molstar 2.3.9 → 3.0.0-dev.10

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 (3701) hide show
  1. package/README.md +18 -0
  2. package/build/viewer/embedded.html +5 -5
  3. package/build/viewer/index.html +29 -17
  4. package/build/viewer/molstar.css +1 -1
  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 +8 -8
  8. package/lib/apps/docking-viewer/index.js +87 -74
  9. package/lib/apps/docking-viewer/viewport.d.ts +2 -2
  10. package/lib/apps/docking-viewer/viewport.js +18 -15
  11. package/lib/apps/viewer/app.d.ts +230 -0
  12. package/lib/apps/viewer/app.js +515 -0
  13. package/lib/apps/viewer/embedded.html +5 -5
  14. package/lib/apps/viewer/index.d.ts +2 -403
  15. package/lib/apps/viewer/index.html +29 -17
  16. package/lib/apps/viewer/index.js +2 -420
  17. package/lib/cli/chem-comp-dict/util.d.ts +4 -4
  18. package/lib/cli/cifschema/index.d.ts +1 -1
  19. package/lib/cli/cifschema/index.js +15 -35
  20. package/lib/cli/cifschema/util/cif-dic.js +1 -0
  21. package/lib/commonjs/apps/docking-viewer/index.d.ts +2 -1
  22. package/lib/commonjs/apps/docking-viewer/index.js +86 -73
  23. package/lib/commonjs/apps/docking-viewer/viewport.d.ts +2 -2
  24. package/lib/commonjs/apps/docking-viewer/viewport.js +18 -15
  25. package/lib/commonjs/apps/viewer/app.d.ts +230 -0
  26. package/lib/commonjs/apps/viewer/app.js +521 -0
  27. package/lib/commonjs/apps/viewer/index.d.ts +2 -403
  28. package/lib/commonjs/apps/viewer/index.js +2 -423
  29. package/lib/commonjs/cli/chem-comp-dict/util.d.ts +4 -4
  30. package/lib/commonjs/cli/cifschema/index.d.ts +1 -1
  31. package/lib/commonjs/cli/cifschema/index.js +15 -35
  32. package/lib/commonjs/cli/cifschema/util/cif-dic.js +1 -0
  33. package/lib/commonjs/examples/alpha-orbitals/index.js +3 -4
  34. package/lib/commonjs/examples/basic-wrapper/index.js +30 -14
  35. package/lib/commonjs/examples/lighting/index.d.ts +1 -1
  36. package/lib/commonjs/examples/lighting/index.js +58 -41
  37. package/lib/commonjs/examples/proteopedia-wrapper/index.js +33 -15
  38. package/lib/commonjs/extensions/alpha-orbitals/transforms.d.ts +0 -1
  39. package/lib/commonjs/extensions/alpha-orbitals/transforms.js +1 -14
  40. package/lib/commonjs/extensions/anvil/behavior.d.ts +13 -2
  41. package/lib/commonjs/extensions/anvil/representation.d.ts +88 -5
  42. package/lib/commonjs/extensions/anvil/representation.js +1 -1
  43. package/lib/commonjs/extensions/cellpack/model.d.ts +1 -1
  44. package/lib/commonjs/extensions/cellpack/representation.d.ts +19 -2
  45. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.d.ts +1 -1
  46. package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.d.ts +57 -6
  47. package/lib/commonjs/extensions/geo-export/controls.js +16 -18
  48. package/lib/commonjs/extensions/geo-export/glb-exporter.d.ts +5 -3
  49. package/lib/commonjs/extensions/geo-export/glb-exporter.js +49 -27
  50. package/lib/commonjs/extensions/geo-export/mesh-exporter.d.ts +31 -2
  51. package/lib/commonjs/extensions/geo-export/mesh-exporter.js +91 -19
  52. package/lib/commonjs/extensions/geo-export/obj-exporter.d.ts +1 -0
  53. package/lib/commonjs/extensions/geo-export/obj-exporter.js +24 -15
  54. package/lib/commonjs/extensions/geo-export/ui.js +24 -20
  55. package/lib/commonjs/extensions/geo-export/usdz-exporter.d.ts +3 -5
  56. package/lib/commonjs/extensions/geo-export/usdz-exporter.js +39 -30
  57. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.d.ts +68 -0
  58. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.js +236 -0
  59. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.d.ts +14 -0
  60. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.js +125 -0
  61. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.d.ts +12 -0
  62. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.js +111 -0
  63. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.d.ts +28 -0
  64. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.js +130 -0
  65. package/lib/commonjs/extensions/mp4-export/controls.d.ts +1 -0
  66. package/lib/commonjs/extensions/mp4-export/controls.js +10 -8
  67. package/lib/commonjs/extensions/mp4-export/encoder.js +1 -1
  68. package/lib/commonjs/extensions/mp4-export/ui.js +7 -6
  69. package/lib/commonjs/extensions/pdbe/structure-quality-report/prop.js +1 -1
  70. package/lib/commonjs/extensions/rcsb/assembly-symmetry/behavior.d.ts +17 -6
  71. package/lib/commonjs/extensions/rcsb/assembly-symmetry/color.d.ts +12 -12
  72. package/lib/commonjs/extensions/rcsb/assembly-symmetry/prop.js +1 -1
  73. package/lib/commonjs/extensions/rcsb/assembly-symmetry/representation.d.ts +18 -1
  74. package/lib/commonjs/extensions/rcsb/graphql/types.d.ts +24 -23
  75. package/lib/commonjs/extensions/rcsb/validation-report/behavior.d.ts +3 -3
  76. package/lib/commonjs/extensions/rcsb/validation-report/prop.js +1 -1
  77. package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts +95 -10
  78. package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +39 -27
  79. package/lib/commonjs/mol-canvas3d/canvas3d.js +37 -25
  80. package/lib/commonjs/mol-canvas3d/controls/trackball.d.ts +9 -4
  81. package/lib/commonjs/mol-canvas3d/controls/trackball.js +50 -11
  82. package/lib/commonjs/mol-canvas3d/helper/bounding-sphere-helper.js +3 -2
  83. package/lib/commonjs/mol-canvas3d/helper/camera-helper.d.ts +14 -3
  84. package/lib/commonjs/mol-canvas3d/helper/camera-helper.js +2 -2
  85. package/lib/commonjs/mol-canvas3d/helper/handle-helper.d.ts +12 -1
  86. package/lib/commonjs/mol-canvas3d/helper/handle-helper.js +2 -2
  87. package/lib/commonjs/mol-canvas3d/helper/helper.d.ts +8 -0
  88. package/lib/commonjs/mol-canvas3d/passes/draw.d.ts +13 -1
  89. package/lib/commonjs/mol-canvas3d/passes/draw.js +19 -26
  90. package/lib/commonjs/mol-canvas3d/passes/image.d.ts +7 -2
  91. package/lib/commonjs/mol-canvas3d/passes/image.js +3 -2
  92. package/lib/commonjs/mol-canvas3d/passes/marking.js +1 -1
  93. package/lib/commonjs/mol-canvas3d/passes/multi-sample.d.ts +10 -2
  94. package/lib/commonjs/mol-canvas3d/passes/multi-sample.js +18 -14
  95. package/lib/commonjs/mol-canvas3d/passes/pick.js +12 -12
  96. package/lib/commonjs/mol-canvas3d/passes/postprocessing.d.ts +1 -0
  97. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +6 -4
  98. package/lib/commonjs/mol-canvas3d/passes/smaa.js +1 -1
  99. package/lib/commonjs/mol-data/int/impl/sorted-array.d.ts +1 -1
  100. package/lib/commonjs/mol-geo/geometry/base.d.ts +46 -6
  101. package/lib/commonjs/mol-geo/geometry/base.js +69 -7
  102. package/lib/commonjs/mol-geo/geometry/clipping-data.d.ts +1 -3
  103. package/lib/commonjs/mol-geo/geometry/clipping-data.js +3 -8
  104. package/lib/commonjs/mol-geo/geometry/color-data.d.ts +1 -1
  105. package/lib/commonjs/mol-geo/geometry/color-data.js +22 -0
  106. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +18 -1
  107. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +7 -3
  108. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.d.ts +21 -39
  109. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +24 -68
  110. package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.d.ts +2 -4
  111. package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.js +4 -7
  112. package/lib/commonjs/mol-geo/geometry/image/image.d.ts +16 -1
  113. package/lib/commonjs/mol-geo/geometry/image/image.js +3 -1
  114. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +17 -1
  115. package/lib/commonjs/mol-geo/geometry/lines/lines.js +3 -1
  116. package/lib/commonjs/mol-geo/geometry/marker-data.d.ts +0 -1
  117. package/lib/commonjs/mol-geo/geometry/marker-data.js +13 -9
  118. package/lib/commonjs/mol-geo/geometry/mesh/builder/tube.js +18 -8
  119. package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.d.ts +10 -2
  120. package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.js +188 -35
  121. package/lib/commonjs/mol-geo/geometry/mesh/mesh.d.ts +18 -1
  122. package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +7 -3
  123. package/lib/commonjs/mol-geo/geometry/overpaint-data.d.ts +7 -2
  124. package/lib/commonjs/mol-geo/geometry/overpaint-data.js +10 -1
  125. package/lib/commonjs/mol-geo/geometry/points/points.d.ts +18 -3
  126. package/lib/commonjs/mol-geo/geometry/points/points.js +3 -1
  127. package/lib/commonjs/mol-geo/geometry/size-data.js +5 -5
  128. package/lib/commonjs/mol-geo/geometry/spheres/spheres.d.ts +18 -2
  129. package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +7 -3
  130. package/lib/commonjs/mol-geo/geometry/substance-data.d.ts +23 -0
  131. package/lib/commonjs/mol-geo/geometry/substance-data.js +68 -0
  132. package/lib/commonjs/mol-geo/geometry/text/text.d.ts +16 -1
  133. package/lib/commonjs/mol-geo/geometry/text/text.js +3 -1
  134. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.d.ts +8 -3
  135. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.js +194 -27
  136. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +21 -2
  137. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +8 -3
  138. package/lib/commonjs/mol-geo/geometry/transparency-data.d.ts +7 -2
  139. package/lib/commonjs/mol-geo/geometry/transparency-data.js +10 -1
  140. package/lib/commonjs/mol-gl/compute/histogram-pyramid/sum.js +2 -2
  141. package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.d.ts +2 -2
  142. package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.js +13 -12
  143. package/lib/commonjs/mol-gl/compute/util.d.ts +25 -6
  144. package/lib/commonjs/mol-gl/compute/util.js +76 -21
  145. package/lib/commonjs/mol-gl/render-object.d.ts +2 -1
  146. package/lib/commonjs/mol-gl/render-object.js +10 -10
  147. package/lib/commonjs/mol-gl/renderable/cylinders.d.ts +51 -24
  148. package/lib/commonjs/mol-gl/renderable/cylinders.js +4 -4
  149. package/lib/commonjs/mol-gl/renderable/direct-volume.d.ts +34 -14
  150. package/lib/commonjs/mol-gl/renderable/direct-volume.js +3 -3
  151. package/lib/commonjs/mol-gl/renderable/image.d.ts +29 -4
  152. package/lib/commonjs/mol-gl/renderable/image.js +2 -2
  153. package/lib/commonjs/mol-gl/renderable/lines.d.ts +48 -23
  154. package/lib/commonjs/mol-gl/renderable/lines.js +3 -3
  155. package/lib/commonjs/mol-gl/renderable/mesh.d.ts +48 -21
  156. package/lib/commonjs/mol-gl/renderable/mesh.js +4 -4
  157. package/lib/commonjs/mol-gl/renderable/points.d.ts +29 -4
  158. package/lib/commonjs/mol-gl/renderable/points.js +3 -4
  159. package/lib/commonjs/mol-gl/renderable/schema.d.ts +51 -16
  160. package/lib/commonjs/mol-gl/renderable/schema.js +26 -20
  161. package/lib/commonjs/mol-gl/renderable/spheres.d.ts +51 -24
  162. package/lib/commonjs/mol-gl/renderable/spheres.js +4 -4
  163. package/lib/commonjs/mol-gl/renderable/text.d.ts +29 -4
  164. package/lib/commonjs/mol-gl/renderable/text.js +2 -2
  165. package/lib/commonjs/mol-gl/renderable/texture-mesh.d.ts +46 -19
  166. package/lib/commonjs/mol-gl/renderable/texture-mesh.js +3 -3
  167. package/lib/commonjs/mol-gl/renderable.d.ts +0 -1
  168. package/lib/commonjs/mol-gl/renderer.d.ts +20 -26
  169. package/lib/commonjs/mol-gl/renderer.js +76 -150
  170. package/lib/commonjs/mol-gl/scene.d.ts +2 -2
  171. package/lib/commonjs/mol-gl/scene.js +7 -5
  172. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.d.ts +3 -3
  173. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.js +3 -3
  174. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.d.ts +1 -1
  175. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.js +1 -1
  176. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.d.ts +1 -1
  177. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.js +1 -1
  178. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.d.ts +1 -1
  179. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.js +1 -1
  180. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.d.ts +1 -1
  181. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.js +1 -1
  182. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.d.ts +1 -1
  183. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.js +1 -1
  184. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.d.ts +1 -1
  185. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.js +1 -1
  186. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.d.ts +1 -1
  187. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.js +1 -1
  188. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.d.ts +1 -1
  189. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.js +1 -1
  190. package/lib/commonjs/mol-gl/shader/chunks/common-clip.glsl.d.ts +1 -1
  191. package/lib/commonjs/mol-gl/shader/chunks/common-clip.glsl.js +1 -1
  192. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.d.ts +1 -1
  193. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.js +1 -1
  194. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.d.ts +1 -1
  195. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.js +1 -1
  196. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.d.ts +1 -1
  197. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.js +1 -1
  198. package/lib/commonjs/mol-gl/shader/chunks/light-frag-params.glsl.d.ts +3 -3
  199. package/lib/commonjs/mol-gl/shader/chunks/light-frag-params.glsl.js +3 -3
  200. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.d.ts +1 -1
  201. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.js +1 -1
  202. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.frag.d.ts +1 -1
  203. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.frag.js +1 -1
  204. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.d.ts +1 -1
  205. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.js +1 -1
  206. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/normalize.frag.d.ts +1 -1
  207. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/normalize.frag.js +1 -1
  208. package/lib/commonjs/mol-gl/shader/cylinders.frag.d.ts +1 -1
  209. package/lib/commonjs/mol-gl/shader/cylinders.frag.js +1 -1
  210. package/lib/commonjs/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  211. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +1 -1
  212. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.d.ts +1 -1
  213. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.js +1 -1
  214. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.d.ts +1 -1
  215. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.js +1 -1
  216. package/lib/commonjs/mol-gl/shader/image.frag.d.ts +1 -1
  217. package/lib/commonjs/mol-gl/shader/image.frag.js +1 -1
  218. package/lib/commonjs/mol-gl/shader/marching-cubes/isosurface.frag.d.ts +1 -1
  219. package/lib/commonjs/mol-gl/shader/marching-cubes/isosurface.frag.js +1 -1
  220. package/lib/commonjs/mol-gl/shader/mesh.frag.d.ts +1 -1
  221. package/lib/commonjs/mol-gl/shader/mesh.frag.js +1 -1
  222. package/lib/commonjs/mol-gl/shader/mesh.vert.d.ts +1 -1
  223. package/lib/commonjs/mol-gl/shader/mesh.vert.js +1 -1
  224. package/lib/commonjs/mol-gl/shader/postprocessing.frag.d.ts +1 -1
  225. package/lib/commonjs/mol-gl/shader/postprocessing.frag.js +1 -1
  226. package/lib/commonjs/mol-gl/shader/spheres.frag.d.ts +1 -1
  227. package/lib/commonjs/mol-gl/shader/spheres.frag.js +1 -1
  228. package/lib/commonjs/mol-gl/shader-code.d.ts +3 -2
  229. package/lib/commonjs/mol-gl/shader-code.js +70 -23
  230. package/lib/commonjs/mol-gl/webgl/context.d.ts +1 -1
  231. package/lib/commonjs/mol-gl/webgl/extensions.js +3 -9
  232. package/lib/commonjs/mol-gl/webgl/render-item.d.ts +7 -6
  233. package/lib/commonjs/mol-gl/webgl/render-item.js +10 -8
  234. package/lib/commonjs/mol-gl/webgl/resources.js +9 -2
  235. package/lib/commonjs/mol-gl/webgl/vertex-array.d.ts +3 -2
  236. package/lib/commonjs/mol-gl/webgl/vertex-array.js +9 -2
  237. package/lib/commonjs/mol-io/reader/cif/schema/bird.d.ts +2 -2
  238. package/lib/commonjs/mol-io/reader/cif/schema/bird.js +1 -1
  239. package/lib/commonjs/mol-io/reader/cif/schema/ccd.d.ts +3 -3
  240. package/lib/commonjs/mol-io/reader/cif/schema/ccd.js +1 -1
  241. package/lib/commonjs/mol-io/reader/cif/schema/cif-core.d.ts +8 -5
  242. package/lib/commonjs/mol-io/reader/cif/schema/cif-core.js +15 -5
  243. package/lib/commonjs/mol-io/reader/cif/schema/density-server.d.ts +3 -3
  244. package/lib/commonjs/mol-io/reader/cif/schema/mmcif-extras.d.ts +3 -3
  245. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.d.ts +341 -16
  246. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.js +326 -1
  247. package/lib/commonjs/mol-io/reader/mol/parser.d.ts +23 -1
  248. package/lib/commonjs/mol-io/reader/mol/parser.js +116 -4
  249. package/lib/commonjs/mol-io/reader/mol2/parser.d.ts +1 -1
  250. package/lib/commonjs/mol-io/reader/mol2/parser.js +33 -3
  251. package/lib/commonjs/mol-io/reader/mol2/schema.d.ts +12 -1
  252. package/lib/commonjs/mol-io/reader/mol2/schema.js +1 -1
  253. package/lib/commonjs/mol-io/reader/ply/schema.d.ts +1 -1
  254. package/lib/commonjs/mol-io/reader/sdf/parser-v3-util.d.ts +15 -0
  255. package/lib/commonjs/mol-io/reader/sdf/parser-v3-util.js +100 -0
  256. package/lib/commonjs/mol-io/reader/sdf/parser.d.ts +4 -2
  257. package/lib/commonjs/mol-io/reader/sdf/parser.js +23 -6
  258. package/lib/commonjs/mol-math/geometry/gaussian-density/gpu.js +2 -2
  259. package/lib/commonjs/mol-math/geometry/symmetry-operator.js +3 -2
  260. package/lib/commonjs/mol-math/linear-algebra/3d/quat.d.ts +9 -1
  261. package/lib/commonjs/mol-math/linear-algebra/3d/quat.js +20 -1
  262. package/lib/commonjs/mol-math/linear-algebra/3d/vec3.d.ts +6 -0
  263. package/lib/commonjs/mol-math/linear-algebra/3d/vec3.js +9 -0
  264. package/lib/commonjs/mol-model/loci.d.ts +30 -30
  265. package/lib/commonjs/mol-model/shape/shape.d.ts +1 -1
  266. package/lib/commonjs/mol-model/structure/model/model.d.ts +1 -0
  267. package/lib/commonjs/mol-model/structure/model/model.js +15 -5
  268. package/lib/commonjs/mol-model/structure/model/properties/atomic/hierarchy.d.ts +6 -1
  269. package/lib/commonjs/mol-model/structure/model/properties/atomic/hierarchy.js +1 -1
  270. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-derived.d.ts +1 -1
  271. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-derived.js +4 -1
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package/lib/mol-repr/structure/visual/util/gaussian.js.map DELETED
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package/lib/mol-repr/structure/visual/util/link.js.map DELETED
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package/lib/mol-repr/structure/visual/util/molecular-surface.js.map DELETED
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package/lib/mol-repr/structure/visual/util/nucleotide.js.map DELETED
@@ -1 +0,0 @@
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- {"version":3,"file":"nucleotide.js","sourceRoot":"","sources":["../../../../../src/mol-repr/structure/visual/util/nucleotide.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,IAAI,EAAE,gBAAgB,EAAE,SAAS,EAAE,MAAM,iCAAiC,CAAC;AACpF,OAAO,EAAQ,SAAS,EAAE,MAAM,4BAA4B,CAAC;AAE7D,OAAO,EAAE,gBAAgB,EAAE,MAAM,4CAA4C,CAAC;AAE9E,OAAO,EAAE,cAAc,EAAkB,MAAM,UAAU,CAAC;AAC1D,OAAO,EAAE,2BAA2B,EAAE,MAAM,WAAW,CAAC;AAExD,MAAM,KAAW,0BAA0B,CAgB1C;AAhBD,WAAiB,0BAA0B;IACvC,SAAgB,SAAS,CAAC,cAA8B;QAC5C,IAAA,KAAK,GAAgB,cAAc,MAA9B,EAAE,SAAS,GAAK,cAAc,UAAnB,CAAoB;QAC5C,IAAM,CAAC,GAAG,KAAK,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC;QACzB,IAAM,wBAAwB,GAAG,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,kBAAkB,CAAC,CAAC,CAAC,EAAE,CAAC;QAC9E,IAAM,UAAU,GAAG,wBAAwB,CAAC,MAAM,CAAC;QACnD,IAAM,aAAa,GAAG,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;QACzC,IAAM,QAAQ,GAAG,gBAAgB,CAAC,QAAQ,CAAC,MAAM,CAAC,SAAS,CAAC,CAAC;QAC7D,IAAM,WAAW,GAAG,UAAC,UAAkB,EAAE,aAAqB;YAC1D,IAAM,IAAI,GAAG,KAAK,CAAC,KAAK,CAAC,aAAa,CAAC,CAAC;YACxC,QAAQ,CAAC,IAAI,GAAG,IAAI,CAAC;YACrB,QAAQ,CAAC,OAAO,GAAG,wBAAwB,CAAC,UAAU,CAAC,CAAC;YACxD,OAAO,QAAQ,CAAC;QACpB,CAAC,CAAC;QACF,OAAO,gBAAgB,CAAC,UAAU,EAAE,aAAa,EAAE,CAAC,EAAE,WAAW,CAAC,CAAC;IACvE,CAAC;IAde,oCAAS,YAcxB,CAAA;AACL,CAAC,EAhBgB,0BAA0B,KAA1B,0BAA0B,QAgB1C;AAED,MAAM,UAAU,wBAAwB,CAAC,SAAoB,EAAE,cAA8B,EAAE,EAAU;IAC7F,IAAA,QAAQ,GAA0B,SAAS,SAAnC,EAAE,UAAU,GAAc,SAAS,WAAvB,EAAE,OAAO,GAAK,SAAS,QAAd,CAAe;IACpD,IAAI,EAAE,KAAK,QAAQ,EAAE;QACT,IAAA,SAAS,GAAY,cAAc,UAA1B,EAAE,KAAK,GAAK,cAAc,MAAnB,CAAoB;QAC5C,IAAM,IAAI,GAAG,KAAK,CAAC,KAAK,CAAC,UAAU,CAAC,CAAC;QACrC,IAAI,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE;YACrB,OAAO,cAAc,CAAC,SAAS,EAAE,IAAI,EAAE,IAAI,CAAC,kBAAkB,CAAC,OAAO,CAAC,CAAC,CAAC;SAC5E;KACJ;IACD,OAAO,SAAS,CAAC;AACrB,CAAC;AAED,SAAS,uBAAuB,CAAC,CAAc,IAAI,OAAO,CAAC,CAAC,kBAAkB,CAAC,CAAC,CAAC;AAEjF;;;GAGG;AACH,MAAM,UAAU,qBAAqB,CAAC,IAAU,EAAE,cAA8B,EAAE,KAAsC;IACpH,IAAI,OAAO,GAAG,KAAK,CAAC;IACpB,IAAI,CAAC,gBAAgB,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC;QAAE,OAAO,KAAK,CAAC;IAC1C,IAAA,SAAS,GAAY,cAAc,UAA1B,EAAE,KAAK,GAAK,cAAc,MAAnB,CAAoB;IAC5C,IAAI,CAAC,SAAS,CAAC,aAAa,CAAC,IAAI,CAAC,SAAS,EAAE,SAAS,CAAC;QAAE,OAAO,KAAK,CAAC;IACtE,IAAM,IAAI,GAAG,KAAK,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC;IAC5B,IAAI,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC;QAAE,OAAO,KAAK,CAAC;IAC/B,IAAA,kBAAkB,GAAK,IAAI,mBAAT,CAAU;IACpC,IAAM,UAAU,GAAG,kBAAkB,CAAC,MAAM,CAAC;IAC7C,KAAgB,UAAa,EAAb,KAAA,IAAI,CAAC,QAAQ,EAAb,cAAa,EAAb,IAAa,EAAE;QAA1B,IAAM,CAAC,SAAA;QACR,IAAI,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAI,CAAC;YAAE,SAAS;QACrC,IAAI,CAAC,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,EAAE,CAAC;YAAE,SAAS;QAEjD,IAAM,cAAc,GAAG,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC;QAEtE,IAAI,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAI,CAAC,EAAE;YACvB,OAAO,GAAG,2BAA2B,CAAC,cAAc,EAAE,UAAU,EAAE,uBAAuB,EAAE,KAAK,EAAE,CAAC,CAAC,IAAI,OAAO,CAAC;SACnH;KACJ;IACD,OAAO,OAAO,CAAC;AACnB,CAAC"}
package/lib/mol-repr/structure/visual/util/orientation.d.ts DELETED
@@ -1,17 +0,0 @@
1
- /**
2
- * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
- *
4
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
- */
6
- import { Unit, StructureElement } from '../../../../mol-model/structure';
7
- import { PickingId } from '../../../../mol-geo/geometry/picking';
8
- import { Interval } from '../../../../mol-data/int';
9
- import { Loci } from '../../../../mol-model/loci';
10
- import { LocationIterator } from '../../../../mol-geo/util/location-iterator';
11
- import { StructureGroup } from './common';
12
- export declare function isUnitApplicable(unit: Unit): boolean;
13
- export declare function UnitIterator(structureGroup: StructureGroup): LocationIterator;
14
- export declare function getUnitLoci(pickingId: PickingId, structureGroup: StructureGroup, id: number): StructureElement.Loci | {
15
- kind: "empty-loci";
16
- };
17
- export declare function eachUnit(loci: Loci, structureGroup: StructureGroup, apply: (interval: Interval) => boolean): boolean;
package/lib/mol-repr/structure/visual/util/orientation.js DELETED
@@ -1,71 +0,0 @@
1
- /**
2
- * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
- *
4
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
- */
6
- import { Unit, Structure, StructureElement } from '../../../../mol-model/structure';
7
- import { OrderedSet, Interval } from '../../../../mol-data/int';
8
- import { EmptyLoci } from '../../../../mol-model/loci';
9
- import { LocationIterator } from '../../../../mol-geo/util/location-iterator';
10
- export function isUnitApplicable(unit) {
11
- if (Unit.Traits.is(unit.traits, 1 /* MultiChain */))
12
- return false;
13
- if (Unit.Traits.is(unit.traits, 2 /* Partitioned */))
14
- return false;
15
- if (Unit.isCoarse(unit))
16
- return true;
17
- if (unit.elements.length === 0)
18
- return false;
19
- unit.model.atomicHierarchy.derived.residue.moleculeType;
20
- var rI = unit.residueIndex[unit.elements[0]];
21
- var mt = unit.model.atomicHierarchy.derived.residue.moleculeType[rI];
22
- if (mt === 3 /* Ion */)
23
- return false;
24
- if (mt === 2 /* Water */)
25
- return false;
26
- return true;
27
- }
28
- export function UnitIterator(structureGroup) {
29
- var group = structureGroup.group, structure = structureGroup.structure;
30
- var groupCount = 1;
31
- var instanceCount = group.units.length;
32
- var location = StructureElement.Location.create(structure);
33
- var getLocation = function (groupIndex, instanceIndex) {
34
- var unit = group.units[instanceIndex];
35
- location.unit = unit;
36
- location.element = unit.elements[groupIndex];
37
- return location;
38
- };
39
- return LocationIterator(groupCount, instanceCount, 1, getLocation);
40
- }
41
- export function getUnitLoci(pickingId, structureGroup, id) {
42
- var objectId = pickingId.objectId, instanceId = pickingId.instanceId;
43
- if (id === objectId) {
44
- var structure = structureGroup.structure, group = structureGroup.group;
45
- var unit = group.units[instanceId];
46
- var indices = OrderedSet.ofBounds(0, unit.elements.length);
47
- return StructureElement.Loci(structure, [{ unit: unit, indices: indices }]);
48
- }
49
- return EmptyLoci;
50
- }
51
- export function eachUnit(loci, structureGroup, apply) {
52
- var changed = false;
53
- if (!StructureElement.Loci.is(loci))
54
- return false;
55
- var structure = structureGroup.structure, group = structureGroup.group;
56
- if (!Structure.areEquivalent(loci.structure, structure))
57
- return false;
58
- var elementCount = group.elements.length;
59
- for (var _i = 0, _a = loci.elements; _i < _a.length; _i++) {
60
- var e = _a[_i];
61
- var unitIdx = group.unitIndexMap.get(e.unit.id);
62
- if (unitIdx !== undefined) {
63
- if (OrderedSet.size(e.indices) === elementCount) {
64
- if (apply(Interval.ofSingleton(unitIdx)))
65
- changed = true;
66
- }
67
- }
68
- }
69
- return changed;
70
- }
71
- //# sourceMappingURL=orientation.js.map
package/lib/mol-repr/structure/visual/util/orientation.js.map DELETED
@@ -1 +0,0 @@
1
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package/lib/mol-repr/structure/visual/util/polymer/backbone.js.map DELETED
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package/lib/mol-repr/structure/visual/util/polymer/curve-segment.js.map DELETED
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package/lib/mol-repr/structure/visual/util/polymer/gap-iterator.js.map DELETED
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package/lib/mol-repr/util.js.map DELETED
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package/lib/mol-repr/volume/direct-volume.js.map DELETED
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package/lib/mol-repr/volume/isosurface.js.map DELETED
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package/lib/mol-repr/volume/registry.js.map DELETED
@@ -1 +0,0 @@
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package/lib/mol-repr/volume/slice.js.map DELETED
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package/lib/mol-repr/volume/util.js.map DELETED
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