molstar 3.34.0 → 3.35.0

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 (237) hide show
  1. package/build/viewer/molstar.js +1 -1
  2. package/lib/apps/docking-viewer/viewport.d.ts +1 -2
  3. package/lib/apps/viewer/app.d.ts +10 -1
  4. package/lib/apps/viewer/app.js +11 -1
  5. package/lib/commonjs/apps/docking-viewer/viewport.d.ts +1 -2
  6. package/lib/commonjs/apps/viewer/app.d.ts +10 -1
  7. package/lib/commonjs/apps/viewer/app.js +12 -2
  8. package/lib/commonjs/examples/basic-wrapper/controls.d.ts +1 -2
  9. package/lib/commonjs/extensions/dnatco/ntc-tube/color.d.ts +2 -2
  10. package/lib/commonjs/extensions/dnatco/ntc-tube/color.js +7 -2
  11. package/lib/commonjs/extensions/dnatco/ntc-tube/representation.js +1 -1
  12. package/lib/commonjs/extensions/geo-export/glb-exporter.d.ts +1 -1
  13. package/lib/commonjs/extensions/geo-export/glb-exporter.js +50 -31
  14. package/lib/commonjs/extensions/geo-export/mesh-exporter.d.ts +18 -5
  15. package/lib/commonjs/extensions/geo-export/mesh-exporter.js +167 -26
  16. package/lib/commonjs/extensions/geo-export/obj-exporter.d.ts +1 -1
  17. package/lib/commonjs/extensions/geo-export/obj-exporter.js +9 -7
  18. package/lib/commonjs/extensions/geo-export/stl-exporter.d.ts +1 -1
  19. package/lib/commonjs/extensions/geo-export/stl-exporter.js +5 -3
  20. package/lib/commonjs/extensions/geo-export/usdz-exporter.d.ts +1 -1
  21. package/lib/commonjs/extensions/geo-export/usdz-exporter.js +9 -7
  22. package/lib/commonjs/extensions/rcsb/assembly-symmetry/ui.d.ts +4 -5
  23. package/lib/commonjs/extensions/sb-ncbr/index.d.ts +3 -0
  24. package/lib/commonjs/extensions/sb-ncbr/index.js +9 -0
  25. package/lib/commonjs/extensions/sb-ncbr/partial-charges/behavior.d.ts +5 -0
  26. package/lib/commonjs/extensions/sb-ncbr/partial-charges/behavior.js +42 -0
  27. package/lib/commonjs/extensions/sb-ncbr/partial-charges/color.d.ts +16 -0
  28. package/lib/commonjs/extensions/sb-ncbr/partial-charges/color.js +129 -0
  29. package/lib/commonjs/extensions/sb-ncbr/partial-charges/labels.d.ts +3 -0
  30. package/lib/commonjs/extensions/sb-ncbr/partial-charges/labels.js +38 -0
  31. package/lib/commonjs/extensions/sb-ncbr/partial-charges/preset.d.ts +33 -0
  32. package/lib/commonjs/extensions/sb-ncbr/partial-charges/preset.js +34 -0
  33. package/lib/commonjs/extensions/sb-ncbr/partial-charges/property.d.ts +21 -0
  34. package/lib/commonjs/extensions/sb-ncbr/partial-charges/property.js +156 -0
  35. package/lib/commonjs/extensions/wwpdb/struct-conn/index.d.ts +45 -0
  36. package/lib/commonjs/extensions/wwpdb/struct-conn/index.js +277 -0
  37. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders-builder.d.ts +3 -2
  38. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders-builder.js +19 -11
  39. package/lib/commonjs/mol-geo/geometry/lines/lines-builder.d.ts +2 -1
  40. package/lib/commonjs/mol-geo/geometry/lines/lines-builder.js +15 -9
  41. package/lib/commonjs/mol-geo/geometry/mesh/builder/cylinder.d.ts +3 -2
  42. package/lib/commonjs/mol-geo/geometry/mesh/builder/cylinder.js +18 -15
  43. package/lib/commonjs/mol-math/linear-algebra/3d/vec3.d.ts +2 -1
  44. package/lib/commonjs/mol-math/linear-algebra/3d/vec3.js +6 -1
  45. package/lib/commonjs/mol-math/linear-algebra/matrix/principal-axes.d.ts +2 -1
  46. package/lib/commonjs/mol-math/linear-algebra/matrix/principal-axes.js +11 -4
  47. package/lib/commonjs/mol-model/structure/model/types.js +1 -1
  48. package/lib/commonjs/mol-model/structure/structure/structure.d.ts +1 -1
  49. package/lib/commonjs/mol-model/structure/structure/structure.js +4 -2
  50. package/lib/commonjs/mol-model/structure/structure/unit/bonds/inter-compute.d.ts +1 -1
  51. package/lib/commonjs/mol-model/structure/structure/unit/bonds/inter-compute.js +26 -12
  52. package/lib/commonjs/mol-model-formats/structure/pdb/atom-site.d.ts +4 -2
  53. package/lib/commonjs/mol-model-formats/structure/pdb/atom-site.js +5 -3
  54. package/lib/commonjs/mol-model-formats/structure/pdb/header.d.ts +11 -0
  55. package/lib/commonjs/mol-model-formats/structure/pdb/header.js +21 -0
  56. package/lib/commonjs/mol-model-formats/structure/pdb/to-cif.d.ts +2 -1
  57. package/lib/commonjs/mol-model-formats/structure/pdb/to-cif.js +31 -4
  58. package/lib/commonjs/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts +3 -1
  59. package/lib/commonjs/mol-model-props/computed/representations/interactions-inter-unit-cylinder.js +48 -7
  60. package/lib/commonjs/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts +3 -1
  61. package/lib/commonjs/mol-model-props/computed/representations/interactions-intra-unit-cylinder.js +56 -13
  62. package/lib/commonjs/mol-model-props/computed/representations/interactions.d.ts +6 -0
  63. package/lib/commonjs/mol-model-props/computed/representations/shared.d.ts +4 -1
  64. package/lib/commonjs/mol-model-props/computed/representations/shared.js +5 -2
  65. package/lib/commonjs/mol-plugin/state.js +10 -13
  66. package/lib/commonjs/mol-plugin-state/manager/structure/component.d.ts +2 -1
  67. package/lib/commonjs/mol-plugin-state/manager/structure/component.js +6 -1
  68. package/lib/commonjs/mol-plugin-ui/base.d.ts +1 -1
  69. package/lib/commonjs/mol-plugin-ui/controls/action-menu.d.ts +1 -1
  70. package/lib/commonjs/mol-plugin-ui/controls/color.d.ts +3 -3
  71. package/lib/commonjs/mol-plugin-ui/controls/common.d.ts +9 -9
  72. package/lib/commonjs/mol-plugin-ui/controls/icons.d.ts +68 -68
  73. package/lib/commonjs/mol-plugin-ui/controls/legend.d.ts +2 -2
  74. package/lib/commonjs/mol-plugin-ui/controls/line-graph/line-graph-component.d.ts +1 -1
  75. package/lib/commonjs/mol-plugin-ui/controls/line-graph/point-component.d.ts +1 -1
  76. package/lib/commonjs/mol-plugin-ui/controls/parameters.d.ts +44 -44
  77. package/lib/commonjs/mol-plugin-ui/controls/screenshot.d.ts +1 -1
  78. package/lib/commonjs/mol-plugin-ui/controls/slider.d.ts +4 -4
  79. package/lib/commonjs/mol-plugin-ui/controls.d.ts +7 -7
  80. package/lib/commonjs/mol-plugin-ui/custom/volume.d.ts +1 -2
  81. package/lib/commonjs/mol-plugin-ui/left-panel.d.ts +2 -2
  82. package/lib/commonjs/mol-plugin-ui/plugin.d.ts +5 -5
  83. package/lib/commonjs/mol-plugin-ui/sequence/sequence.d.ts +3 -3
  84. package/lib/commonjs/mol-plugin-ui/sequence.d.ts +1 -2
  85. package/lib/commonjs/mol-plugin-ui/state/actions.d.ts +1 -2
  86. package/lib/commonjs/mol-plugin-ui/state/animation.d.ts +1 -2
  87. package/lib/commonjs/mol-plugin-ui/state/common.d.ts +5 -5
  88. package/lib/commonjs/mol-plugin-ui/state/snapshots.d.ts +6 -6
  89. package/lib/commonjs/mol-plugin-ui/state/snapshots.js +1 -1
  90. package/lib/commonjs/mol-plugin-ui/state/tree.d.ts +1 -2
  91. package/lib/commonjs/mol-plugin-ui/state/update-transform.d.ts +1 -2
  92. package/lib/commonjs/mol-plugin-ui/structure/components.d.ts +2 -3
  93. package/lib/commonjs/mol-plugin-ui/structure/focus.d.ts +1 -2
  94. package/lib/commonjs/mol-plugin-ui/structure/generic.d.ts +3 -3
  95. package/lib/commonjs/mol-plugin-ui/structure/measurements.d.ts +6 -7
  96. package/lib/commonjs/mol-plugin-ui/structure/quick-styles.d.ts +2 -3
  97. package/lib/commonjs/mol-plugin-ui/structure/selection.d.ts +3 -3
  98. package/lib/commonjs/mol-plugin-ui/structure/source.d.ts +4 -5
  99. package/lib/commonjs/mol-plugin-ui/structure/superposition.d.ts +9 -10
  100. package/lib/commonjs/mol-plugin-ui/structure/volume.d.ts +4 -5
  101. package/lib/commonjs/mol-plugin-ui/task.d.ts +2 -3
  102. package/lib/commonjs/mol-plugin-ui/toast.d.ts +1 -2
  103. package/lib/commonjs/mol-plugin-ui/viewport/canvas.d.ts +2 -2
  104. package/lib/commonjs/mol-plugin-ui/viewport/help.d.ts +6 -6
  105. package/lib/commonjs/mol-plugin-ui/viewport/screenshot.d.ts +1 -1
  106. package/lib/commonjs/mol-plugin-ui/viewport/simple-settings.d.ts +1 -2
  107. package/lib/commonjs/mol-plugin-ui/viewport.d.ts +4 -4
  108. package/lib/commonjs/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +2 -1
  109. package/lib/commonjs/mol-repr/structure/visual/polymer-gap-cylinder.js +4 -3
  110. package/lib/commonjs/mol-repr/structure/visual/util/common.d.ts +2 -2
  111. package/lib/commonjs/mol-repr/structure/visual/util/common.js +11 -3
  112. package/lib/commonjs/mol-repr/structure/visual/util/link.d.ts +2 -1
  113. package/lib/commonjs/mol-repr/structure/visual/util/link.js +34 -65
  114. package/lib/commonjs/mol-script/language/builder.d.ts +17 -0
  115. package/lib/commonjs/mol-script/language/symbol-table/core.d.ts +17 -0
  116. package/lib/commonjs/mol-script/language/symbol-table/core.js +5 -3
  117. package/lib/commonjs/mol-script/language/symbol-table.d.ts +17 -0
  118. package/lib/commonjs/mol-script/runtime/query/table.js +5 -0
  119. package/lib/commonjs/mol-script/script/mol-script/symbols.js +5 -0
  120. package/lib/commonjs/mol-state/state.d.ts +1 -1
  121. package/lib/commonjs/mol-state/state.js +24 -4
  122. package/lib/examples/basic-wrapper/controls.d.ts +1 -2
  123. package/lib/extensions/dnatco/ntc-tube/color.d.ts +2 -2
  124. package/lib/extensions/dnatco/ntc-tube/color.js +7 -2
  125. package/lib/extensions/dnatco/ntc-tube/representation.js +1 -1
  126. package/lib/extensions/geo-export/glb-exporter.d.ts +1 -1
  127. package/lib/extensions/geo-export/glb-exporter.js +50 -31
  128. package/lib/extensions/geo-export/mesh-exporter.d.ts +18 -5
  129. package/lib/extensions/geo-export/mesh-exporter.js +167 -26
  130. package/lib/extensions/geo-export/obj-exporter.d.ts +1 -1
  131. package/lib/extensions/geo-export/obj-exporter.js +9 -7
  132. package/lib/extensions/geo-export/stl-exporter.d.ts +1 -1
  133. package/lib/extensions/geo-export/stl-exporter.js +5 -3
  134. package/lib/extensions/geo-export/usdz-exporter.d.ts +1 -1
  135. package/lib/extensions/geo-export/usdz-exporter.js +9 -7
  136. package/lib/extensions/rcsb/assembly-symmetry/ui.d.ts +4 -5
  137. package/lib/extensions/sb-ncbr/index.d.ts +3 -0
  138. package/lib/extensions/sb-ncbr/index.js +3 -0
  139. package/lib/extensions/sb-ncbr/partial-charges/behavior.d.ts +5 -0
  140. package/lib/extensions/sb-ncbr/partial-charges/behavior.js +39 -0
  141. package/lib/extensions/sb-ncbr/partial-charges/color.d.ts +16 -0
  142. package/lib/extensions/sb-ncbr/partial-charges/color.js +124 -0
  143. package/lib/extensions/sb-ncbr/partial-charges/labels.d.ts +3 -0
  144. package/lib/extensions/sb-ncbr/partial-charges/labels.js +34 -0
  145. package/lib/extensions/sb-ncbr/partial-charges/preset.d.ts +33 -0
  146. package/lib/extensions/sb-ncbr/partial-charges/preset.js +31 -0
  147. package/lib/extensions/sb-ncbr/partial-charges/property.d.ts +21 -0
  148. package/lib/extensions/sb-ncbr/partial-charges/property.js +152 -0
  149. package/lib/extensions/wwpdb/struct-conn/index.d.ts +45 -0
  150. package/lib/extensions/wwpdb/struct-conn/index.js +274 -0
  151. package/lib/mol-geo/geometry/cylinders/cylinders-builder.d.ts +3 -2
  152. package/lib/mol-geo/geometry/cylinders/cylinders-builder.js +19 -11
  153. package/lib/mol-geo/geometry/lines/lines-builder.d.ts +2 -1
  154. package/lib/mol-geo/geometry/lines/lines-builder.js +15 -9
  155. package/lib/mol-geo/geometry/mesh/builder/cylinder.d.ts +3 -2
  156. package/lib/mol-geo/geometry/mesh/builder/cylinder.js +18 -15
  157. package/lib/mol-math/linear-algebra/3d/vec3.d.ts +2 -1
  158. package/lib/mol-math/linear-algebra/3d/vec3.js +6 -1
  159. package/lib/mol-math/linear-algebra/matrix/principal-axes.d.ts +2 -1
  160. package/lib/mol-math/linear-algebra/matrix/principal-axes.js +11 -4
  161. package/lib/mol-model/structure/model/types.js +1 -1
  162. package/lib/mol-model/structure/structure/structure.d.ts +1 -1
  163. package/lib/mol-model/structure/structure/structure.js +4 -2
  164. package/lib/mol-model/structure/structure/unit/bonds/inter-compute.d.ts +1 -1
  165. package/lib/mol-model/structure/structure/unit/bonds/inter-compute.js +26 -12
  166. package/lib/mol-model-formats/structure/pdb/atom-site.d.ts +4 -2
  167. package/lib/mol-model-formats/structure/pdb/atom-site.js +5 -3
  168. package/lib/mol-model-formats/structure/pdb/header.d.ts +11 -0
  169. package/lib/mol-model-formats/structure/pdb/header.js +17 -0
  170. package/lib/mol-model-formats/structure/pdb/to-cif.d.ts +2 -1
  171. package/lib/mol-model-formats/structure/pdb/to-cif.js +32 -5
  172. package/lib/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts +3 -1
  173. package/lib/mol-model-props/computed/representations/interactions-inter-unit-cylinder.js +49 -8
  174. package/lib/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts +3 -1
  175. package/lib/mol-model-props/computed/representations/interactions-intra-unit-cylinder.js +56 -13
  176. package/lib/mol-model-props/computed/representations/interactions.d.ts +6 -0
  177. package/lib/mol-model-props/computed/representations/shared.d.ts +4 -1
  178. package/lib/mol-model-props/computed/representations/shared.js +5 -2
  179. package/lib/mol-plugin/state.js +10 -13
  180. package/lib/mol-plugin/version.js +2 -2
  181. package/lib/mol-plugin-state/manager/structure/component.d.ts +2 -1
  182. package/lib/mol-plugin-state/manager/structure/component.js +6 -1
  183. package/lib/mol-plugin-ui/base.d.ts +1 -1
  184. package/lib/mol-plugin-ui/controls/action-menu.d.ts +1 -1
  185. package/lib/mol-plugin-ui/controls/color.d.ts +3 -3
  186. package/lib/mol-plugin-ui/controls/common.d.ts +9 -9
  187. package/lib/mol-plugin-ui/controls/icons.d.ts +68 -68
  188. package/lib/mol-plugin-ui/controls/legend.d.ts +2 -2
  189. package/lib/mol-plugin-ui/controls/line-graph/line-graph-component.d.ts +1 -1
  190. package/lib/mol-plugin-ui/controls/line-graph/point-component.d.ts +1 -1
  191. package/lib/mol-plugin-ui/controls/parameters.d.ts +44 -44
  192. package/lib/mol-plugin-ui/controls/screenshot.d.ts +1 -1
  193. package/lib/mol-plugin-ui/controls/slider.d.ts +4 -4
  194. package/lib/mol-plugin-ui/controls.d.ts +7 -7
  195. package/lib/mol-plugin-ui/custom/volume.d.ts +1 -2
  196. package/lib/mol-plugin-ui/left-panel.d.ts +2 -2
  197. package/lib/mol-plugin-ui/plugin.d.ts +5 -5
  198. package/lib/mol-plugin-ui/sequence/sequence.d.ts +3 -3
  199. package/lib/mol-plugin-ui/sequence.d.ts +1 -2
  200. package/lib/mol-plugin-ui/state/actions.d.ts +1 -2
  201. package/lib/mol-plugin-ui/state/animation.d.ts +1 -2
  202. package/lib/mol-plugin-ui/state/common.d.ts +5 -5
  203. package/lib/mol-plugin-ui/state/snapshots.d.ts +6 -6
  204. package/lib/mol-plugin-ui/state/snapshots.js +1 -1
  205. package/lib/mol-plugin-ui/state/tree.d.ts +1 -2
  206. package/lib/mol-plugin-ui/state/update-transform.d.ts +1 -2
  207. package/lib/mol-plugin-ui/structure/components.d.ts +2 -3
  208. package/lib/mol-plugin-ui/structure/focus.d.ts +1 -2
  209. package/lib/mol-plugin-ui/structure/generic.d.ts +3 -3
  210. package/lib/mol-plugin-ui/structure/measurements.d.ts +6 -7
  211. package/lib/mol-plugin-ui/structure/quick-styles.d.ts +2 -3
  212. package/lib/mol-plugin-ui/structure/selection.d.ts +3 -3
  213. package/lib/mol-plugin-ui/structure/source.d.ts +4 -5
  214. package/lib/mol-plugin-ui/structure/superposition.d.ts +9 -10
  215. package/lib/mol-plugin-ui/structure/volume.d.ts +4 -5
  216. package/lib/mol-plugin-ui/task.d.ts +2 -3
  217. package/lib/mol-plugin-ui/toast.d.ts +1 -2
  218. package/lib/mol-plugin-ui/viewport/canvas.d.ts +2 -2
  219. package/lib/mol-plugin-ui/viewport/help.d.ts +6 -6
  220. package/lib/mol-plugin-ui/viewport/screenshot.d.ts +1 -1
  221. package/lib/mol-plugin-ui/viewport/simple-settings.d.ts +1 -2
  222. package/lib/mol-plugin-ui/viewport.d.ts +4 -4
  223. package/lib/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +2 -1
  224. package/lib/mol-repr/structure/visual/polymer-gap-cylinder.js +4 -3
  225. package/lib/mol-repr/structure/visual/util/common.d.ts +2 -2
  226. package/lib/mol-repr/structure/visual/util/common.js +11 -3
  227. package/lib/mol-repr/structure/visual/util/link.d.ts +2 -1
  228. package/lib/mol-repr/structure/visual/util/link.js +34 -65
  229. package/lib/mol-script/language/builder.d.ts +17 -0
  230. package/lib/mol-script/language/symbol-table/core.d.ts +17 -0
  231. package/lib/mol-script/language/symbol-table/core.js +5 -3
  232. package/lib/mol-script/language/symbol-table.d.ts +17 -0
  233. package/lib/mol-script/runtime/query/table.js +6 -1
  234. package/lib/mol-script/script/mol-script/symbols.js +5 -0
  235. package/lib/mol-state/state.d.ts +1 -1
  236. package/lib/mol-state/state.js +24 -4
  237. package/package.json +22 -20

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