-gl/shader/quad.vert.js +10 -10
  137. package/lib/commonjs/mol-gl/shader/shadows.frag.js +123 -123
  138. package/lib/commonjs/mol-gl/shader/smaa/blend.frag.js +56 -56
  139. package/lib/commonjs/mol-gl/shader/smaa/blend.vert.js +25 -25
  140. package/lib/commonjs/mol-gl/shader/smaa/edges.frag.js +66 -66
  141. package/lib/commonjs/mol-gl/shader/smaa/edges.vert.js +26 -26
  142. package/lib/commonjs/mol-gl/shader/smaa/weights.frag.js +206 -206
  143. package/lib/commonjs/mol-gl/shader/smaa/weights.vert.js +32 -32
  144. package/lib/commonjs/mol-gl/shader/spheres.frag.js +148 -148
  145. package/lib/commonjs/mol-gl/shader/spheres.vert.js +132 -132
  146. package/lib/commonjs/mol-gl/shader/ssao-blur.frag.js +97 -97
  147. package/lib/commonjs/mol-gl/shader/ssao.frag.js +211 -211
  148. package/lib/commonjs/mol-gl/shader/text.frag.js +85 -85
  149. package/lib/commonjs/mol-gl/shader/text.vert.js +85 -85
  150. package/lib/commonjs/mol-gl/shader/util/grid3d-template.frag.js +46 -46
  151. package/lib/commonjs/mol-gl/shader-code.js +15 -15
  152. package/lib/commonjs/mol-gl/webgl/compat.js +12 -12
  153. package/lib/commonjs/mol-gl/webgl/context.js +1 -0
  154. package/lib/commonjs/mol-gl/webgl/timer.d.ts +1 -1
  155. package/lib/commonjs/mol-gl/webgl/timer.js +8 -1
  156. package/lib/commonjs/mol-math/linear-algebra/3d/minimize-rmsd.js +2 -1
  157. package/lib/commonjs/mol-plugin/animation-loop.d.ts +1 -0
  158. package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/behavior.d.ts +6 -6
  159. package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +1 -1
  160. package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/transformers.d.ts +3 -3
  161. package/lib/commonjs/mol-plugin-state/animation/built-in/state-snapshots.js +7 -3
  162. package/lib/commonjs/mol-plugin-ui/viewport/simple-settings.js +3 -0
  163. package/lib/commonjs/servers/common/swagger-ui/indexTemplate.js +66 -66
  164. package/lib/commonjs/servers/volume/config.js +5 -5
  165. package/lib/examples/alpha-orbitals/example-data.js +160 -160
  166. package/lib/examples/alpha-orbitals/index.html +72 -72
  167. package/lib/examples/basic-wrapper/index.html +137 -137
  168. package/lib/examples/lighting/index.html +88 -88
  169. package/lib/examples/proteopedia-wrapper/index.html +236 -236
  170. package/lib/extensions/alpha-orbitals/gpu/shader.frag.js +136 -136
  171. package/lib/extensions/assembly-symmetry/prop.js +24 -24
  172. package/lib/extensions/dnatco/confal-pyramids/behavior.js +5 -5
  173. package/lib/extensions/dnatco/ntc-tube/behavior.js +5 -5
  174. package/lib/extensions/geo-export/usdz-exporter.js +41 -41
  175. package/lib/extensions/meshes/mesh-extension.d.ts +1 -0
  176. package/lib/extensions/mp4-export/encoder.js +1 -1
  177. package/lib/extensions/mvs/components/annotation-label/representation.d.ts +0 -2
  178. package/lib/extensions/mvs/components/custom-label/representation.d.ts +2 -2
  179. package/lib/extensions/mvs/tree/mvs/mvs-builder.d.ts +8 -2
  180. package/lib/extensions/sb-ncbr/index.d.ts +8 -0
  181. package/lib/extensions/sb-ncbr/index.js +8 -0
  182. package/lib/extensions/sb-ncbr/tunnels/actions.d.ts +20 -0
  183. package/lib/extensions/sb-ncbr/tunnels/actions.js +86 -0
  184. package/lib/extensions/sb-ncbr/tunnels/algorithm.d.ts +26 -0
  185. package/lib/extensions/sb-ncbr/tunnels/algorithm.js +469 -0
  186. package/lib/extensions/sb-ncbr/tunnels/behavior.d.ts +40 -0
  187. package/lib/extensions/sb-ncbr/tunnels/behavior.js +92 -0
  188. package/lib/extensions/sb-ncbr/tunnels/data-model.d.ts +146 -0
  189. package/lib/extensions/sb-ncbr/tunnels/data-model.js +23 -0
  190. package/lib/extensions/sb-ncbr/tunnels/examples.d.ts +12 -0
  191. package/lib/extensions/sb-ncbr/tunnels/examples.js +49 -0
  192. package/lib/extensions/sb-ncbr/tunnels/props.d.ts +19 -0
  193. package/lib/extensions/sb-ncbr/tunnels/props.js +22 -0
  194. package/lib/extensions/sb-ncbr/tunnels/representation.d.ts +29 -0
  195. package/lib/extensions/sb-ncbr/tunnels/representation.js +96 -0
  196. package/lib/mol-canvas3d/canvas3d.d.ts +17 -0
  197. package/lib/mol-canvas3d/canvas3d.js +4 -0
  198. package/lib/mol-canvas3d/passes/dof.d.ts +34 -0
  199. package/lib/mol-canvas3d/passes/dof.js +163 -0
  200. package/lib/mol-canvas3d/passes/draw.d.ts +2 -0
  201. package/lib/mol-canvas3d/passes/draw.js +31 -8
  202. package/lib/mol-canvas3d/passes/image.d.ts +8 -0
  203. package/lib/mol-canvas3d/passes/postprocessing.d.ts +8 -0
  204. package/lib/mol-canvas3d/passes/postprocessing.js +5 -0
  205. package/lib/mol-geo/geometry/lines/lines.d.ts +0 -1
  206. package/lib/mol-gl/shader/background.frag.js +95 -95
  207. package/lib/mol-gl/shader/background.vert.js +11 -11
  208. package/lib/mol-gl/shader/blend-back-dpoit.frag.js +13 -13
  209. package/lib/mol-gl/shader/bloom/blur.frag.js +28 -28
  210. package/lib/mol-gl/shader/bloom/composite.frag.js +33 -33
  211. package/lib/mol-gl/shader/bloom/luminosity.frag.js +52 -52
  212. package/lib/mol-gl/shader/cas.frag.js +144 -144
  213. package/lib/mol-gl/shader/chunks/apply-fog.glsl.js +31 -31
  214. package/lib/mol-gl/shader/chunks/apply-interior-color.glsl.js +12 -12
  215. package/lib/mol-gl/shader/chunks/apply-light-color.glsl.js +77 -77
  216. package/lib/mol-gl/shader/chunks/apply-marker-color.glsl.js +16 -16
  217. package/lib/mol-gl/shader/chunks/assign-clipping-varying.glsl.js +8 -8
  218. package/lib/mol-gl/shader/chunks/assign-color-varying.glsl.js +140 -140
  219. package/lib/mol-gl/shader/chunks/assign-group.glsl.js +6 -6
  220. package/lib/mol-gl/shader/chunks/assign-marker-varying.glsl.js +8 -8
  221. package/lib/mol-gl/shader/chunks/assign-material-color.glsl.js +112 -112
  222. package/lib/mol-gl/shader/chunks/assign-position.glsl.js +14 -14
  223. package/lib/mol-gl/shader/chunks/assign-size.glsl.js +18 -18
  224. package/lib/mol-gl/shader/chunks/check-picking-alpha.glsl.js +12 -12
  225. package/lib/mol-gl/shader/chunks/check-transparency.glsl.js +16 -16
  226. package/lib/mol-gl/shader/chunks/clip-instance.glsl.js +7 -7
  227. package/lib/mol-gl/shader/chunks/clip-pixel.glsl.js +5 -5
  228. package/lib/mol-gl/shader/chunks/color-frag-params.glsl.js +60 -60
  229. package/lib/mol-gl/shader/chunks/color-vert-params.glsl.js +122 -122
  230. package/lib/mol-gl/shader/chunks/common-clip.glsl.js +104 -104
  231. package/lib/mol-gl/shader/chunks/common-frag-params.glsl.js +150 -150
  232. package/lib/mol-gl/shader/chunks/common-vert-params.glsl.js +61 -61
  233. package/lib/mol-gl/shader/chunks/common.glsl.js +234 -234
  234. package/lib/mol-gl/shader/chunks/dpoit-write.glsl.js +62 -62
  235. package/lib/mol-gl/shader/chunks/fade-lod.glsl.js +42 -42
  236. package/lib/mol-gl/shader/chunks/float-to-rgba.glsl.js +39 -39
  237. package/lib/mol-gl/shader/chunks/light-frag-params.glsl.js +127 -127
  238. package/lib/mol-gl/shader/chunks/matrix-scale.glsl.js +5 -5
  239. package/lib/mol-gl/shader/chunks/normal-frag-params.glsl.js +2 -2
  240. package/lib/mol-gl/shader/chunks/read-from-texture.glsl.js +14 -14
  241. package/lib/mol-gl/shader/chunks/rgba-to-float.glsl.js +84 -84
  242. package/lib/mol-gl/shader/chunks/size-vert-params.glsl.js +11 -11
  243. package/lib/mol-gl/shader/chunks/texture3d-from-1d-trilinear.glsl.js +23 -23
  244. package/lib/mol-gl/shader/chunks/texture3d-from-2d-linear.glsl.js +17 -17
  245. package/lib/mol-gl/shader/chunks/texture3d-from-2d-nearest.glsl.js +8 -8
  246. package/lib/mol-gl/shader/chunks/wboit-write.glsl.js +25 -25
  247. package/lib/mol-gl/shader/compose.frag.js +12 -12
  248. package/lib/mol-gl/shader/compute/color-smoothing/accumulate.frag.js +23 -23
  249. package/lib/mol-gl/shader/compute/color-smoothing/accumulate.vert.js +43 -43
  250. package/lib/mol-gl/shader/compute/color-smoothing/normalize.frag.js +15 -15
  251. package/lib/mol-gl/shader/copy.frag.js +11 -11
  252. package/lib/mol-gl/shader/cylinders.frag.js +266 -266
  253. package/lib/mol-gl/shader/cylinders.vert.js +89 -89
  254. package/lib/mol-gl/shader/depth-merge.frag.js +23 -23
  255. package/lib/mol-gl/shader/direct-volume.frag.js +362 -362
  256. package/lib/mol-gl/shader/direct-volume.vert.js +41 -41
  257. package/lib/mol-gl/shader/dof.frag.d.ts +7 -0
  258. package/lib/mol-gl/shader/dof.frag.js +119 -0
  259. package/lib/mol-gl/shader/evaluate-dpoit.frag.js +10 -10
  260. package/lib/mol-gl/shader/evaluate-wboit.frag.js +17 -17
  261. package/lib/mol-gl/shader/fxaa.frag.js +228 -228
  262. package/lib/mol-gl/shader/gaussian-density.frag.js +49 -49
  263. package/lib/mol-gl/shader/gaussian-density.vert.js +27 -27
  264. package/lib/mol-gl/shader/hi-z.frag.js +18 -18
  265. package/lib/mol-gl/shader/histogram-pyramid/reduction.frag.js +58 -58
  266. package/lib/mol-gl/shader/histogram-pyramid/sum.frag.js +19 -19
  267. package/lib/mol-gl/shader/image.frag.js +169 -169
  268. package/lib/mol-gl/shader/image.vert.js +21 -21
  269. package/lib/mol-gl/shader/lines.frag.js +42 -42
  270. package/lib/mol-gl/shader/lines.vert.js +117 -117
  271. package/lib/mol-gl/shader/marching-cubes/active-voxels.frag.js +70 -70
  272. package/lib/mol-gl/shader/marching-cubes/isosurface.frag.js +311 -311
  273. package/lib/mol-gl/shader/marking/edge.frag.js +28 -28
  274. package/lib/mol-gl/shader/marking/overlay.frag.js +26 -26
  275. package/lib/mol-gl/shader/mesh.frag.js +65 -65
  276. package/lib/mol-gl/shader/mesh.vert.js +49 -49
  277. package/lib/mol-gl/shader/outlines.frag.js +95 -95
  278. package/lib/mol-gl/shader/points.frag.js +59 -59
  279. package/lib/mol-gl/shader/points.vert.js +38 -38
  280. package/lib/mol-gl/shader/postprocessing.frag.js +150 -150
  281. package/lib/mol-gl/shader/quad.vert.js +10 -10
  282. package/lib/mol-gl/shader/shadows.frag.js +123 -123
  283. package/lib/mol-gl/shader/smaa/blend.frag.js +56 -56
  284. package/lib/mol-gl/shader/smaa/blend.vert.js +25 -25
  285. package/lib/mol-gl/shader/smaa/edges.frag.js +66 -66
  286. package/lib/mol-gl/shader/smaa/edges.vert.js +26 -26
  287. package/lib/mol-gl/shader/smaa/weights.frag.js +206 -206
  288. package/lib/mol-gl/shader/smaa/weights.vert.js +32 -32
  289. package/lib/mol-gl/shader/spheres.frag.js +148 -148
  290. package/lib/mol-gl/shader/spheres.vert.js +132 -132
  291. package/lib/mol-gl/shader/ssao-blur.frag.js +97 -97
  292. package/lib/mol-gl/shader/ssao.frag.js +211 -211
  293. package/lib/mol-gl/shader/text.frag.js +85 -85
  294. package/lib/mol-gl/shader/text.vert.js +85 -85
  295. package/lib/mol-gl/shader/util/grid3d-template.frag.js +46 -46
  296. package/lib/mol-gl/shader-code.js +15 -15
  297. package/lib/mol-gl/webgl/compat.js +12 -12
  298. package/lib/mol-gl/webgl/context.js +1 -0
  299. package/lib/mol-gl/webgl/timer.d.ts +1 -1
  300. package/lib/mol-gl/webgl/timer.js +8 -1
  301. package/lib/mol-math/linear-algebra/3d/minimize-rmsd.js +2 -1
  302. package/lib/mol-plugin/animation-loop.d.ts +1 -0
  303. package/lib/mol-plugin/behavior/dynamic/volume-streaming/behavior.d.ts +6 -6
  304. package/lib/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +1 -1
  305. package/lib/mol-plugin/behavior/dynamic/volume-streaming/transformers.d.ts +3 -3
  306. package/lib/mol-plugin/version.js +2 -2
  307. package/lib/mol-plugin-state/animation/built-in/state-snapshots.js +7 -3
  308. package/lib/mol-plugin-ui/skin/base/base.scss +37 -37
  309. package/lib/mol-plugin-ui/skin/base/components/controls-base.scss +333 -333
  310. package/lib/mol-plugin-ui/skin/base/components/controls.scss +445 -445
  311. package/lib/mol-plugin-ui/skin/base/components/help.scss +27 -27
  312. package/lib/mol-plugin-ui/skin/base/components/line-graph.scss +67 -67
  313. package/lib/mol-plugin-ui/skin/base/components/log.scss +100 -100
  314. package/lib/mol-plugin-ui/skin/base/components/misc.scss +663 -663
  315. package/lib/mol-plugin-ui/skin/base/components/sequence.scss +125 -125
  316. package/lib/mol-plugin-ui/skin/base/components/slider.scss +165 -165
  317. package/lib/mol-plugin-ui/skin/base/components/tasks.scss +99 -99
  318. package/lib/mol-plugin-ui/skin/base/components/toast.scss +83 -83
  319. package/lib/mol-plugin-ui/skin/base/components/transformer.scss +163 -163
  320. package/lib/mol-plugin-ui/skin/base/components/viewport.scss +194 -194
  321. package/lib/mol-plugin-ui/skin/base/layout/common.scss +71 -71
  322. package/lib/mol-plugin-ui/skin/base/layout/controls-landscape.scss +89 -89
  323. package/lib/mol-plugin-ui/skin/base/layout/controls-outside.scss +98 -98
  324. package/lib/mol-plugin-ui/skin/base/layout/controls-portrait.scss +108 -108
  325. package/lib/mol-plugin-ui/skin/base/layout.scss +40 -40
  326. package/lib/mol-plugin-ui/skin/base/logo.scss +12 -12
  327. package/lib/mol-plugin-ui/skin/base/normalize.scss +209 -209
  328. package/lib/mol-plugin-ui/skin/base/ui.scss +40 -40
  329. package/lib/mol-plugin-ui/skin/base/variables.scss +88 -88
  330. package/lib/mol-plugin-ui/skin/blue.scss +1 -1
  331. package/lib/mol-plugin-ui/skin/colors/blue.scss +23 -23
  332. package/lib/mol-plugin-ui/skin/colors/dark.scss +23 -23
  333. package/lib/mol-plugin-ui/skin/colors/light.scss +29 -29
  334. package/lib/mol-plugin-ui/skin/dark.scss +1 -1
  335. package/lib/mol-plugin-ui/skin/light.scss +1 -1
  336. package/lib/mol-plugin-ui/viewport/simple-settings.js +3 -0
  337. package/lib/servers/common/swagger-ui/indexTemplate.js +66 -66
  338. package/lib/servers/volume/config.js +5 -5
  339. package/package.json +196 -195
package/lib/mol-plugin-ui/skin/base/layout/controls-landscape.scss CHANGED
@@ -1,90 +1,90 @@
1
- 
2
- .msp-layout-main {
3
- position: absolute;
4
- left: $expanded-left-width;
5
- right: $expanded-right-width;
6
- bottom: $expanded-bottom-height;
7
- top: $expanded-top-height;
8
- }
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-
10
- .msp-layout-top {
11
- position: absolute;
12
- left: $expanded-left-width;
13
- right: $expanded-right-width;
14
- height: $expanded-top-height;
15
- top: 0;
16
- border-bottom: 1px solid $border-color;
17
- }
18
-
19
- .msp-layout-bottom {
20
- position: absolute;
21
- left: $expanded-left-width;
22
- right: $expanded-right-width;
23
- height: $expanded-bottom-height;
24
- bottom: 0;
25
- border-top: 1px solid $border-color;
26
- }
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-
28
- .msp-layout-right {
29
- position: absolute;
30
- width: $expanded-right-width;
31
- right: 0;
32
- bottom: 0;
33
- top: 0;
34
- border-left: 1px solid $border-color;
35
- }
36
-
37
- .msp-layout-left {
38
- position: absolute;
39
- width: $expanded-left-width;
40
- left: 0;
41
- bottom: 0;
42
- top: 0;
43
- border-right: 1px solid $border-color;
44
- }
45
-
46
- .msp-layout-hide-right {
47
- .msp-layout-right {
48
- display: none;
49
- }
50
- .msp-layout-main, .msp-layout-top, .msp-layout-bottom {
51
- right: 0;
52
- }
53
- }
54
-
55
-
56
- .msp-layout-hide-left {
57
- .msp-layout-left {
58
- display: none;
59
- }
60
- .msp-layout-main, .msp-layout-top, .msp-layout-bottom {
61
- left: 0;
62
- }
63
- }
64
-
65
- .msp-layout-collapse-left {
66
- .msp-layout-left {
67
- width: $collapsed-left-width;
68
- }
69
- .msp-layout-main, .msp-layout-top, .msp-layout-bottom {
70
- left: $collapsed-left-width;
71
- }
72
- }
73
-
74
- .msp-layout-hide-bottom {
75
- .msp-layout-bottom {
76
- display: none;
77
- }
78
- .msp-layout-main {
79
- bottom: 0;
80
- }
81
- }
82
-
83
- .msp-layout-hide-top {
84
- .msp-layout-top {
85
- display: none;
86
- }
87
- .msp-layout-main {
88
- top: 0;
89
- }
1
+ 
2
+ .msp-layout-main {
3
+ position: absolute;
4
+ left: $expanded-left-width;
5
+ right: $expanded-right-width;
6
+ bottom: $expanded-bottom-height;
7
+ top: $expanded-top-height;
8
+ }
9
+
10
+ .msp-layout-top {
11
+ position: absolute;
12
+ left: $expanded-left-width;
13
+ right: $expanded-right-width;
14
+ height: $expanded-top-height;
15
+ top: 0;
16
+ border-bottom: 1px solid $border-color;
17
+ }
18
+
19
+ .msp-layout-bottom {
20
+ position: absolute;
21
+ left: $expanded-left-width;
22
+ right: $expanded-right-width;
23
+ height: $expanded-bottom-height;
24
+ bottom: 0;
25
+ border-top: 1px solid $border-color;
26
+ }
27
+
28
+ .msp-layout-right {
29
+ position: absolute;
30
+ width: $expanded-right-width;
31
+ right: 0;
32
+ bottom: 0;
33
+ top: 0;
34
+ border-left: 1px solid $border-color;
35
+ }
36
+
37
+ .msp-layout-left {
38
+ position: absolute;
39
+ width: $expanded-left-width;
40
+ left: 0;
41
+ bottom: 0;
42
+ top: 0;
43
+ border-right: 1px solid $border-color;
44
+ }
45
+
46
+ .msp-layout-hide-right {
47
+ .msp-layout-right {
48
+ display: none;
49
+ }
50
+ .msp-layout-main, .msp-layout-top, .msp-layout-bottom {
51
+ right: 0;
52
+ }
53
+ }
54
+
55
+
56
+ .msp-layout-hide-left {
57
+ .msp-layout-left {
58
+ display: none;
59
+ }
60
+ .msp-layout-main, .msp-layout-top, .msp-layout-bottom {
61
+ left: 0;
62
+ }
63
+ }
64
+
65
+ .msp-layout-collapse-left {
66
+ .msp-layout-left {
67
+ width: $collapsed-left-width;
68
+ }
69
+ .msp-layout-main, .msp-layout-top, .msp-layout-bottom {
70
+ left: $collapsed-left-width;
71
+ }
72
+ }
73
+
74
+ .msp-layout-hide-bottom {
75
+ .msp-layout-bottom {
76
+ display: none;
77
+ }
78
+ .msp-layout-main {
79
+ bottom: 0;
80
+ }
81
+ }
82
+
83
+ .msp-layout-hide-top {
84
+ .msp-layout-top {
85
+ display: none;
86
+ }
87
+ .msp-layout-main {
88
+ top: 0;
89
+ }
90
90
  }
package/lib/mol-plugin-ui/skin/base/layout/controls-outside.scss CHANGED
@@ -1,99 +1,99 @@
1
- 
2
- .msp-layout-main {
3
- position: absolute;
4
- left: 0;
5
- right: 0;
6
- bottom: 0;
7
- top: 0;
8
- }
9
-
10
- .msp-layout-top {
11
- position: absolute;
12
- right: 0;
13
- height: $standard-top-height;
14
- top: -$standard-top-height;
15
- width: 50%;
16
- border-left: 1px solid $border-color;
17
- border-bottom: 1px solid $border-color;
18
- }
19
-
20
- .msp-layout-bottom {
21
- position: absolute;
22
- left: 0;
23
- right: 0;
24
- height: $standard-top-height;
25
- top: -$standard-top-height;
26
- width: 50%;
27
- border-bottom: 1px solid $border-color;
28
- }
29
-
30
- .msp-layout-right {
31
- position: absolute;
32
- width: 50%;
33
- right: 0;
34
- bottom: -$standard-bottom-height;
35
- height: $standard-bottom-height;
36
- border-left: 1px solid $border-color;
37
- border-top: 1px solid $border-color;
38
- }
39
-
40
- .msp-layout-left {
41
- position: absolute;
42
- width: 50%;
43
- left: 0;
44
- bottom: 0;
45
- bottom: -$standard-bottom-height;
46
- height: $standard-bottom-height;
47
- border-top: 1px solid $border-color;
48
- }
49
-
50
- /////////////////////////////////////////
51
- .msp-layout-hide-right {
52
- .msp-layout-right {
53
- display: none;
54
- }
55
- .msp-layout-left {
56
- width: 100%;
57
- }
58
- }
59
-
60
- .msp-layout-hide-left {
61
- .msp-layout-left {
62
- display: none;
63
- }
64
- .msp-layout-right {
65
- width: 100%;
66
- border-left: none;
67
- }
68
- }
69
-
70
- .msp-layout-collapse-left {
71
- .msp-layout-left {
72
- width: $collapsed-left-width;
73
- }
74
- .msp-layout-right {
75
- left: $collapsed-left-width;
76
- width: auto;
77
- }
78
- }
79
-
80
- ///////////////////////////////////
81
- .msp-layout-hide-top {
82
- .msp-layout-top {
83
- display: none;
84
- }
85
- .msp-layout-bottom {
86
- width: 100%;
87
- border-left: none;
88
- }
89
- }
90
-
91
- .msp-layout-hide-bottom {
92
- .msp-layout-bottom {
93
- display: none;
94
- }
95
- .msp-layout-top {
96
- width: 100%;
97
- border-left: none;
98
- }
1
+ 
2
+ .msp-layout-main {
3
+ position: absolute;
4
+ left: 0;
5
+ right: 0;
6
+ bottom: 0;
7
+ top: 0;
8
+ }
9
+
10
+ .msp-layout-top {
11
+ position: absolute;
12
+ right: 0;
13
+ height: $standard-top-height;
14
+ top: -$standard-top-height;
15
+ width: 50%;
16
+ border-left: 1px solid $border-color;
17
+ border-bottom: 1px solid $border-color;
18
+ }
19
+
20
+ .msp-layout-bottom {
21
+ position: absolute;
22
+ left: 0;
23
+ right: 0;
24
+ height: $standard-top-height;
25
+ top: -$standard-top-height;
26
+ width: 50%;
27
+ border-bottom: 1px solid $border-color;
28
+ }
29
+
30
+ .msp-layout-right {
31
+ position: absolute;
32
+ width: 50%;
33
+ right: 0;
34
+ bottom: -$standard-bottom-height;
35
+ height: $standard-bottom-height;
36
+ border-left: 1px solid $border-color;
37
+ border-top: 1px solid $border-color;
38
+ }
39
+
40
+ .msp-layout-left {
41
+ position: absolute;
42
+ width: 50%;
43
+ left: 0;
44
+ bottom: 0;
45
+ bottom: -$standard-bottom-height;
46
+ height: $standard-bottom-height;
47
+ border-top: 1px solid $border-color;
48
+ }
49
+
50
+ /////////////////////////////////////////
51
+ .msp-layout-hide-right {
52
+ .msp-layout-right {
53
+ display: none;
54
+ }
55
+ .msp-layout-left {
56
+ width: 100%;
57
+ }
58
+ }
59
+
60
+ .msp-layout-hide-left {
61
+ .msp-layout-left {
62
+ display: none;
63
+ }
64
+ .msp-layout-right {
65
+ width: 100%;
66
+ border-left: none;
67
+ }
68
+ }
69
+
70
+ .msp-layout-collapse-left {
71
+ .msp-layout-left {
72
+ width: $collapsed-left-width;
73
+ }
74
+ .msp-layout-right {
75
+ left: $collapsed-left-width;
76
+ width: auto;
77
+ }
78
+ }
79
+
80
+ ///////////////////////////////////
81
+ .msp-layout-hide-top {
82
+ .msp-layout-top {
83
+ display: none;
84
+ }
85
+ .msp-layout-bottom {
86
+ width: 100%;
87
+ border-left: none;
88
+ }
89
+ }
90
+
91
+ .msp-layout-hide-bottom {
92
+ .msp-layout-bottom {
93
+ display: none;
94
+ }
95
+ .msp-layout-top {
96
+ width: 100%;
97
+ border-left: none;
98
+ }
99
99
  }
package/lib/mol-plugin-ui/skin/base/layout/controls-portrait.scss CHANGED
@@ -1,109 +1,109 @@
1
- 
2
- .msp-layout-main {
3
- position: absolute;
4
- left: 0;
5
- right: 0;
6
- bottom: $expanded-portrait-bottom-height;
7
- top: $expanded-portrait-top-height;
8
- }
9
-
10
- .msp-layout-top {
11
- position: absolute;
12
- right: 0;
13
- height: $expanded-portrait-top-height;
14
- top: 0;
15
- width: 50%;
16
- border-left: 1px solid $border-color;
17
- border-bottom: 1px solid $border-color;
18
- }
19
-
20
- .msp-layout-bottom {
21
- position: absolute;
22
- left: 0;
23
- right: 0;
24
- height: $expanded-portrait-top-height;
25
- width: 50%;
26
- border-bottom: 1px solid $border-color;
27
- }
28
-
29
- .msp-layout-right {
30
- position: absolute;
31
- width: 50%;
32
- right: 0;
33
- bottom: 0;
34
- height: $expanded-portrait-bottom-height;
35
- border-left: 1px solid $border-color;
36
- border-top: 1px solid $border-color;
37
- }
38
-
39
- .msp-layout-left {
40
- position: absolute;
41
- width: 50%;
42
- left: 0;
43
- bottom: 0;
44
- height: $expanded-portrait-bottom-height;
45
- border-top: 1px solid $border-color;
46
- }
47
-
48
- /////////////////////////////////////////
49
- .msp-layout-hide-right {
50
- .msp-layout-right {
51
- display: none;
52
- }
53
- .msp-layout-left {
54
- width: 100%;
55
- }
56
- }
57
-
58
- .msp-layout-hide-left {
59
- .msp-layout-left {
60
- display: none;
61
- }
62
- .msp-layout-right {
63
- width: 100%;
64
- border-left: none;
65
- }
66
- }
67
-
68
- .msp-layout-hide-right.msp-layout-hide-left {
69
- .msp-layout-main {
70
- bottom: 0;
71
- }
72
- }
73
-
74
- .msp-layout-collapse-left {
75
- .msp-layout-left {
76
- width: $collapsed-left-width;
77
- }
78
- .msp-layout-right {
79
- left: $collapsed-left-width;
80
- width: auto;
81
- }
82
- }
83
-
84
- ///////////////////////////////////
85
- .msp-layout-hide-top {
86
- .msp-layout-top {
87
- display: none;
88
- }
89
- .msp-layout-bottom {
90
- width: 100%;
91
- border-left: none;
92
- }
93
- }
94
-
95
- .msp-layout-hide-bottom {
96
- .msp-layout-bottom {
97
- display: none;
98
- }
99
- .msp-layout-top {
100
- width: 100%;
101
- border-left: none;
102
- }
103
- }
104
-
105
- .msp-layout-hide-top.msp-layout-hide-bottom {
106
- .msp-layout-main {
107
- top: 0;
108
- }
1
+ 
2
+ .msp-layout-main {
3
+ position: absolute;
4
+ left: 0;
5
+ right: 0;
6
+ bottom: $expanded-portrait-bottom-height;
7
+ top: $expanded-portrait-top-height;
8
+ }
9
+
10
+ .msp-layout-top {
11
+ position: absolute;
12
+ right: 0;
13
+ height: $expanded-portrait-top-height;
14
+ top: 0;
15
+ width: 50%;
16
+ border-left: 1px solid $border-color;
17
+ border-bottom: 1px solid $border-color;
18
+ }
19
+
20
+ .msp-layout-bottom {
21
+ position: absolute;
22
+ left: 0;
23
+ right: 0;
24
+ height: $expanded-portrait-top-height;
25
+ width: 50%;
26
+ border-bottom: 1px solid $border-color;
27
+ }
28
+
29
+ .msp-layout-right {
30
+ position: absolute;
31
+ width: 50%;
32
+ right: 0;
33
+ bottom: 0;
34
+ height: $expanded-portrait-bottom-height;
35
+ border-left: 1px solid $border-color;
36
+ border-top: 1px solid $border-color;
37
+ }
38
+
39
+ .msp-layout-left {
40
+ position: absolute;
41
+ width: 50%;
42
+ left: 0;
43
+ bottom: 0;
44
+ height: $expanded-portrait-bottom-height;
45
+ border-top: 1px solid $border-color;
46
+ }
47
+
48
+ /////////////////////////////////////////
49
+ .msp-layout-hide-right {
50
+ .msp-layout-right {
51
+ display: none;
52
+ }
53
+ .msp-layout-left {
54
+ width: 100%;
55
+ }
56
+ }
57
+
58
+ .msp-layout-hide-left {
59
+ .msp-layout-left {
60
+ display: none;
61
+ }
62
+ .msp-layout-right {
63
+ width: 100%;
64
+ border-left: none;
65
+ }
66
+ }
67
+
68
+ .msp-layout-hide-right.msp-layout-hide-left {
69
+ .msp-layout-main {
70
+ bottom: 0;
71
+ }
72
+ }
73
+
74
+ .msp-layout-collapse-left {
75
+ .msp-layout-left {
76
+ width: $collapsed-left-width;
77
+ }
78
+ .msp-layout-right {
79
+ left: $collapsed-left-width;
80
+ width: auto;
81
+ }
82
+ }
83
+
84
+ ///////////////////////////////////
85
+ .msp-layout-hide-top {
86
+ .msp-layout-top {
87
+ display: none;
88
+ }
89
+ .msp-layout-bottom {
90
+ width: 100%;
91
+ border-left: none;
92
+ }
93
+ }
94
+
95
+ .msp-layout-hide-bottom {
96
+ .msp-layout-bottom {
97
+ display: none;
98
+ }
99
+ .msp-layout-top {
100
+ width: 100%;
101
+ border-left: none;
102
+ }
103
+ }
104
+
105
+ .msp-layout-hide-top.msp-layout-hide-bottom {
106
+ .msp-layout-main {
107
+ top: 0;
108
+ }
109
109
  }
package/lib/mol-plugin-ui/skin/base/layout.scss CHANGED
@@ -1,41 +1,41 @@
1
- 
2
- @import 'layout/common';
3
-
4
- .msp-layout-standard-outside {
5
- position: absolute;
6
- @import 'layout/controls-outside';
7
- }
8
-
9
- .msp-layout-standard-landscape {
10
- position: absolute;
11
- @import 'layout/controls-landscape';
12
- }
13
-
14
- .msp-layout-standard-portrait {
15
- position: absolute;
16
- @import 'layout/controls-portrait';
17
- }
18
-
19
- .msp-layout-standard-reactive {
20
- position: absolute;
21
-
22
- @media (orientation:landscape), (min-width: 1000px) {
23
- @import 'layout/controls-landscape';
24
- };
25
-
26
- @media (orientation:portrait) and (max-width: 1000px) {
27
- @import 'layout/controls-portrait';
28
- };
29
- }
30
-
31
- .msp-layout-expanded {
32
- position: fixed;
33
-
34
- @media (orientation:landscape) {
35
- @import 'layout/controls-landscape';
36
- };
37
-
38
- @media (orientation:portrait) {
39
- @import 'layout/controls-portrait';
40
- };
1
+ 
2
+ @import 'layout/common';
3
+
4
+ .msp-layout-standard-outside {
5
+ position: absolute;
6
+ @import 'layout/controls-outside';
7
+ }
8
+
9
+ .msp-layout-standard-landscape {
10
+ position: absolute;
11
+ @import 'layout/controls-landscape';
12
+ }
13
+
14
+ .msp-layout-standard-portrait {
15
+ position: absolute;
16
+ @import 'layout/controls-portrait';
17
+ }
18
+
19
+ .msp-layout-standard-reactive {
20
+ position: absolute;
21
+
22
+ @media (orientation:landscape), (min-width: 1000px) {
23
+ @import 'layout/controls-landscape';
24
+ };
25
+
26
+ @media (orientation:portrait) and (max-width: 1000px) {
27
+ @import 'layout/controls-portrait';
28
+ };
29
+ }
30
+
31
+ .msp-layout-expanded {
32
+ position: fixed;
33
+
34
+ @media (orientation:landscape) {
35
+ @import 'layout/controls-landscape';
36
+ };
37
+
38
+ @media (orientation:portrait) {
39
+ @import 'layout/controls-portrait';
40
+ };
41
41
  }