molstar 3.0.0-dev.4 → 3.0.0-dev.8

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 (658) hide show
  1. package/LICENSE +20 -20
  2. package/README.md +187 -187
  3. package/build/viewer/embedded.html +43 -43
  4. package/build/viewer/index.html +106 -95
  5. package/build/viewer/molstar.js +1 -1
  6. package/lib/apps/docking-viewer/index.d.ts +2 -1
  7. package/lib/apps/docking-viewer/index.html +36 -36
  8. package/lib/apps/docking-viewer/index.js +87 -74
  9. package/lib/apps/viewer/embedded.html +43 -43
  10. package/lib/apps/viewer/index.d.ts +37 -215
  11. package/lib/apps/viewer/index.html +106 -95
  12. package/lib/apps/viewer/index.js +141 -52
  13. package/lib/cli/cifschema/index.d.ts +1 -1
  14. package/lib/cli/cifschema/index.js +15 -35
  15. package/lib/commonjs/apps/docking-viewer/index.d.ts +2 -1
  16. package/lib/commonjs/apps/docking-viewer/index.js +86 -73
  17. package/lib/commonjs/apps/viewer/index.d.ts +37 -215
  18. package/lib/commonjs/apps/viewer/index.js +141 -52
  19. package/lib/commonjs/cli/cifschema/index.d.ts +1 -1
  20. package/lib/commonjs/cli/cifschema/index.js +15 -35
  21. package/lib/commonjs/examples/alpha-orbitals/index.js +3 -4
  22. package/lib/commonjs/examples/basic-wrapper/index.js +23 -11
  23. package/lib/commonjs/examples/lighting/index.d.ts +1 -1
  24. package/lib/commonjs/examples/lighting/index.js +57 -41
  25. package/lib/commonjs/examples/proteopedia-wrapper/index.js +26 -14
  26. package/lib/commonjs/extensions/alpha-orbitals/transforms.d.ts +0 -1
  27. package/lib/commonjs/extensions/alpha-orbitals/transforms.js +1 -14
  28. package/lib/commonjs/extensions/anvil/behavior.d.ts +4 -0
  29. package/lib/commonjs/extensions/anvil/representation.d.ts +50 -0
  30. package/lib/commonjs/extensions/cellpack/representation.d.ts +10 -0
  31. package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.d.ts +30 -0
  32. package/lib/commonjs/extensions/geo-export/mesh-exporter.js +4 -4
  33. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.d.ts +68 -0
  34. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.js +236 -0
  35. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.d.ts +14 -0
  36. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.js +125 -0
  37. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.d.ts +12 -0
  38. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.js +111 -0
  39. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.d.ts +28 -0
  40. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.js +130 -0
  41. package/lib/commonjs/extensions/mp4-export/controls.d.ts +1 -0
  42. package/lib/commonjs/extensions/mp4-export/controls.js +9 -7
  43. package/lib/commonjs/extensions/pdbe/structure-quality-report/prop.js +1 -1
  44. package/lib/commonjs/extensions/rcsb/assembly-symmetry/behavior.d.ts +6 -2
  45. package/lib/commonjs/extensions/rcsb/assembly-symmetry/prop.js +1 -1
  46. package/lib/commonjs/extensions/rcsb/assembly-symmetry/representation.d.ts +10 -0
  47. package/lib/commonjs/extensions/rcsb/validation-report/prop.js +1 -1
  48. package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts +50 -0
  49. package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +3 -9
  50. package/lib/commonjs/mol-canvas3d/canvas3d.js +38 -26
  51. package/lib/commonjs/mol-canvas3d/helper/bounding-sphere-helper.js +3 -2
  52. package/lib/commonjs/mol-canvas3d/helper/camera-helper.d.ts +4 -0
  53. package/lib/commonjs/mol-canvas3d/helper/camera-helper.js +2 -2
  54. package/lib/commonjs/mol-canvas3d/helper/handle-helper.d.ts +4 -0
  55. package/lib/commonjs/mol-canvas3d/helper/handle-helper.js +2 -2
  56. package/lib/commonjs/mol-canvas3d/helper/helper.d.ts +2 -0
  57. package/lib/commonjs/mol-canvas3d/passes/draw.d.ts +13 -1
  58. package/lib/commonjs/mol-canvas3d/passes/draw.js +16 -15
  59. package/lib/commonjs/mol-canvas3d/passes/image.d.ts +1 -0
  60. package/lib/commonjs/mol-canvas3d/passes/image.js +3 -2
  61. package/lib/commonjs/mol-canvas3d/passes/marking.js +1 -1
  62. package/lib/commonjs/mol-canvas3d/passes/multi-sample.d.ts +10 -2
  63. package/lib/commonjs/mol-canvas3d/passes/multi-sample.js +18 -14
  64. package/lib/commonjs/mol-canvas3d/passes/pick.js +12 -12
  65. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +3 -3
  66. package/lib/commonjs/mol-canvas3d/passes/smaa.js +1 -1
  67. package/lib/commonjs/mol-geo/geometry/base.d.ts +18 -0
  68. package/lib/commonjs/mol-geo/geometry/base.js +18 -1
  69. package/lib/commonjs/mol-geo/geometry/clipping-data.d.ts +1 -3
  70. package/lib/commonjs/mol-geo/geometry/clipping-data.js +3 -8
  71. package/lib/commonjs/mol-geo/geometry/color-data.d.ts +1 -1
  72. package/lib/commonjs/mol-geo/geometry/color-data.js +22 -0
  73. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +12 -2
  74. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +2 -2
  75. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.d.ts +15 -38
  76. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +21 -66
  77. package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.d.ts +2 -4
  78. package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.js +4 -7
  79. package/lib/commonjs/mol-geo/geometry/image/image.d.ts +10 -0
  80. package/lib/commonjs/mol-geo/geometry/image/image.js +1 -1
  81. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +11 -0
  82. package/lib/commonjs/mol-geo/geometry/lines/lines.js +1 -1
  83. package/lib/commonjs/mol-geo/geometry/marker-data.d.ts +0 -1
  84. package/lib/commonjs/mol-geo/geometry/marker-data.js +13 -9
  85. package/lib/commonjs/mol-geo/geometry/mesh/mesh.d.ts +10 -0
  86. package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +2 -2
  87. package/lib/commonjs/mol-geo/geometry/points/points.d.ts +11 -1
  88. package/lib/commonjs/mol-geo/geometry/points/points.js +1 -1
  89. package/lib/commonjs/mol-geo/geometry/size-data.js +5 -5
  90. package/lib/commonjs/mol-geo/geometry/spheres/spheres.d.ts +10 -0
  91. package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +2 -2
  92. package/lib/commonjs/mol-geo/geometry/text/text.d.ts +10 -0
  93. package/lib/commonjs/mol-geo/geometry/text/text.js +1 -1
  94. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +10 -0
  95. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +2 -2
  96. package/lib/commonjs/mol-gl/compute/histogram-pyramid/sum.js +2 -2
  97. package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.d.ts +2 -2
  98. package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.js +10 -9
  99. package/lib/commonjs/mol-gl/render-object.d.ts +2 -1
  100. package/lib/commonjs/mol-gl/render-object.js +10 -10
  101. package/lib/commonjs/mol-gl/renderable/cylinders.d.ts +11 -5
  102. package/lib/commonjs/mol-gl/renderable/cylinders.js +3 -3
  103. package/lib/commonjs/mol-gl/renderable/direct-volume.d.ts +15 -14
  104. package/lib/commonjs/mol-gl/renderable/direct-volume.js +3 -3
  105. package/lib/commonjs/mol-gl/renderable/image.d.ts +10 -4
  106. package/lib/commonjs/mol-gl/renderable/image.js +2 -2
  107. package/lib/commonjs/mol-gl/renderable/lines.d.ts +39 -33
  108. package/lib/commonjs/mol-gl/renderable/lines.js +3 -3
  109. package/lib/commonjs/mol-gl/renderable/mesh.d.ts +11 -5
  110. package/lib/commonjs/mol-gl/renderable/mesh.js +3 -3
  111. package/lib/commonjs/mol-gl/renderable/points.d.ts +10 -4
  112. package/lib/commonjs/mol-gl/renderable/points.js +2 -2
  113. package/lib/commonjs/mol-gl/renderable/schema.d.ts +10 -11
  114. package/lib/commonjs/mol-gl/renderable/schema.js +4 -10
  115. package/lib/commonjs/mol-gl/renderable/spheres.d.ts +11 -5
  116. package/lib/commonjs/mol-gl/renderable/spheres.js +3 -3
  117. package/lib/commonjs/mol-gl/renderable/text.d.ts +10 -4
  118. package/lib/commonjs/mol-gl/renderable/text.js +2 -2
  119. package/lib/commonjs/mol-gl/renderable/texture-mesh.d.ts +11 -6
  120. package/lib/commonjs/mol-gl/renderable/texture-mesh.js +3 -3
  121. package/lib/commonjs/mol-gl/renderable.d.ts +0 -1
  122. package/lib/commonjs/mol-gl/renderer.d.ts +12 -12
  123. package/lib/commonjs/mol-gl/renderer.js +23 -92
  124. package/lib/commonjs/mol-gl/scene.d.ts +2 -2
  125. package/lib/commonjs/mol-gl/scene.js +7 -5
  126. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.d.ts +1 -1
  127. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.js +1 -1
  128. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.d.ts +1 -1
  129. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.js +1 -1
  130. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.d.ts +1 -1
  131. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.js +1 -1
  132. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.d.ts +1 -1
  133. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.js +1 -1
  134. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.d.ts +1 -1
  135. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.js +1 -1
  136. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.d.ts +1 -1
  137. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.js +1 -1
  138. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.d.ts +1 -1
  139. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.js +1 -1
  140. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.d.ts +1 -1
  141. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.js +1 -1
  142. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.d.ts +1 -1
  143. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.js +1 -1
  144. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.d.ts +1 -1
  145. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.js +1 -1
  146. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.d.ts +1 -1
  147. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.js +1 -1
  148. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.d.ts +1 -1
  149. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.js +1 -1
  150. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.d.ts +1 -1
  151. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.js +1 -1
  152. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.d.ts +1 -1
  153. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.js +1 -1
  154. package/lib/commonjs/mol-gl/shader/cylinders.frag.d.ts +1 -1
  155. package/lib/commonjs/mol-gl/shader/cylinders.frag.js +1 -1
  156. package/lib/commonjs/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  157. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +1 -1
  158. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.d.ts +1 -1
  159. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.js +1 -1
  160. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.d.ts +1 -1
  161. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.js +1 -1
  162. package/lib/commonjs/mol-gl/shader/image.frag.d.ts +1 -1
  163. package/lib/commonjs/mol-gl/shader/image.frag.js +1 -1
  164. package/lib/commonjs/mol-gl/shader/marching-cubes/isosurface.frag.d.ts +1 -1
  165. package/lib/commonjs/mol-gl/shader/marching-cubes/isosurface.frag.js +1 -1
  166. package/lib/commonjs/mol-gl/shader/mesh.frag.d.ts +1 -1
  167. package/lib/commonjs/mol-gl/shader/mesh.frag.js +1 -1
  168. package/lib/commonjs/mol-gl/shader/mesh.vert.d.ts +1 -1
  169. package/lib/commonjs/mol-gl/shader/mesh.vert.js +1 -1
  170. package/lib/commonjs/mol-gl/shader/spheres.frag.d.ts +1 -1
  171. package/lib/commonjs/mol-gl/shader/spheres.frag.js +1 -1
  172. package/lib/commonjs/mol-gl/shader-code.d.ts +3 -1
  173. package/lib/commonjs/mol-gl/shader-code.js +43 -14
  174. package/lib/commonjs/mol-gl/webgl/render-item.d.ts +7 -6
  175. package/lib/commonjs/mol-gl/webgl/render-item.js +10 -8
  176. package/lib/commonjs/mol-gl/webgl/resources.js +8 -1
  177. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.d.ts +326 -1
  178. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.js +326 -1
  179. package/lib/commonjs/mol-math/geometry/gaussian-density/gpu.js +2 -2
  180. package/lib/commonjs/mol-math/geometry/symmetry-operator.js +3 -2
  181. package/lib/commonjs/mol-math/linear-algebra/3d/quat.d.ts +9 -1
  182. package/lib/commonjs/mol-math/linear-algebra/3d/quat.js +20 -1
  183. package/lib/commonjs/mol-model/structure/model/model.d.ts +1 -0
  184. package/lib/commonjs/mol-model/structure/model/model.js +8 -2
  185. package/lib/commonjs/mol-model/structure/model/properties/atomic/hierarchy.d.ts +6 -1
  186. package/lib/commonjs/mol-model/structure/model/properties/atomic/hierarchy.js +1 -1
  187. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-derived.d.ts +1 -1
  188. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-derived.js +4 -1
  189. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-index.d.ts +1 -1
  190. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-index.js +12 -1
  191. package/lib/commonjs/mol-model/structure/model/types.js +9 -0
  192. package/lib/commonjs/mol-model/structure/structure/unit/rings.js +2 -0
  193. package/lib/commonjs/mol-model-formats/shape/ply.d.ts +20 -0
  194. package/lib/commonjs/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts +10 -0
  195. package/lib/commonjs/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts +10 -0
  196. package/lib/commonjs/mol-model-props/computed/representations/interactions.d.ts +30 -0
  197. package/lib/commonjs/mol-model-props/integrative/cross-link-restraint/representation.d.ts +40 -0
  198. package/lib/commonjs/mol-plugin/behavior/dynamic/representation.js +4 -6
  199. package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.d.ts +11 -0
  200. package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.js +3 -1
  201. package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +3 -2
  202. package/lib/commonjs/mol-plugin/commands.d.ts +1 -4
  203. package/lib/commonjs/mol-plugin/config.d.ts +1 -1
  204. package/lib/commonjs/mol-plugin/config.js +5 -25
  205. package/lib/commonjs/mol-plugin/features.d.ts +9 -0
  206. package/lib/commonjs/mol-plugin/features.js +38 -0
  207. package/lib/commonjs/mol-plugin/spec.js +1 -0
  208. package/lib/commonjs/mol-plugin/util/viewport-screenshot.d.ts +12 -0
  209. package/lib/commonjs/mol-plugin-state/actions/structure.d.ts +7 -1
  210. package/lib/commonjs/mol-plugin-state/actions/structure.js +150 -72
  211. package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy-preset.d.ts +5 -355
  212. package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy-preset.js +13 -8
  213. package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy.d.ts +1 -71
  214. package/lib/commonjs/mol-plugin-state/builder/structure/representation-preset.d.ts +4 -4
  215. package/lib/commonjs/mol-plugin-state/helpers/structure-clipping.d.ts +1 -1
  216. package/lib/commonjs/mol-plugin-state/helpers/structure-clipping.js +1 -1
  217. package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.js +33 -19
  218. package/lib/commonjs/mol-plugin-state/manager/structure/component.d.ts +13 -1
  219. package/lib/commonjs/mol-plugin-state/manager/structure/component.js +13 -8
  220. package/lib/commonjs/mol-plugin-state/manager/structure/selection.js +3 -1
  221. package/lib/commonjs/mol-plugin-state/transforms/representation.d.ts +32 -0
  222. package/lib/commonjs/mol-plugin-state/transforms/representation.js +2 -2
  223. package/lib/commonjs/mol-plugin-ui/index.d.ts +4 -4
  224. package/lib/commonjs/mol-plugin-ui/index.js +13 -16
  225. package/lib/commonjs/mol-plugin-ui/plugin.js +1 -1
  226. package/lib/commonjs/mol-plugin-ui/viewport/simple-settings.js +2 -6
  227. package/lib/commonjs/mol-repr/shape/loci/angle.d.ts +10 -0
  228. package/lib/commonjs/mol-repr/shape/loci/common.d.ts +10 -0
  229. package/lib/commonjs/mol-repr/shape/loci/dihedral.d.ts +10 -0
  230. package/lib/commonjs/mol-repr/shape/loci/distance.d.ts +10 -0
  231. package/lib/commonjs/mol-repr/shape/loci/label.d.ts +10 -0
  232. package/lib/commonjs/mol-repr/shape/loci/orientation.d.ts +10 -0
  233. package/lib/commonjs/mol-repr/shape/loci/plane.d.ts +10 -0
  234. package/lib/commonjs/mol-repr/shape/model/unitcell.d.ts +10 -0
  235. package/lib/commonjs/mol-repr/structure/complex-representation.js +1 -1
  236. package/lib/commonjs/mol-repr/structure/complex-visual.d.ts +61 -19
  237. package/lib/commonjs/mol-repr/structure/params.d.ts +81 -19
  238. package/lib/commonjs/mol-repr/structure/registry.d.ts +141 -19
  239. package/lib/commonjs/mol-repr/structure/representation/backbone.d.ts +30 -0
  240. package/lib/commonjs/mol-repr/structure/representation/ball-and-stick.d.ts +30 -0
  241. package/lib/commonjs/mol-repr/structure/representation/carbohydrate.d.ts +30 -0
  242. package/lib/commonjs/mol-repr/structure/representation/cartoon.d.ts +30 -0
  243. package/lib/commonjs/mol-repr/structure/representation/ellipsoid.d.ts +30 -0
  244. package/lib/commonjs/mol-repr/structure/representation/gaussian-surface.d.ts +30 -0
  245. package/lib/commonjs/mol-repr/structure/representation/gaussian-surface.js +1 -1
  246. package/lib/commonjs/mol-repr/structure/representation/gaussian-volume.d.ts +34 -58
  247. package/lib/commonjs/mol-repr/structure/representation/gaussian-volume.js +2 -7
  248. package/lib/commonjs/mol-repr/structure/representation/label.d.ts +30 -0
  249. package/lib/commonjs/mol-repr/structure/representation/label.js +1 -1
  250. package/lib/commonjs/mol-repr/structure/representation/line.d.ts +30 -0
  251. package/lib/commonjs/mol-repr/structure/representation/molecular-surface.d.ts +30 -0
  252. package/lib/commonjs/mol-repr/structure/representation/molecular-surface.js +1 -1
  253. package/lib/commonjs/mol-repr/structure/representation/orientation.d.ts +30 -0
  254. package/lib/commonjs/mol-repr/structure/representation/point.d.ts +30 -0
  255. package/lib/commonjs/mol-repr/structure/representation/putty.d.ts +30 -0
  256. package/lib/commonjs/mol-repr/structure/representation/spacefill.d.ts +30 -0
  257. package/lib/commonjs/mol-repr/structure/units-representation.js +1 -1
  258. package/lib/commonjs/mol-repr/structure/units-visual.d.ts +81 -19
  259. package/lib/commonjs/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +20 -0
  260. package/lib/commonjs/mol-repr/structure/visual/bond-inter-unit-line.d.ts +10 -0
  261. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +20 -0
  262. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-cylinder.js +2 -2
  263. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-line.d.ts +10 -0
  264. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-line.js +2 -2
  265. package/lib/commonjs/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +10 -0
  266. package/lib/commonjs/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +10 -0
  267. package/lib/commonjs/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +10 -0
  268. package/lib/commonjs/mol-repr/structure/visual/element-cross.d.ts +10 -0
  269. package/lib/commonjs/mol-repr/structure/visual/element-point.d.ts +10 -0
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  559. package/lib/mol-plugin-ui/skin/light.scss +1 -1
  560. package/lib/mol-plugin-ui/viewport/simple-settings.js +2 -6
  561. package/lib/mol-repr/shape/loci/angle.d.ts +10 -0
  562. package/lib/mol-repr/shape/loci/common.d.ts +10 -0
  563. package/lib/mol-repr/shape/loci/dihedral.d.ts +10 -0
  564. package/lib/mol-repr/shape/loci/distance.d.ts +10 -0
  565. package/lib/mol-repr/shape/loci/label.d.ts +10 -0
  566. package/lib/mol-repr/shape/loci/orientation.d.ts +10 -0
  567. package/lib/mol-repr/shape/loci/plane.d.ts +10 -0
  568. package/lib/mol-repr/shape/model/unitcell.d.ts +10 -0
  569. package/lib/mol-repr/structure/complex-representation.js +1 -1
  570. package/lib/mol-repr/structure/complex-visual.d.ts +61 -19
  571. package/lib/mol-repr/structure/params.d.ts +81 -19
  572. package/lib/mol-repr/structure/registry.d.ts +141 -19
  573. package/lib/mol-repr/structure/representation/backbone.d.ts +30 -0
  574. package/lib/mol-repr/structure/representation/ball-and-stick.d.ts +30 -0
  575. package/lib/mol-repr/structure/representation/carbohydrate.d.ts +30 -0
  576. package/lib/mol-repr/structure/representation/cartoon.d.ts +30 -0
  577. package/lib/mol-repr/structure/representation/ellipsoid.d.ts +30 -0
  578. package/lib/mol-repr/structure/representation/gaussian-surface.d.ts +30 -0
  579. package/lib/mol-repr/structure/representation/gaussian-surface.js +1 -1
  580. package/lib/mol-repr/structure/representation/gaussian-volume.d.ts +34 -58
  581. package/lib/mol-repr/structure/representation/gaussian-volume.js +2 -7
  582. package/lib/mol-repr/structure/representation/label.d.ts +30 -0
  583. package/lib/mol-repr/structure/representation/label.js +1 -1
  584. package/lib/mol-repr/structure/representation/line.d.ts +30 -0
  585. package/lib/mol-repr/structure/representation/molecular-surface.d.ts +30 -0
  586. package/lib/mol-repr/structure/representation/molecular-surface.js +1 -1
  587. package/lib/mol-repr/structure/representation/orientation.d.ts +30 -0
  588. package/lib/mol-repr/structure/representation/point.d.ts +30 -0
  589. package/lib/mol-repr/structure/representation/putty.d.ts +30 -0
  590. package/lib/mol-repr/structure/representation/spacefill.d.ts +30 -0
  591. package/lib/mol-repr/structure/units-representation.js +1 -1
  592. package/lib/mol-repr/structure/units-visual.d.ts +81 -19
  593. package/lib/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +20 -0
  594. package/lib/mol-repr/structure/visual/bond-inter-unit-line.d.ts +10 -0
  595. package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +20 -0
  596. package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.js +2 -2
  597. package/lib/mol-repr/structure/visual/bond-intra-unit-line.d.ts +10 -0
  598. package/lib/mol-repr/structure/visual/bond-intra-unit-line.js +2 -2
  599. package/lib/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +10 -0
  600. package/lib/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +10 -0
  601. package/lib/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +10 -0
  602. package/lib/mol-repr/structure/visual/element-cross.d.ts +10 -0
  603. package/lib/mol-repr/structure/visual/element-point.d.ts +10 -0
  604. package/lib/mol-repr/structure/visual/element-sphere.d.ts +20 -0
  605. package/lib/mol-repr/structure/visual/ellipsoid-mesh.d.ts +10 -0
  606. package/lib/mol-repr/structure/visual/gaussian-density-volume.d.ts +22 -38
  607. package/lib/mol-repr/structure/visual/gaussian-density-volume.js +8 -6
  608. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.d.ts +40 -0
  609. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.js +11 -8
  610. package/lib/mol-repr/structure/visual/gaussian-surface-wireframe.d.ts +10 -0
  611. package/lib/mol-repr/structure/visual/gaussian-surface-wireframe.js +1 -1
  612. package/lib/mol-repr/structure/visual/label-text.d.ts +10 -0
  613. package/lib/mol-repr/structure/visual/label-text.js +1 -2
  614. package/lib/mol-repr/structure/visual/molecular-surface-mesh.d.ts +10 -0
  615. package/lib/mol-repr/structure/visual/molecular-surface-mesh.js +1 -1
  616. package/lib/mol-repr/structure/visual/molecular-surface-wireframe.d.ts +10 -0
  617. package/lib/mol-repr/structure/visual/molecular-surface-wireframe.js +1 -1
  618. package/lib/mol-repr/structure/visual/nucleotide-block-mesh.d.ts +10 -0
  619. package/lib/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts +10 -0
  620. package/lib/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts +10 -0
  621. package/lib/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts +20 -0
  622. package/lib/mol-repr/structure/visual/polymer-backbone-sphere.d.ts +20 -0
  623. package/lib/mol-repr/structure/visual/polymer-direction-wedge.d.ts +10 -0
  624. package/lib/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +10 -0
  625. package/lib/mol-repr/structure/visual/polymer-trace-mesh.d.ts +10 -0
  626. package/lib/mol-repr/structure/visual/polymer-trace-mesh.js +1 -1
  627. package/lib/mol-repr/structure/visual/polymer-tube-mesh.d.ts +10 -0
  628. package/lib/mol-repr/structure/visual/util/bond.js +1 -1
  629. package/lib/mol-repr/structure/visual/util/common.d.ts +3 -2
  630. package/lib/mol-repr/structure/visual/util/common.js +2 -5
  631. package/lib/mol-repr/structure/visual/util/gaussian.d.ts +7 -6
  632. package/lib/mol-repr/structure/visual/util/gaussian.js +12 -12
  633. package/lib/mol-repr/structure/visual/util/molecular-surface.d.ts +2 -1
  634. package/lib/mol-repr/structure/visual/util/molecular-surface.js +4 -4
  635. package/lib/mol-repr/visual.js +11 -7
  636. package/lib/mol-repr/volume/direct-volume.d.ts +33 -57
  637. package/lib/mol-repr/volume/direct-volume.js +8 -12
  638. package/lib/mol-repr/volume/isosurface.d.ts +60 -0
  639. package/lib/mol-repr/volume/isosurface.js +11 -2
  640. package/lib/mol-repr/volume/registry.d.ts +31 -19
  641. package/lib/mol-repr/volume/representation.d.ts +10 -0
  642. package/lib/mol-repr/volume/slice.d.ts +30 -0
  643. package/lib/mol-repr/volume/slice.js +2 -2
  644. package/lib/mol-repr/volume/util.js +2 -2
  645. package/lib/mol-script/language/builder.d.ts +0 -1
  646. package/lib/mol-theme/clipping.d.ts +7 -15
  647. package/lib/mol-theme/clipping.js +5 -12
  648. package/lib/mol-theme/color/volume-value.d.ts +17 -0
  649. package/lib/mol-theme/color/volume-value.js +52 -0
  650. package/lib/mol-theme/color.d.ts +3 -0
  651. package/lib/mol-theme/color.js +2 -0
  652. package/lib/mol-util/clip.d.ts +49 -0
  653. package/lib/mol-util/clip.js +93 -0
  654. package/lib/mol-util/number-packing.d.ts +11 -0
  655. package/lib/mol-util/{float-packing.js → number-packing.js} +7 -14
  656. package/package.json +162 -162
  657. package/lib/commonjs/mol-util/float-packing.d.ts +0 -15
  658. package/lib/mol-util/float-packing.d.ts +0 -15
@@ -40,6 +40,16 @@ export declare const DihedralParams: {
40
40
  roughness: number;
41
41
  bumpiness: number;
42
42
  }>>;
43
+ clip: PD.Group<PD.Normalize<{
44
+ variant: import("../../../mol-util/clip").Clip.Variant;
45
+ objects: PD.Normalize<{
46
+ type: any;
47
+ invert: any;
48
+ position: any;
49
+ rotation: any;
50
+ scale: any;
51
+ }>[];
52
+ }>>;
43
53
  ignoreLight: PD.BooleanParam;
44
54
  sectorOpacity: PD.Numeric;
45
55
  color: PD.Color;
@@ -41,6 +41,16 @@ export declare const DistanceParams: {
41
41
  roughness: number;
42
42
  bumpiness: number;
43
43
  }>>;
44
+ clip: PD.Group<PD.Normalize<{
45
+ variant: import("../../../mol-util/clip").Clip.Variant;
46
+ objects: PD.Normalize<{
47
+ type: any;
48
+ invert: any;
49
+ position: any;
50
+ rotation: any;
51
+ scale: any;
52
+ }>[];
53
+ }>>;
44
54
  lineSizeAttenuation: PD.BooleanParam;
45
55
  linesColor: PD.Color;
46
56
  linesSize: PD.Numeric;
@@ -44,6 +44,16 @@ export declare const LabelParams: {
44
44
  roughness: number;
45
45
  bumpiness: number;
46
46
  }>>;
47
+ clip: PD.Group<PD.Normalize<{
48
+ variant: import("../../../mol-util/clip").Clip.Variant;
49
+ objects: PD.Normalize<{
50
+ type: any;
51
+ invert: any;
52
+ position: any;
53
+ rotation: any;
54
+ scale: any;
55
+ }>[];
56
+ }>>;
47
57
  };
48
58
  export declare type LabelParams = typeof LabelParams;
49
59
  export declare type LabelProps = PD.Values<LabelParams>;
@@ -28,6 +28,16 @@ export declare const OrientationParams: {
28
28
  roughness: number;
29
29
  bumpiness: number;
30
30
  }>>;
31
+ clip: PD.Group<PD.Normalize<{
32
+ variant: import("../../../mol-util/clip").Clip.Variant;
33
+ objects: PD.Normalize<{
34
+ type: any;
35
+ invert: any;
36
+ position: any;
37
+ rotation: any;
38
+ scale: any;
39
+ }>[];
40
+ }>>;
31
41
  };
32
42
  export declare type OrientationParams = typeof OrientationParams;
33
43
  export declare type OrientationProps = PD.Values<OrientationParams>;
@@ -27,6 +27,16 @@ export declare const PlaneParams: {
27
27
  roughness: number;
28
28
  bumpiness: number;
29
29
  }>>;
30
+ clip: PD.Group<PD.Normalize<{
31
+ variant: import("../../../mol-util/clip").Clip.Variant;
32
+ objects: PD.Normalize<{
33
+ type: any;
34
+ invert: any;
35
+ position: any;
36
+ rotation: any;
37
+ scale: any;
38
+ }>[];
39
+ }>>;
30
40
  };
31
41
  export declare type PlaneParams = typeof PlaneParams;
32
42
  export declare type PlaneProps = PD.Values<PlaneParams>;
@@ -30,6 +30,16 @@ export declare const UnitcellParams: {
30
30
  roughness: number;
31
31
  bumpiness: number;
32
32
  }>>;
33
+ clip: PD.Group<PD.Normalize<{
34
+ variant: import("../../../mol-util/clip").Clip.Variant;
35
+ objects: PD.Normalize<{
36
+ type: any;
37
+ invert: any;
38
+ position: any;
39
+ rotation: any;
40
+ scale: any;
41
+ }>[];
42
+ }>>;
33
43
  };
34
44
  export declare type UnitcellParams = typeof UnitcellParams;
35
45
  export declare type UnitcellProps = PD.Values<UnitcellParams>;
@@ -100,7 +100,7 @@ function ComplexRepresentation(label, ctx, getParams, visualCtor) {
100
100
  return false;
101
101
  // Remap `loci` from equivalent structure to the current `_structure`
102
102
  loci = loci_1.Loci.remap(loci, _structure);
103
- if (structure_1.StructureElement.Loci.is(loci) && structure_1.StructureElement.Loci.isWholeStructure(loci)) {
103
+ if (structure_1.Structure.isLoci(loci) || (structure_1.StructureElement.Loci.is(loci) && structure_1.StructureElement.Loci.isWholeStructure(loci))) {
104
104
  // Change to `EveryLoci` to allow for downstream optimizations
105
105
  loci = loci_1.EveryLoci;
106
106
  }
@@ -56,6 +56,16 @@ export declare const ComplexMeshParams: {
56
56
  roughness: number;
57
57
  bumpiness: number;
58
58
  }>>;
59
+ clip: PD.Group<PD.Normalize<{
60
+ variant: import("../../mol-util/clip").Clip.Variant;
61
+ objects: PD.Normalize<{
62
+ type: any;
63
+ invert: any;
64
+ position: any;
65
+ rotation: any;
66
+ scale: any;
67
+ }>[];
68
+ }>>;
59
69
  };
60
70
  export declare type ComplexMeshParams = typeof ComplexMeshParams;
61
71
  export interface ComplexMeshVisualBuilder<P extends ComplexMeshParams> extends ComplexVisualBuilder<P, Mesh> {
@@ -78,6 +88,16 @@ export declare const ComplexCylindersParams: {
78
88
  roughness: number;
79
89
  bumpiness: number;
80
90
  }>>;
91
+ clip: PD.Group<PD.Normalize<{
92
+ variant: import("../../mol-util/clip").Clip.Variant;
93
+ objects: PD.Normalize<{
94
+ type: any;
95
+ invert: any;
96
+ position: any;
97
+ rotation: any;
98
+ scale: any;
99
+ }>[];
100
+ }>>;
81
101
  };
82
102
  export declare type ComplexCylindersParams = typeof ComplexCylindersParams;
83
103
  export interface ComplexCylindersVisualBuilder<P extends ComplexCylindersParams> extends ComplexVisualBuilder<P, Cylinders> {
@@ -95,6 +115,16 @@ export declare const ComplexLinesParams: {
95
115
  roughness: number;
96
116
  bumpiness: number;
97
117
  }>>;
118
+ clip: PD.Group<PD.Normalize<{
119
+ variant: import("../../mol-util/clip").Clip.Variant;
120
+ objects: PD.Normalize<{
121
+ type: any;
122
+ invert: any;
123
+ position: any;
124
+ rotation: any;
125
+ scale: any;
126
+ }>[];
127
+ }>>;
98
128
  };
99
129
  export declare type ComplexLinesParams = typeof ComplexLinesParams;
100
130
  export interface ComplexLinesVisualBuilder<P extends ComplexLinesParams> extends ComplexVisualBuilder<P, Lines> {
@@ -129,6 +159,16 @@ export declare const ComplexTextParams: {
129
159
  roughness: number;
130
160
  bumpiness: number;
131
161
  }>>;
162
+ clip: PD.Group<PD.Normalize<{
163
+ variant: import("../../mol-util/clip").Clip.Variant;
164
+ objects: PD.Normalize<{
165
+ type: any;
166
+ invert: any;
167
+ position: any;
168
+ rotation: any;
169
+ scale: any;
170
+ }>[];
171
+ }>>;
132
172
  };
133
173
  export declare type ComplexTextParams = typeof ComplexTextParams;
134
174
  export interface ComplexTextVisualBuilder<P extends ComplexTextParams> extends ComplexVisualBuilder<P, Text> {
@@ -137,27 +177,9 @@ export declare function ComplexTextVisual<P extends ComplexTextParams>(builder:
137
177
  export declare const ComplexDirectVolumeParams: {
138
178
  unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
139
179
  includeParent: PD.BooleanParam;
140
- doubleSided: PD.BooleanParam;
141
- flipSided: PD.BooleanParam;
142
- flatShaded: PD.BooleanParam;
143
180
  ignoreLight: PD.BooleanParam;
144
181
  xrayShaded: PD.BooleanParam;
145
- renderMode: PD.Mapped<PD.NamedParams<PD.Normalize<{
146
- controlPoints: import("../../mol-math/linear-algebra/3d/vec2").Vec2[];
147
- list: {
148
- kind: "set" | "interpolate";
149
- colors: import("../../mol-util/color/color").ColorListEntry[];
150
- };
151
- }>, "volume"> | PD.NamedParams<PD.Normalize<{
152
- isoValue: Readonly<{
153
- kind: "absolute";
154
- absoluteValue: number;
155
- }> | Readonly<{
156
- kind: "relative";
157
- relativeValue: number;
158
- }>;
159
- singleLayer: boolean;
160
- }>, "isosurface">>;
182
+ controlPoints: PD.LineGraph;
161
183
  stepsPerCell: PD.Numeric;
162
184
  jumpLength: PD.Numeric;
163
185
  alpha: PD.Numeric;
@@ -167,6 +189,16 @@ export declare const ComplexDirectVolumeParams: {
167
189
  roughness: number;
168
190
  bumpiness: number;
169
191
  }>>;
192
+ clip: PD.Group<PD.Normalize<{
193
+ variant: import("../../mol-util/clip").Clip.Variant;
194
+ objects: PD.Normalize<{
195
+ type: any;
196
+ invert: any;
197
+ position: any;
198
+ rotation: any;
199
+ scale: any;
200
+ }>[];
201
+ }>>;
170
202
  };
171
203
  export declare type ComplexDirectVolumeParams = typeof ComplexDirectVolumeParams;
172
204
  export interface ComplexDirectVolumeVisualBuilder<P extends ComplexDirectVolumeParams> extends ComplexVisualBuilder<P, DirectVolume> {
@@ -189,6 +221,16 @@ export declare const ComplexTextureMeshParams: {
189
221
  roughness: number;
190
222
  bumpiness: number;
191
223
  }>>;
224
+ clip: PD.Group<PD.Normalize<{
225
+ variant: import("../../mol-util/clip").Clip.Variant;
226
+ objects: PD.Normalize<{
227
+ type: any;
228
+ invert: any;
229
+ position: any;
230
+ rotation: any;
231
+ scale: any;
232
+ }>[];
233
+ }>>;
192
234
  };
193
235
  export declare type ComplexTextureMeshParams = typeof ComplexTextureMeshParams;
194
236
  export interface ComplexTextureMeshVisualBuilder<P extends ComplexTextureMeshParams> extends ComplexVisualBuilder<P, TextureMesh> {
@@ -27,6 +27,16 @@ export declare const StructureMeshParams: {
27
27
  roughness: number;
28
28
  bumpiness: number;
29
29
  }>>;
30
+ clip: PD.Group<PD.Normalize<{
31
+ variant: import("../../mol-util/clip").Clip.Variant;
32
+ objects: PD.Normalize<{
33
+ type: any;
34
+ invert: any;
35
+ position: any;
36
+ rotation: any;
37
+ scale: any;
38
+ }>[];
39
+ }>>;
30
40
  };
31
41
  export declare type StructureMeshParams = typeof StructureMeshParams;
32
42
  export declare const StructureSpheresParams: {
@@ -43,6 +53,16 @@ export declare const StructureSpheresParams: {
43
53
  roughness: number;
44
54
  bumpiness: number;
45
55
  }>>;
56
+ clip: PD.Group<PD.Normalize<{
57
+ variant: import("../../mol-util/clip").Clip.Variant;
58
+ objects: PD.Normalize<{
59
+ type: any;
60
+ invert: any;
61
+ position: any;
62
+ rotation: any;
63
+ scale: any;
64
+ }>[];
65
+ }>>;
46
66
  };
47
67
  export declare type StructureSpheresParams = typeof StructureSpheresParams;
48
68
  export declare const StructureCylindersParams: {
@@ -60,6 +80,16 @@ export declare const StructureCylindersParams: {
60
80
  roughness: number;
61
81
  bumpiness: number;
62
82
  }>>;
83
+ clip: PD.Group<PD.Normalize<{
84
+ variant: import("../../mol-util/clip").Clip.Variant;
85
+ objects: PD.Normalize<{
86
+ type: any;
87
+ invert: any;
88
+ position: any;
89
+ rotation: any;
90
+ scale: any;
91
+ }>[];
92
+ }>>;
63
93
  };
64
94
  export declare type StructureCylindersParams = typeof StructureCylindersParams;
65
95
  export declare const StructurePointsParams: {
@@ -73,6 +103,16 @@ export declare const StructurePointsParams: {
73
103
  roughness: number;
74
104
  bumpiness: number;
75
105
  }>>;
106
+ clip: PD.Group<PD.Normalize<{
107
+ variant: import("../../mol-util/clip").Clip.Variant;
108
+ objects: PD.Normalize<{
109
+ type: any;
110
+ invert: any;
111
+ position: any;
112
+ rotation: any;
113
+ scale: any;
114
+ }>[];
115
+ }>>;
76
116
  };
77
117
  export declare type StructurePointsParams = typeof StructurePointsParams;
78
118
  export declare const StructureLinesParams: {
@@ -85,6 +125,16 @@ export declare const StructureLinesParams: {
85
125
  roughness: number;
86
126
  bumpiness: number;
87
127
  }>>;
128
+ clip: PD.Group<PD.Normalize<{
129
+ variant: import("../../mol-util/clip").Clip.Variant;
130
+ objects: PD.Normalize<{
131
+ type: any;
132
+ invert: any;
133
+ position: any;
134
+ rotation: any;
135
+ scale: any;
136
+ }>[];
137
+ }>>;
88
138
  };
89
139
  export declare type StructureLinesParams = typeof StructureLinesParams;
90
140
  export declare const StructureTextParams: {
@@ -114,30 +164,22 @@ export declare const StructureTextParams: {
114
164
  roughness: number;
115
165
  bumpiness: number;
116
166
  }>>;
167
+ clip: PD.Group<PD.Normalize<{
168
+ variant: import("../../mol-util/clip").Clip.Variant;
169
+ objects: PD.Normalize<{
170
+ type: any;
171
+ invert: any;
172
+ position: any;
173
+ rotation: any;
174
+ scale: any;
175
+ }>[];
176
+ }>>;
117
177
  };
118
178
  export declare type StructureTextParams = typeof StructureTextParams;
119
179
  export declare const StructureDirectVolumeParams: {
120
- doubleSided: PD.BooleanParam;
121
- flipSided: PD.BooleanParam;
122
- flatShaded: PD.BooleanParam;
123
180
  ignoreLight: PD.BooleanParam;
124
181
  xrayShaded: PD.BooleanParam;
125
- renderMode: PD.Mapped<PD.NamedParams<PD.Normalize<{
126
- controlPoints: import("../../mol-math/linear-algebra/3d/vec2").Vec2[];
127
- list: {
128
- kind: "set" | "interpolate";
129
- colors: import("../../mol-util/color/color").ColorListEntry[];
130
- };
131
- }>, "volume"> | PD.NamedParams<PD.Normalize<{
132
- isoValue: Readonly<{
133
- kind: "absolute";
134
- absoluteValue: number;
135
- }> | Readonly<{
136
- kind: "relative";
137
- relativeValue: number;
138
- }>;
139
- singleLayer: boolean;
140
- }>, "isosurface">>;
182
+ controlPoints: PD.LineGraph;
141
183
  stepsPerCell: PD.Numeric;
142
184
  jumpLength: PD.Numeric;
143
185
  alpha: PD.Numeric;
@@ -147,6 +189,16 @@ export declare const StructureDirectVolumeParams: {
147
189
  roughness: number;
148
190
  bumpiness: number;
149
191
  }>>;
192
+ clip: PD.Group<PD.Normalize<{
193
+ variant: import("../../mol-util/clip").Clip.Variant;
194
+ objects: PD.Normalize<{
195
+ type: any;
196
+ invert: any;
197
+ position: any;
198
+ rotation: any;
199
+ scale: any;
200
+ }>[];
201
+ }>>;
150
202
  };
151
203
  export declare type StructureDirectVolumeParams = typeof StructureDirectVolumeParams;
152
204
  export declare const StructureTextureMeshParams: {
@@ -164,5 +216,15 @@ export declare const StructureTextureMeshParams: {
164
216
  roughness: number;
165
217
  bumpiness: number;
166
218
  }>>;
219
+ clip: PD.Group<PD.Normalize<{
220
+ variant: import("../../mol-util/clip").Clip.Variant;
221
+ objects: PD.Normalize<{
222
+ type: any;
223
+ invert: any;
224
+ position: any;
225
+ rotation: any;
226
+ scale: any;
227
+ }>[];
228
+ }>>;
167
229
  };
168
230
  export declare type StructureTextureMeshParams = typeof StructureTextureMeshParams;
@@ -30,6 +30,16 @@ export declare namespace StructureRepresentationRegistry {
30
30
  roughness: number;
31
31
  bumpiness: number;
32
32
  }>>;
33
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
34
+ variant: import("../../mol-util/clip").Clip.Variant;
35
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
36
+ type: any;
37
+ invert: any;
38
+ position: any;
39
+ rotation: any;
40
+ scale: any;
41
+ }>[];
42
+ }>>;
33
43
  radialSegments: import("../../mol-util/param-definition").ParamDefinition.Numeric;
34
44
  detail: import("../../mol-util/param-definition").ParamDefinition.Numeric;
35
45
  aspectRatio: import("../../mol-util/param-definition").ParamDefinition.Numeric;
@@ -59,6 +69,16 @@ export declare namespace StructureRepresentationRegistry {
59
69
  roughness: number;
60
70
  bumpiness: number;
61
71
  }>>;
72
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
73
+ variant: import("../../mol-util/clip").Clip.Variant;
74
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
75
+ type: any;
76
+ invert: any;
77
+ position: any;
78
+ rotation: any;
79
+ scale: any;
80
+ }>[];
81
+ }>>;
62
82
  tryUseImpostor: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
63
83
  detail: import("../../mol-util/param-definition").ParamDefinition.Numeric;
64
84
  }, "backbone">;
@@ -98,6 +118,16 @@ export declare namespace StructureRepresentationRegistry {
98
118
  roughness: number;
99
119
  bumpiness: number;
100
120
  }>>;
121
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
122
+ variant: import("../../mol-util/clip").Clip.Variant;
123
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
124
+ type: any;
125
+ invert: any;
126
+ position: any;
127
+ rotation: any;
128
+ scale: any;
129
+ }>[];
130
+ }>>;
101
131
  flipSided: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
102
132
  flatShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
103
133
  traceOnly: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
@@ -133,6 +163,16 @@ export declare namespace StructureRepresentationRegistry {
133
163
  roughness: number;
134
164
  bumpiness: number;
135
165
  }>>;
166
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
167
+ variant: import("../../mol-util/clip").Clip.Variant;
168
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
169
+ type: any;
170
+ invert: any;
171
+ position: any;
172
+ rotation: any;
173
+ scale: any;
174
+ }>[];
175
+ }>>;
136
176
  linkSizeFactor: import("../../mol-util/param-definition").ParamDefinition.Numeric;
137
177
  detail: import("../../mol-util/param-definition").ParamDefinition.Numeric;
138
178
  sizeFactor: import("../../mol-util/param-definition").ParamDefinition.Numeric;
@@ -173,6 +213,16 @@ export declare namespace StructureRepresentationRegistry {
173
213
  roughness: number;
174
214
  bumpiness: number;
175
215
  }>>;
216
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
217
+ variant: import("../../mol-util/clip").Clip.Variant;
218
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
219
+ type: any;
220
+ invert: any;
221
+ position: any;
222
+ rotation: any;
223
+ scale: any;
224
+ }>[];
225
+ }>>;
176
226
  flipSided: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
177
227
  flatShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
178
228
  detail: import("../../mol-util/param-definition").ParamDefinition.Numeric;
@@ -196,6 +246,16 @@ export declare namespace StructureRepresentationRegistry {
196
246
  roughness: number;
197
247
  bumpiness: number;
198
248
  }>>;
249
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
250
+ variant: import("../../mol-util/clip").Clip.Variant;
251
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
252
+ type: any;
253
+ invert: any;
254
+ position: any;
255
+ rotation: any;
256
+ scale: any;
257
+ }>[];
258
+ }>>;
199
259
  tryUseGpu: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
200
260
  smoothColors: import("../../mol-util/param-definition").ParamDefinition.Mapped<import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "auto"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
201
261
  resolutionFactor: number;
@@ -217,27 +277,9 @@ export declare namespace StructureRepresentationRegistry {
217
277
  radiusOffset: import("../../mol-util/param-definition").ParamDefinition.Numeric;
218
278
  smoothness: import("../../mol-util/param-definition").ParamDefinition.Numeric;
219
279
  unitKinds: import("../../mol-util/param-definition").ParamDefinition.MultiSelect<"spheres" | "gaussians" | "atomic">;
220
- doubleSided: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
221
- flipSided: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
222
- flatShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
223
280
  ignoreLight: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
224
281
  xrayShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
225
- renderMode: import("../../mol-util/param-definition").ParamDefinition.Mapped<import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
226
- controlPoints: import("../../mol-math/linear-algebra/3d/vec2").Vec2[];
227
- list: {
228
- kind: "set" | "interpolate";
229
- colors: import("../../mol-util/color/color").ColorListEntry[];
230
- };
231
- }>, "volume"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
232
- isoValue: Readonly<{
233
- kind: "absolute";
234
- absoluteValue: number;
235
- }> | Readonly<{
236
- kind: "relative";
237
- relativeValue: number;
238
- }>;
239
- singleLayer: boolean;
240
- }>, "isosurface">>;
282
+ controlPoints: import("../../mol-util/param-definition").ParamDefinition.LineGraph;
241
283
  stepsPerCell: import("../../mol-util/param-definition").ParamDefinition.Numeric;
242
284
  jumpLength: import("../../mol-util/param-definition").ParamDefinition.Numeric;
243
285
  alpha: import("../../mol-util/param-definition").ParamDefinition.Numeric;
@@ -247,6 +289,16 @@ export declare namespace StructureRepresentationRegistry {
247
289
  roughness: number;
248
290
  bumpiness: number;
249
291
  }>>;
292
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
293
+ variant: import("../../mol-util/clip").Clip.Variant;
294
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
295
+ type: any;
296
+ invert: any;
297
+ position: any;
298
+ rotation: any;
299
+ scale: any;
300
+ }>[];
301
+ }>>;
250
302
  }, "gaussian-volume">;
251
303
  label: import("./representation").StructureRepresentationProvider<{
252
304
  visuals: import("../../mol-util/param-definition").ParamDefinition.MultiSelect<"label-text">;
@@ -282,6 +334,16 @@ export declare namespace StructureRepresentationRegistry {
282
334
  roughness: number;
283
335
  bumpiness: number;
284
336
  }>>;
337
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
338
+ variant: import("../../mol-util/clip").Clip.Variant;
339
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
340
+ type: any;
341
+ invert: any;
342
+ position: any;
343
+ rotation: any;
344
+ scale: any;
345
+ }>[];
346
+ }>>;
285
347
  }, "label">;
286
348
  line: import("./representation").StructureRepresentationProvider<{
287
349
  multipleBonds: import("../../mol-util/param-definition").ParamDefinition.Select<"offset" | "off" | "symmetric">;
@@ -301,6 +363,16 @@ export declare namespace StructureRepresentationRegistry {
301
363
  roughness: number;
302
364
  bumpiness: number;
303
365
  }>>;
366
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
367
+ variant: import("../../mol-util/clip").Clip.Variant;
368
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
369
+ type: any;
370
+ invert: any;
371
+ position: any;
372
+ rotation: any;
373
+ scale: any;
374
+ }>[];
375
+ }>>;
304
376
  pointSizeAttenuation: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
305
377
  pointStyle: import("../../mol-util/param-definition").ParamDefinition.Select<"circle" | "square" | "fuzzy">;
306
378
  includeTypes: import("../../mol-util/param-definition").ParamDefinition.MultiSelect<"covalent" | "metal-coordination" | "hydrogen-bond" | "disulfide" | "aromatic" | "computed">;
@@ -330,6 +402,16 @@ export declare namespace StructureRepresentationRegistry {
330
402
  roughness: number;
331
403
  bumpiness: number;
332
404
  }>>;
405
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
406
+ variant: import("../../mol-util/clip").Clip.Variant;
407
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
408
+ type: any;
409
+ invert: any;
410
+ position: any;
411
+ rotation: any;
412
+ scale: any;
413
+ }>[];
414
+ }>>;
333
415
  smoothColors: import("../../mol-util/param-definition").ParamDefinition.Mapped<import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "auto"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
334
416
  resolutionFactor: number;
335
417
  sampleStride: number;
@@ -361,6 +443,16 @@ export declare namespace StructureRepresentationRegistry {
361
443
  roughness: number;
362
444
  bumpiness: number;
363
445
  }>>;
446
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
447
+ variant: import("../../mol-util/clip").Clip.Variant;
448
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
449
+ type: any;
450
+ invert: any;
451
+ position: any;
452
+ rotation: any;
453
+ scale: any;
454
+ }>[];
455
+ }>>;
364
456
  }, "orientation">;
365
457
  point: import("./representation").StructureRepresentationProvider<{
366
458
  pointSizeAttenuation: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
@@ -377,6 +469,16 @@ export declare namespace StructureRepresentationRegistry {
377
469
  roughness: number;
378
470
  bumpiness: number;
379
471
  }>>;
472
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
473
+ variant: import("../../mol-util/clip").Clip.Variant;
474
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
475
+ type: any;
476
+ invert: any;
477
+ position: any;
478
+ rotation: any;
479
+ scale: any;
480
+ }>[];
481
+ }>>;
380
482
  }, "point">;
381
483
  putty: import("./representation").StructureRepresentationProvider<{
382
484
  sizeFactor: import("../../mol-util/param-definition").ParamDefinition.Numeric;
@@ -398,6 +500,16 @@ export declare namespace StructureRepresentationRegistry {
398
500
  roughness: number;
399
501
  bumpiness: number;
400
502
  }>>;
503
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
504
+ variant: import("../../mol-util/clip").Clip.Variant;
505
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
506
+ type: any;
507
+ invert: any;
508
+ position: any;
509
+ rotation: any;
510
+ scale: any;
511
+ }>[];
512
+ }>>;
401
513
  detail: import("../../mol-util/param-definition").ParamDefinition.Numeric;
402
514
  linearSegments: import("../../mol-util/param-definition").ParamDefinition.Numeric;
403
515
  }, "putty">;
@@ -421,6 +533,16 @@ export declare namespace StructureRepresentationRegistry {
421
533
  roughness: number;
422
534
  bumpiness: number;
423
535
  }>>;
536
+ clip: import("../../mol-util/param-definition").ParamDefinition.Group<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
537
+ variant: import("../../mol-util/clip").Clip.Variant;
538
+ objects: import("../../mol-util/param-definition").ParamDefinition.Normalize<{
539
+ type: any;
540
+ invert: any;
541
+ position: any;
542
+ rotation: any;
543
+ scale: any;
544
+ }>[];
545
+ }>>;
424
546
  flipSided: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
425
547
  flatShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
426
548
  }, "spacefill">;