molstar 3.3.1 → 3.4.0

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 (777) hide show
  1. package/README.md +3 -0
  2. package/build/viewer/molstar.js +1 -1
  3. package/lib/apps/docking-viewer/viewport.js +1 -1
  4. package/lib/apps/viewer/app.d.ts +7 -6
  5. package/lib/apps/viewer/app.js +2 -0
  6. package/lib/cli/chem-comp-dict/create-saccharides.d.ts +7 -0
  7. package/lib/cli/chem-comp-dict/create-saccharides.js +67 -0
  8. package/lib/commonjs/apps/docking-viewer/index.js +12 -12
  9. package/lib/commonjs/apps/docking-viewer/viewport.js +33 -33
  10. package/lib/commonjs/apps/viewer/app.d.ts +7 -6
  11. package/lib/commonjs/apps/viewer/app.js +24 -22
  12. package/lib/commonjs/apps/viewer/index.js +1 -1
  13. package/lib/commonjs/cli/chem-comp-dict/create-ions.js +6 -6
  14. package/lib/commonjs/cli/chem-comp-dict/create-saccharides.d.ts +7 -0
  15. package/lib/commonjs/cli/chem-comp-dict/create-saccharides.js +69 -0
  16. package/lib/commonjs/cli/chem-comp-dict/create-table.js +8 -8
  17. package/lib/commonjs/cli/chem-comp-dict/util.js +17 -17
  18. package/lib/commonjs/cli/cif2bcif/converter.js +9 -9
  19. package/lib/commonjs/cli/cif2bcif/index.js +8 -8
  20. package/lib/commonjs/cli/cifschema/index.js +27 -27
  21. package/lib/commonjs/cli/cifschema/util/cif-dic.js +1 -1
  22. package/lib/commonjs/cli/lipid-params/index.js +9 -9
  23. package/lib/commonjs/cli/state-docs/index.js +2 -2
  24. package/lib/commonjs/cli/structure-info/helpers.js +11 -11
  25. package/lib/commonjs/cli/structure-info/model.js +15 -15
  26. package/lib/commonjs/cli/structure-info/volume.js +9 -9
  27. package/lib/commonjs/examples/alpha-orbitals/controls.js +3 -3
  28. package/lib/commonjs/examples/alpha-orbitals/index.js +11 -11
  29. package/lib/commonjs/examples/basic-wrapper/controls.js +2 -2
  30. package/lib/commonjs/examples/basic-wrapper/index.js +22 -22
  31. package/lib/commonjs/examples/basic-wrapper/superposition.js +8 -8
  32. package/lib/commonjs/examples/domain-annotation-server/mapping.js +3 -3
  33. package/lib/commonjs/examples/domain-annotation-server/server.js +6 -6
  34. package/lib/commonjs/examples/domain-annotation-server/test.js +3 -3
  35. package/lib/commonjs/examples/lighting/index.js +6 -6
  36. package/lib/commonjs/examples/proteopedia-wrapper/annotation.js +2 -2
  37. package/lib/commonjs/examples/proteopedia-wrapper/helpers.js +4 -4
  38. package/lib/commonjs/examples/proteopedia-wrapper/index.js +26 -26
  39. package/lib/commonjs/examples/proteopedia-wrapper/ui/controls.js +2 -2
  40. package/lib/commonjs/examples/task.js +15 -15
  41. package/lib/commonjs/extensions/alpha-orbitals/collocation.js +2 -2
  42. package/lib/commonjs/extensions/alpha-orbitals/data-model.js +1 -1
  43. package/lib/commonjs/extensions/alpha-orbitals/density.js +2 -2
  44. package/lib/commonjs/extensions/alpha-orbitals/gpu/compute.js +2 -2
  45. package/lib/commonjs/extensions/alpha-orbitals/orbitals.js +2 -2
  46. package/lib/commonjs/extensions/alpha-orbitals/transforms.js +13 -13
  47. package/lib/commonjs/extensions/anvil/algorithm.js +13 -13
  48. package/lib/commonjs/extensions/anvil/behavior.js +14 -14
  49. package/lib/commonjs/extensions/anvil/prop.js +7 -7
  50. package/lib/commonjs/extensions/anvil/representation.js +5 -5
  51. package/lib/commonjs/extensions/cellpack/index.js +1 -1
  52. package/lib/commonjs/extensions/cellpack/model.js +26 -24
  53. package/lib/commonjs/extensions/cellpack/preset.js +6 -6
  54. package/lib/commonjs/extensions/cellpack/property.js +3 -3
  55. package/lib/commonjs/extensions/cellpack/representation.js +2 -2
  56. package/lib/commonjs/extensions/cellpack/state.js +13 -13
  57. package/lib/commonjs/extensions/cellpack/util.js +14 -14
  58. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.js +7 -7
  59. package/lib/commonjs/extensions/dnatco/confal-pyramids/property.js +5 -5
  60. package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.js +2 -2
  61. package/lib/commonjs/extensions/dnatco/confal-pyramids/util.js +1 -1
  62. package/lib/commonjs/extensions/g3d/data.js +6 -6
  63. package/lib/commonjs/extensions/g3d/format.js +14 -14
  64. package/lib/commonjs/extensions/g3d/model.js +4 -4
  65. package/lib/commonjs/extensions/geo-export/controls.js +3 -3
  66. package/lib/commonjs/extensions/geo-export/glb-exporter.js +9 -9
  67. package/lib/commonjs/extensions/geo-export/index.js +1 -1
  68. package/lib/commonjs/extensions/geo-export/mesh-exporter.js +12 -12
  69. package/lib/commonjs/extensions/geo-export/obj-exporter.js +7 -7
  70. package/lib/commonjs/extensions/geo-export/stl-exporter.js +7 -7
  71. package/lib/commonjs/extensions/geo-export/ui.js +7 -7
  72. package/lib/commonjs/extensions/geo-export/usdz-exporter.js +9 -9
  73. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.js +9 -9
  74. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.js +4 -4
  75. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.js +4 -4
  76. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.js +5 -5
  77. package/lib/commonjs/extensions/model-export/export.js +4 -4
  78. package/lib/commonjs/extensions/model-export/index.js +1 -1
  79. package/lib/commonjs/extensions/model-export/ui.js +5 -5
  80. package/lib/commonjs/extensions/mp4-export/controls.js +5 -5
  81. package/lib/commonjs/extensions/mp4-export/encoder.js +4 -4
  82. package/lib/commonjs/extensions/mp4-export/index.js +1 -1
  83. package/lib/commonjs/extensions/mp4-export/ui.js +5 -5
  84. package/lib/commonjs/extensions/pdbe/preferred-assembly.js +2 -2
  85. package/lib/commonjs/extensions/pdbe/struct-ref-domain.js +2 -2
  86. package/lib/commonjs/extensions/pdbe/structure-quality-report/behavior.js +1 -1
  87. package/lib/commonjs/extensions/pdbe/structure-quality-report/prop.js +8 -8
  88. package/lib/commonjs/extensions/rcsb/assembly-symmetry/behavior.js +17 -17
  89. package/lib/commonjs/extensions/rcsb/assembly-symmetry/color.js +2 -2
  90. package/lib/commonjs/extensions/rcsb/assembly-symmetry/prop.js +9 -9
  91. package/lib/commonjs/extensions/rcsb/assembly-symmetry/representation.js +6 -6
  92. package/lib/commonjs/extensions/rcsb/assembly-symmetry/ui.js +9 -9
  93. package/lib/commonjs/extensions/rcsb/validation-report/behavior.js +17 -17
  94. package/lib/commonjs/extensions/rcsb/validation-report/prop.js +15 -15
  95. package/lib/commonjs/extensions/rcsb/validation-report/representation.js +3 -3
  96. package/lib/commonjs/extensions/zenodo/index.d.ts +7 -0
  97. package/lib/commonjs/extensions/zenodo/index.js +35 -0
  98. package/lib/commonjs/extensions/zenodo/ui.d.ts +61 -0
  99. package/lib/commonjs/extensions/zenodo/ui.js +306 -0
  100. package/lib/commonjs/mol-canvas3d/camera/stereo.js +1 -1
  101. package/lib/commonjs/mol-canvas3d/camera/util.js +1 -1
  102. package/lib/commonjs/mol-canvas3d/camera.js +2 -1
  103. package/lib/commonjs/mol-canvas3d/canvas3d.js +14 -14
  104. package/lib/commonjs/mol-canvas3d/controls/trackball.js +1 -1
  105. package/lib/commonjs/mol-canvas3d/helper/bounding-sphere-helper.js +1 -1
  106. package/lib/commonjs/mol-canvas3d/helper/camera-helper.js +5 -5
  107. package/lib/commonjs/mol-canvas3d/helper/handle-helper.js +5 -5
  108. package/lib/commonjs/mol-canvas3d/helper/helper.js +1 -1
  109. package/lib/commonjs/mol-canvas3d/helper/interaction-events.js +2 -2
  110. package/lib/commonjs/mol-canvas3d/passes/draw.js +3 -3
  111. package/lib/commonjs/mol-canvas3d/passes/fxaa.js +3 -3
  112. package/lib/commonjs/mol-canvas3d/passes/image.js +1 -1
  113. package/lib/commonjs/mol-canvas3d/passes/marking.js +6 -6
  114. package/lib/commonjs/mol-canvas3d/passes/multi-sample.js +3 -3
  115. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +12 -12
  116. package/lib/commonjs/mol-canvas3d/passes/smaa.js +9 -9
  117. package/lib/commonjs/mol-canvas3d/passes/wboit.js +3 -3
  118. package/lib/commonjs/mol-canvas3d/util.js +2 -2
  119. package/lib/commonjs/mol-data/db/column.js +2 -2
  120. package/lib/commonjs/mol-data/db/table.js +1 -1
  121. package/lib/commonjs/mol-data/db.js +1 -1
  122. package/lib/commonjs/mol-data/generic.js +3 -3
  123. package/lib/commonjs/mol-data/index.js +4 -4
  124. package/lib/commonjs/mol-data/int/interval.js +1 -1
  125. package/lib/commonjs/mol-data/int/ordered-set.js +1 -1
  126. package/lib/commonjs/mol-data/int/segmentation.js +1 -1
  127. package/lib/commonjs/mol-data/int/sorted-array.js +1 -1
  128. package/lib/commonjs/mol-data/util.js +7 -7
  129. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +3 -3
  130. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +3 -3
  131. package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.js +1 -1
  132. package/lib/commonjs/mol-geo/geometry/image/image.js +3 -3
  133. package/lib/commonjs/mol-geo/geometry/lines/lines.js +3 -3
  134. package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +3 -3
  135. package/lib/commonjs/mol-geo/geometry/points/points.js +3 -3
  136. package/lib/commonjs/mol-geo/geometry/size-data.js +1 -1
  137. package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +3 -3
  138. package/lib/commonjs/mol-geo/geometry/text/font-atlas.js +1 -1
  139. package/lib/commonjs/mol-geo/geometry/text/text-builder.js +3 -2
  140. package/lib/commonjs/mol-geo/geometry/text/text.js +3 -3
  141. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.js +4 -4
  142. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +3 -3
  143. package/lib/commonjs/mol-geo/primitive/circle.js +1 -1
  144. package/lib/commonjs/mol-geo/primitive/cylinder.js +1 -1
  145. package/lib/commonjs/mol-geo/primitive/polyhedron.js +1 -1
  146. package/lib/commonjs/mol-geo/primitive/prism.js +1 -1
  147. package/lib/commonjs/mol-geo/primitive/star.js +1 -1
  148. package/lib/commonjs/mol-geo/primitive/torus.js +1 -1
  149. package/lib/commonjs/mol-geo/util/marching-cubes/algorithm.js +9 -9
  150. package/lib/commonjs/mol-gl/compute/grid3d.js +5 -5
  151. package/lib/commonjs/mol-gl/compute/histogram-pyramid/reduction.js +3 -3
  152. package/lib/commonjs/mol-gl/compute/histogram-pyramid/sum.js +3 -3
  153. package/lib/commonjs/mol-gl/compute/marching-cubes/active-voxels.js +3 -3
  154. package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.js +3 -3
  155. package/lib/commonjs/mol-gl/compute/util.js +3 -3
  156. package/lib/commonjs/mol-gl/renderable/cylinders.js +3 -3
  157. package/lib/commonjs/mol-gl/renderable/direct-volume.js +3 -3
  158. package/lib/commonjs/mol-gl/renderable/image.js +3 -3
  159. package/lib/commonjs/mol-gl/renderable/lines.js +3 -3
  160. package/lib/commonjs/mol-gl/renderable/mesh.js +3 -3
  161. package/lib/commonjs/mol-gl/renderable/points.js +3 -3
  162. package/lib/commonjs/mol-gl/renderable/schema.js +1 -1
  163. package/lib/commonjs/mol-gl/renderable/spheres.js +3 -3
  164. package/lib/commonjs/mol-gl/renderable/text.js +3 -3
  165. package/lib/commonjs/mol-gl/renderable/texture-mesh.js +3 -3
  166. package/lib/commonjs/mol-gl/renderable/util.js +1 -1
  167. package/lib/commonjs/mol-gl/shader-code.js +2 -1
  168. package/lib/commonjs/mol-gl/webgl/buffer.js +4 -5
  169. package/lib/commonjs/mol-gl/webgl/context.js +3 -3
  170. package/lib/commonjs/mol-gl/webgl/render-item.js +1 -1
  171. package/lib/commonjs/mol-gl/webgl/resources.js +2 -2
  172. package/lib/commonjs/mol-io/common/binary-cif/classifier.js +7 -6
  173. package/lib/commonjs/mol-io/common/binary-cif/decoder.js +4 -3
  174. package/lib/commonjs/mol-io/common/binary-cif.js +3 -3
  175. package/lib/commonjs/mol-io/common/io-buffer.d.ts +206 -0
  176. package/lib/commonjs/mol-io/common/io-buffer.js +408 -0
  177. package/lib/commonjs/mol-io/common/netcdf/reader.d.ts +78 -0
  178. package/lib/commonjs/mol-io/common/netcdf/reader.js +459 -0
  179. package/lib/commonjs/mol-io/common/typed-array.js +2 -2
  180. package/lib/commonjs/mol-io/reader/ccp4/parser.js +8 -8
  181. package/lib/commonjs/mol-io/reader/cif/binary/parser.js +3 -3
  182. package/lib/commonjs/mol-io/reader/cif/data-model.js +1 -1
  183. package/lib/commonjs/mol-io/reader/cif/schema/mmcif-extras.js +2 -2
  184. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.d.ts +1 -1
  185. package/lib/commonjs/mol-io/reader/cif/schema.js +2 -2
  186. package/lib/commonjs/mol-io/reader/cif/text/parser.js +7 -7
  187. package/lib/commonjs/mol-io/reader/cif.js +1 -1
  188. package/lib/commonjs/mol-io/reader/common/text/tokenizer.js +4 -4
  189. package/lib/commonjs/mol-io/reader/csv/data-model.js +1 -1
  190. package/lib/commonjs/mol-io/reader/csv/parser.js +7 -7
  191. package/lib/commonjs/mol-io/reader/cube/parser.js +2 -2
  192. package/lib/commonjs/mol-io/reader/dcd/parser.js +2 -2
  193. package/lib/commonjs/mol-io/reader/dsn6/parser.js +8 -8
  194. package/lib/commonjs/mol-io/reader/dx/parser.js +4 -4
  195. package/lib/commonjs/mol-io/reader/gro/parser.js +6 -6
  196. package/lib/commonjs/mol-io/reader/mol/parser.js +2 -2
  197. package/lib/commonjs/mol-io/reader/mol2/parser.js +8 -8
  198. package/lib/commonjs/mol-io/reader/nctraj/parser.d.ts +18 -0
  199. package/lib/commonjs/mol-io/reader/nctraj/parser.js +101 -0
  200. package/lib/commonjs/mol-io/reader/obj/parser.js +4 -4
  201. package/lib/commonjs/mol-io/reader/pdb/parser.js +2 -2
  202. package/lib/commonjs/mol-io/reader/ply/parser.js +4 -4
  203. package/lib/commonjs/mol-io/reader/prmtop/parser.d.ts +58 -0
  204. package/lib/commonjs/mol-io/reader/prmtop/parser.js +172 -0
  205. package/lib/commonjs/mol-io/reader/psf/parser.js +8 -8
  206. package/lib/commonjs/mol-io/reader/sdf/parser.js +2 -2
  207. package/lib/commonjs/mol-io/reader/top/parser.d.ts +37 -0
  208. package/lib/commonjs/mol-io/reader/top/parser.js +303 -0
  209. package/lib/commonjs/mol-io/reader/trr/parser.d.ts +22 -0
  210. package/lib/commonjs/mol-io/reader/trr/parser.js +146 -0
  211. package/lib/commonjs/mol-io/reader/xtc/parser.js +4 -4
  212. package/lib/commonjs/mol-io/reader/xyz/parser.js +2 -2
  213. package/lib/commonjs/mol-io/writer/cif/encoder.js +3 -2
  214. package/lib/commonjs/mol-io/writer/cif.js +1 -1
  215. package/lib/commonjs/mol-io/writer/ligand-encoder.js +1 -1
  216. package/lib/commonjs/mol-io/writer/mol/encoder.js +1 -1
  217. package/lib/commonjs/mol-io/writer/mol2/encoder.js +1 -1
  218. package/lib/commonjs/mol-math/geometry/boundary-helper.js +5 -5
  219. package/lib/commonjs/mol-math/geometry/gaussian-density/cpu.js +4 -4
  220. package/lib/commonjs/mol-math/geometry/gaussian-density/gpu.js +1 -1
  221. package/lib/commonjs/mol-math/geometry/gaussian-density.js +4 -4
  222. package/lib/commonjs/mol-math/geometry/molecular-surface.js +8 -8
  223. package/lib/commonjs/mol-math/geometry/primitives/sphere3d.js +1 -1
  224. package/lib/commonjs/mol-math/geometry.js +8 -8
  225. package/lib/commonjs/mol-math/graph/inter-unit-graph.js +1 -1
  226. package/lib/commonjs/mol-math/graph.js +1 -1
  227. package/lib/commonjs/mol-math/linear-algebra.js +2 -2
  228. package/lib/commonjs/mol-model/sequence/alignment/alignment.js +1 -1
  229. package/lib/commonjs/mol-model/sequence/sequence.js +2 -1
  230. package/lib/commonjs/mol-model/sequence.js +1 -1
  231. package/lib/commonjs/mol-model/shape.js +1 -1
  232. package/lib/commonjs/mol-model/structure/coordinates.js +1 -1
  233. package/lib/commonjs/mol-model/structure/export/categories/secondary-structure.js +2 -2
  234. package/lib/commonjs/mol-model/structure/model/model.js +3 -3
  235. package/lib/commonjs/mol-model/structure/model/properties/atomic.js +3 -3
  236. package/lib/commonjs/mol-model/structure/model/properties/coarse.js +2 -2
  237. package/lib/commonjs/mol-model/structure/model/types/saccharides.d.ts +8 -0
  238. package/lib/commonjs/mol-model/structure/model/types/saccharides.js +11 -0
  239. package/lib/commonjs/mol-model/structure/model.js +3 -3
  240. package/lib/commonjs/mol-model/structure/query/queries/generators.js +2 -2
  241. package/lib/commonjs/mol-model/structure/query/queries/modifiers.js +2 -2
  242. package/lib/commonjs/mol-model/structure/query.js +6 -6
  243. package/lib/commonjs/mol-model/structure/structure/carbohydrates/compute.js +1 -1
  244. package/lib/commonjs/mol-model/structure/structure/carbohydrates/constants.d.ts +1 -1
  245. package/lib/commonjs/mol-model/structure/structure/carbohydrates/constants.js +6 -9
  246. package/lib/commonjs/mol-model/structure/structure/element/element.js +5 -5
  247. package/lib/commonjs/mol-model/structure/structure/element.js +1 -1
  248. package/lib/commonjs/mol-model/structure/structure/structure.js +5 -5
  249. package/lib/commonjs/mol-model/structure/structure/symmetry.js +10 -10
  250. package/lib/commonjs/mol-model/structure/structure/unit/bonds/data.js +2 -2
  251. package/lib/commonjs/mol-model/structure/structure/unit/bonds/inter-compute.js +3 -3
  252. package/lib/commonjs/mol-model/structure/structure/unit/bonds/intra-compute.js +1 -1
  253. package/lib/commonjs/mol-model/structure/structure/unit/bonds.js +3 -3
  254. package/lib/commonjs/mol-model/structure/structure/unit.js +4 -4
  255. package/lib/commonjs/mol-model/structure/structure/util/superposition.js +1 -1
  256. package/lib/commonjs/mol-model/structure/structure.js +2 -2
  257. package/lib/commonjs/mol-model/structure/topology.js +1 -1
  258. package/lib/commonjs/mol-model/structure.js +6 -6
  259. package/lib/commonjs/mol-model/volume.js +2 -2
  260. package/lib/commonjs/mol-model-formats/shape/ply.js +7 -7
  261. package/lib/commonjs/mol-model-formats/structure/basic/atomic.d.ts +1 -1
  262. package/lib/commonjs/mol-model-formats/structure/basic/atomic.js +2 -15
  263. package/lib/commonjs/mol-model-formats/structure/basic/coarse.js +3 -3
  264. package/lib/commonjs/mol-model-formats/structure/basic/entities.js +1 -1
  265. package/lib/commonjs/mol-model-formats/structure/basic/parser.d.ts +1 -1
  266. package/lib/commonjs/mol-model-formats/structure/basic/parser.js +10 -10
  267. package/lib/commonjs/mol-model-formats/structure/basic/schema.d.ts +2 -2
  268. package/lib/commonjs/mol-model-formats/structure/basic/schema.js +7 -2
  269. package/lib/commonjs/mol-model-formats/structure/basic/sort.js +2 -2
  270. package/lib/commonjs/mol-model-formats/structure/basic/util.d.ts +33 -2
  271. package/lib/commonjs/mol-model-formats/structure/basic/util.js +26 -2
  272. package/lib/commonjs/mol-model-formats/structure/cif-core.js +6 -6
  273. package/lib/commonjs/mol-model-formats/structure/common/component.js +5 -1
  274. package/lib/commonjs/mol-model-formats/structure/cube.js +5 -5
  275. package/lib/commonjs/mol-model-formats/structure/dcd.js +2 -2
  276. package/lib/commonjs/mol-model-formats/structure/gro.js +5 -3
  277. package/lib/commonjs/mol-model-formats/structure/mmcif.d.ts +1 -1
  278. package/lib/commonjs/mol-model-formats/structure/mmcif.js +4 -2
  279. package/lib/commonjs/mol-model-formats/structure/mol.js +5 -5
  280. package/lib/commonjs/mol-model-formats/structure/mol2.js +6 -6
  281. package/lib/commonjs/mol-model-formats/structure/nctraj.d.ts +9 -0
  282. package/lib/commonjs/mol-model-formats/structure/nctraj.js +60 -0
  283. package/lib/commonjs/mol-model-formats/structure/pdb/to-cif.js +2 -2
  284. package/lib/commonjs/mol-model-formats/structure/pdb.d.ts +1 -1
  285. package/lib/commonjs/mol-model-formats/structure/pdb.js +7 -5
  286. package/lib/commonjs/mol-model-formats/structure/prmtop.d.ts +16 -0
  287. package/lib/commonjs/mol-model-formats/structure/prmtop.js +147 -0
  288. package/lib/commonjs/mol-model-formats/structure/property/bonds/index-pair.js +1 -1
  289. package/lib/commonjs/mol-model-formats/structure/property/symmetry.js +11 -1
  290. package/lib/commonjs/mol-model-formats/structure/psf.js +5 -3
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  572. package/lib/commonjs/mol-util/make-dir.js +1 -1
  573. package/lib/commonjs/mol-util/material.js +2 -2
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  579. package/lib/commonjs/mol-util/zip/deflate.js +4 -3
  580. package/lib/commonjs/mol-util/zip/inflate.js +2 -2
  581. package/lib/commonjs/mol-util/zip/zip.d.ts +7 -1
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  583. package/lib/commonjs/servers/common/file-handle.js +1 -1
  584. package/lib/commonjs/servers/common/swagger-ui/index.js +1 -1
  585. package/lib/commonjs/servers/model/config.d.ts +2 -2
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  592. package/lib/commonjs/servers/model/properties/providers/pdbe.js +8 -8
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  603. package/lib/commonjs/servers/model/utils/fetch-props-pdbe.js +6 -6
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  605. package/lib/commonjs/servers/model/utils/writer.js +3 -3
  606. package/lib/commonjs/servers/plugin-state/config.js +1 -1
  607. package/lib/commonjs/servers/plugin-state/index.js +6 -6
  608. package/lib/commonjs/servers/volume/common/binary-schema.js +1 -1
  609. package/lib/commonjs/servers/volume/common/data-format.js +3 -3
  610. package/lib/commonjs/servers/volume/common/file.js +8 -8
  611. package/lib/commonjs/servers/volume/config.js +6 -6
  612. package/lib/commonjs/servers/volume/pack/format/ccp4.js +4 -4
  613. package/lib/commonjs/servers/volume/pack/format/dsn6.js +4 -4
  614. package/lib/commonjs/servers/volume/pack/format.js +3 -3
  615. package/lib/commonjs/servers/volume/pack/main.js +13 -13
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  617. package/lib/commonjs/servers/volume/pack/writer.js +2 -2
  618. package/lib/commonjs/servers/volume/pack.js +1 -1
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  621. package/lib/commonjs/servers/volume/server/api.js +8 -8
  622. package/lib/commonjs/servers/volume/server/local-api.js +8 -8
  623. package/lib/commonjs/servers/volume/server/query/compose.js +8 -8
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  625. package/lib/commonjs/servers/volume/server/query/identify.js +2 -2
  626. package/lib/commonjs/servers/volume/server/web-api.js +7 -7
  627. package/lib/commonjs/servers/volume/server.js +2 -2
  628. package/lib/examples/alpha-orbitals/controls.js +2 -2
  629. package/lib/examples/basic-wrapper/controls.js +1 -1
  630. package/lib/examples/proteopedia-wrapper/ui/controls.js +1 -1
  631. package/lib/extensions/cellpack/model.js +4 -2
  632. package/lib/extensions/cellpack/state.js +2 -2
  633. package/lib/extensions/geo-export/ui.js +2 -2
  634. package/lib/extensions/model-export/ui.js +2 -2
  635. package/lib/extensions/mp4-export/ui.js +2 -2
  636. package/lib/extensions/rcsb/assembly-symmetry/ui.js +3 -3
  637. package/lib/extensions/zenodo/index.d.ts +7 -0
  638. package/lib/extensions/zenodo/index.js +32 -0
  639. package/lib/extensions/zenodo/ui.d.ts +61 -0
  640. package/lib/extensions/zenodo/ui.js +303 -0
  641. package/lib/mol-canvas3d/camera.js +2 -1
  642. package/lib/mol-canvas3d/helper/camera-helper.js +1 -1
  643. package/lib/mol-canvas3d/helper/handle-helper.js +1 -1
  644. package/lib/mol-canvas3d/helper/interaction-events.js +1 -1
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  647. package/lib/mol-gl/webgl/buffer.js +2 -3
  648. package/lib/mol-io/common/binary-cif/classifier.js +3 -2
  649. package/lib/mol-io/common/binary-cif/decoder.js +4 -3
  650. package/lib/mol-io/common/io-buffer.d.ts +206 -0
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  652. package/lib/mol-io/common/netcdf/reader.d.ts +78 -0
  653. package/lib/mol-io/common/netcdf/reader.js +456 -0
  654. package/lib/mol-io/reader/cif/schema/mmcif.d.ts +1 -1
  655. package/lib/mol-io/reader/nctraj/parser.d.ts +18 -0
  656. package/lib/mol-io/reader/nctraj/parser.js +97 -0
  657. package/lib/mol-io/reader/prmtop/parser.d.ts +58 -0
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  662. package/lib/mol-io/reader/trr/parser.js +142 -0
  663. package/lib/mol-io/writer/cif/encoder.js +2 -1
  664. package/lib/mol-model/sequence/sequence.js +2 -1
  665. package/lib/mol-model/structure/model/types/saccharides.d.ts +8 -0
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  667. package/lib/mol-model/structure/structure/carbohydrates/constants.d.ts +1 -1
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  669. package/lib/mol-model-formats/structure/basic/atomic.d.ts +1 -1
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  671. package/lib/mol-model-formats/structure/basic/parser.d.ts +1 -1
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  673. package/lib/mol-model-formats/structure/basic/schema.d.ts +2 -2
  674. package/lib/mol-model-formats/structure/basic/schema.js +7 -2
  675. package/lib/mol-model-formats/structure/basic/util.d.ts +33 -2
  676. package/lib/mol-model-formats/structure/basic/util.js +24 -1
  677. package/lib/mol-model-formats/structure/cif-core.js +4 -4
  678. package/lib/mol-model-formats/structure/common/component.js +5 -1
  679. package/lib/mol-model-formats/structure/cube.js +3 -3
  680. package/lib/mol-model-formats/structure/gro.js +3 -1
  681. package/lib/mol-model-formats/structure/mmcif.d.ts +1 -1
  682. package/lib/mol-model-formats/structure/mmcif.js +4 -2
  683. package/lib/mol-model-formats/structure/mol.js +3 -3
  684. package/lib/mol-model-formats/structure/mol2.js +4 -4
  685. package/lib/mol-model-formats/structure/nctraj.d.ts +9 -0
  686. package/lib/mol-model-formats/structure/nctraj.js +56 -0
  687. package/lib/mol-model-formats/structure/pdb.d.ts +1 -1
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  689. package/lib/mol-model-formats/structure/prmtop.d.ts +16 -0
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  691. package/lib/mol-model-formats/structure/property/symmetry.js +11 -1
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  693. package/lib/mol-model-formats/structure/top.d.ts +16 -0
  694. package/lib/mol-model-formats/structure/top.js +186 -0
  695. package/lib/mol-model-formats/structure/trr.d.ts +9 -0
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  699. package/lib/mol-model-formats/structure/xyz.js +2 -2
  700. package/lib/mol-plugin/context.d.ts +2 -1
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  710. package/lib/mol-plugin-state/formats/coordinates.js +67 -0
  711. package/lib/mol-plugin-state/formats/registry.d.ts +3 -3
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  714. package/lib/mol-plugin-state/formats/topology.js +84 -0
  715. package/lib/mol-plugin-state/helpers/structure-component.js +2 -1
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  717. package/lib/mol-plugin-state/objects.d.ts +47 -1
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  724. package/lib/mol-plugin-ui/controls/action-menu.js +7 -7
  725. package/lib/mol-plugin-ui/controls/color.js +3 -3
  726. package/lib/mol-plugin-ui/controls/common.js +10 -10
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  730. package/lib/mol-plugin-ui/controls/parameters.js +51 -51
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  732. package/lib/mol-plugin-ui/controls/slider.js +5 -5
  733. package/lib/mol-plugin-ui/controls.js +7 -7
  734. package/lib/mol-plugin-ui/custom/volume.js +4 -4
  735. package/lib/mol-plugin-ui/left-panel.d.ts +8 -1
  736. package/lib/mol-plugin-ui/left-panel.js +33 -12
  737. package/lib/mol-plugin-ui/plugin.js +10 -10
  738. package/lib/mol-plugin-ui/sequence/sequence.js +1 -1
  739. package/lib/mol-plugin-ui/sequence.js +5 -5
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  742. package/lib/mol-plugin-ui/state/common.js +7 -7
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  745. package/lib/mol-plugin-ui/state/update-transform.js +1 -1
  746. package/lib/mol-plugin-ui/structure/components.js +10 -10
  747. package/lib/mol-plugin-ui/structure/focus.js +1 -1
  748. package/lib/mol-plugin-ui/structure/generic.js +4 -4
  749. package/lib/mol-plugin-ui/structure/measurements.js +8 -8
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  751. package/lib/mol-plugin-ui/structure/selection.js +7 -7
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  753. package/lib/mol-plugin-ui/structure/superposition.js +8 -8
  754. package/lib/mol-plugin-ui/structure/volume.js +4 -4
  755. package/lib/mol-plugin-ui/task.js +5 -5
  756. package/lib/mol-plugin-ui/toast.js +4 -4
  757. package/lib/mol-plugin-ui/viewport/canvas.js +3 -3
  758. package/lib/mol-plugin-ui/viewport/help.js +8 -8
  759. package/lib/mol-plugin-ui/viewport/screenshot.js +3 -3
  760. package/lib/mol-plugin-ui/viewport/simple-settings.js +1 -1
  761. package/lib/mol-plugin-ui/viewport.js +4 -4
  762. package/lib/mol-script/language/parser.js +7 -4
  763. package/lib/mol-task/util/scheduler.d.ts +2 -2
  764. package/lib/mol-task/util/scheduler.js +7 -7
  765. package/lib/mol-theme/color/hydrophobicity.js +2 -2
  766. package/lib/mol-util/data-source.js +2 -1
  767. package/lib/mol-util/file-info.d.ts +1 -3
  768. package/lib/mol-util/file-info.js +2 -10
  769. package/lib/mol-util/index.d.ts +1 -0
  770. package/lib/mol-util/index.js +5 -0
  771. package/lib/mol-util/zip/deflate.js +2 -1
  772. package/lib/mol-util/zip/zip.d.ts +7 -1
  773. package/lib/mol-util/zip/zip.js +5 -1
  774. package/lib/servers/model/config.d.ts +2 -2
  775. package/package.json +16 -16
  776. package/lib/commonjs/mol-plugin-state/formats/structure.js +0 -64
  777. package/lib/mol-plugin-state/formats/structure.js +0 -61
@@ -91,7 +91,7 @@ var Spheres;
91
91
  mol_util_1.ValueCell.update(spheres.groupBuffer, groups);
92
92
  return spheres;
93
93
  }
94
- Spheres.Params = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, base_1.BaseGeometry.Params), { sizeFactor: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 10, step: 0.1 }), doubleSided: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.CustomQualityParamInfo), ignoreLight: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), xrayShaded: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), bumpFrequency: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }, base_1.BaseGeometry.ShadingCategory), bumpAmplitude: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 5, step: 0.1 }, base_1.BaseGeometry.ShadingCategory) });
94
+ Spheres.Params = tslib_1.__assign(tslib_1.__assign({}, base_1.BaseGeometry.Params), { sizeFactor: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 10, step: 0.1 }), doubleSided: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.CustomQualityParamInfo), ignoreLight: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), xrayShaded: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), bumpFrequency: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }, base_1.BaseGeometry.ShadingCategory), bumpAmplitude: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 5, step: 0.1 }, base_1.BaseGeometry.ShadingCategory) });
95
95
  Spheres.Utils = {
96
96
  Params: Spheres.Params,
97
97
  createEmpty: createEmpty,
@@ -135,11 +135,11 @@ var Spheres;
135
135
  var padding = spheres.boundingSphere.radius ? (0, size_data_1.getMaxSize)(size) * props.sizeFactor : 0;
136
136
  var invariantBoundingSphere = geometry_1.Sphere3D.expand((0, geometry_1.Sphere3D)(), spheres.boundingSphere, padding);
137
137
  var boundingSphere = (0, util_1.calculateTransformBoundingSphere)(invariantBoundingSphere, transform.aTransform.ref.value, instanceCount);
138
- return (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({ dGeometryType: mol_util_1.ValueCell.create('spheres'), aPosition: spheres.centerBuffer, aMapping: spheres.mappingBuffer, aGroup: spheres.groupBuffer, elements: spheres.indexBuffer, boundingSphere: mol_util_1.ValueCell.create(boundingSphere), invariantBoundingSphere: mol_util_1.ValueCell.create(invariantBoundingSphere), uInvariantBoundingSphere: mol_util_1.ValueCell.create(linear_algebra_1.Vec4.ofSphere(invariantBoundingSphere)) }, color), size), marker), overpaint), transparency), material), clipping), transform), { padding: mol_util_1.ValueCell.create(padding) }), base_1.BaseGeometry.createValues(props, counts)), { uSizeFactor: mol_util_1.ValueCell.create(props.sizeFactor), uDoubleSided: mol_util_1.ValueCell.create(props.doubleSided), dIgnoreLight: mol_util_1.ValueCell.create(props.ignoreLight), dXrayShaded: mol_util_1.ValueCell.create(props.xrayShaded), uBumpFrequency: mol_util_1.ValueCell.create(props.bumpFrequency), uBumpAmplitude: mol_util_1.ValueCell.create(props.bumpAmplitude) });
138
+ return tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({ dGeometryType: mol_util_1.ValueCell.create('spheres'), aPosition: spheres.centerBuffer, aMapping: spheres.mappingBuffer, aGroup: spheres.groupBuffer, elements: spheres.indexBuffer, boundingSphere: mol_util_1.ValueCell.create(boundingSphere), invariantBoundingSphere: mol_util_1.ValueCell.create(invariantBoundingSphere), uInvariantBoundingSphere: mol_util_1.ValueCell.create(linear_algebra_1.Vec4.ofSphere(invariantBoundingSphere)) }, color), size), marker), overpaint), transparency), material), clipping), transform), { padding: mol_util_1.ValueCell.create(padding) }), base_1.BaseGeometry.createValues(props, counts)), { uSizeFactor: mol_util_1.ValueCell.create(props.sizeFactor), uDoubleSided: mol_util_1.ValueCell.create(props.doubleSided), dIgnoreLight: mol_util_1.ValueCell.create(props.ignoreLight), dXrayShaded: mol_util_1.ValueCell.create(props.xrayShaded), uBumpFrequency: mol_util_1.ValueCell.create(props.bumpFrequency), uBumpAmplitude: mol_util_1.ValueCell.create(props.bumpAmplitude) });
139
139
  }
140
140
  function createValuesSimple(spheres, props, colorValue, sizeValue, transform) {
141
141
  var s = base_1.BaseGeometry.createSimple(colorValue, sizeValue, transform);
142
- var p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(Spheres.Params)), props);
142
+ var p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(Spheres.Params)), props);
143
143
  return createValues(spheres, s.transform, s.locationIterator, s.theme, p);
144
144
  }
145
145
  function updateValues(values, props) {
@@ -35,7 +35,7 @@ var FontAtlas = /** @class */ (function () {
35
35
  this.currentX = 0;
36
36
  this.currentY = 0;
37
37
  this.cutoff = 0.5;
38
- var p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(exports.FontAtlasParams)), props);
38
+ var p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(exports.FontAtlasParams)), props);
39
39
  this.props = p;
40
40
  // create measurements
41
41
  var fontSize = 32 * (p.fontQuality + 1);
@@ -11,6 +11,7 @@ var param_definition_1 = require("../../../mol-util/param-definition");
11
11
  var util_1 = require("../../../mol-data/util");
12
12
  var text_1 = require("./text");
13
13
  var font_atlas_1 = require("./font-atlas");
14
+ var type_helpers_1 = require("../../../mol-util/type-helpers");
14
15
  var quadIndices = new Uint16Array([
15
16
  0, 1, 2,
16
17
  1, 3, 2
@@ -33,7 +34,7 @@ var TextBuilder;
33
34
  var indices = util_1.ChunkedArray.create(Uint32Array, 3, chunkSize, text ? text.indexBuffer.ref.value : initialCount);
34
35
  var groups = util_1.ChunkedArray.create(Float32Array, 1, chunkSize, text ? text.groupBuffer.ref.value : initialCount);
35
36
  var tcoords = util_1.ChunkedArray.create(Float32Array, 2, chunkSize, text ? text.tcoordBuffer.ref.value : initialCount);
36
- var p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(text_1.Text.Params)), props);
37
+ var p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(text_1.Text.Params)), props);
37
38
  var attachment = p.attachment, background = p.background, backgroundMargin = p.backgroundMargin, tether = p.tether, tetherLength = p.tetherLength, tetherBaseWidth = p.tetherBaseWidth;
38
39
  var fontAtlas = (0, font_atlas_1.getFontAtlas)(p);
39
40
  var margin = (1 / 2.5) * backgroundMargin;
@@ -226,7 +227,7 @@ var TextBuilder;
226
227
  yBaseCenter = yTop;
227
228
  break;
228
229
  default:
229
- throw new Error('unsupported attachment');
230
+ (0, type_helpers_1.assertUnreachable)(attachment);
230
231
  }
231
232
  caAdd2(mappings, xTip, yTip); // tip
232
233
  caAdd2(mappings, xBaseA, yBaseA); // base A
@@ -103,7 +103,7 @@ var Text;
103
103
  mol_util_1.ValueCell.update(text.tcoordBuffer, tcoords);
104
104
  return text;
105
105
  }
106
- Text.Params = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, base_1.BaseGeometry.Params), font_atlas_1.FontAtlasParams), { sizeFactor: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 10, step: 0.1 }), borderWidth: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 0.5, step: 0.01 }), borderColor: param_definition_1.ParamDefinition.Color(names_1.ColorNames.grey), offsetX: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }), offsetY: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }), offsetZ: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }), background: param_definition_1.ParamDefinition.Boolean(false), backgroundMargin: param_definition_1.ParamDefinition.Numeric(0.2, { min: 0, max: 1, step: 0.01 }), backgroundColor: param_definition_1.ParamDefinition.Color(names_1.ColorNames.grey), backgroundOpacity: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 1, step: 0.01 }), tether: param_definition_1.ParamDefinition.Boolean(false), tetherLength: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 5, step: 0.1 }), tetherBaseWidth: param_definition_1.ParamDefinition.Numeric(0.3, { min: 0, max: 1, step: 0.01 }), attachment: param_definition_1.ParamDefinition.Select('middle-center', [
106
+ Text.Params = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, base_1.BaseGeometry.Params), font_atlas_1.FontAtlasParams), { sizeFactor: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 10, step: 0.1 }), borderWidth: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 0.5, step: 0.01 }), borderColor: param_definition_1.ParamDefinition.Color(names_1.ColorNames.grey), offsetX: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }), offsetY: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }), offsetZ: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }), background: param_definition_1.ParamDefinition.Boolean(false), backgroundMargin: param_definition_1.ParamDefinition.Numeric(0.2, { min: 0, max: 1, step: 0.01 }), backgroundColor: param_definition_1.ParamDefinition.Color(names_1.ColorNames.grey), backgroundOpacity: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 1, step: 0.01 }), tether: param_definition_1.ParamDefinition.Boolean(false), tetherLength: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 5, step: 0.1 }), tetherBaseWidth: param_definition_1.ParamDefinition.Numeric(0.3, { min: 0, max: 1, step: 0.01 }), attachment: param_definition_1.ParamDefinition.Select('middle-center', [
107
107
  ['bottom-left', 'bottom-left'], ['bottom-center', 'bottom-center'], ['bottom-right', 'bottom-right'],
108
108
  ['middle-left', 'middle-left'], ['middle-center', 'middle-center'], ['middle-right', 'middle-right'],
109
109
  ['top-left', 'top-left'], ['top-center', 'top-center'], ['top-right', 'top-right'],
@@ -151,11 +151,11 @@ var Text;
151
151
  var padding = getPadding(text.mappingBuffer.ref.value, text.depthBuffer.ref.value, text.charCount, (0, size_data_1.getMaxSize)(size));
152
152
  var invariantBoundingSphere = geometry_1.Sphere3D.expand((0, geometry_1.Sphere3D)(), text.boundingSphere, padding);
153
153
  var boundingSphere = (0, util_1.calculateTransformBoundingSphere)(invariantBoundingSphere, transform.aTransform.ref.value, instanceCount);
154
- return (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({ dGeometryType: mol_util_1.ValueCell.create('text'), aPosition: text.centerBuffer, aMapping: text.mappingBuffer, aDepth: text.depthBuffer, aGroup: text.groupBuffer, elements: text.indexBuffer, boundingSphere: mol_util_1.ValueCell.create(boundingSphere), invariantBoundingSphere: mol_util_1.ValueCell.create(invariantBoundingSphere), uInvariantBoundingSphere: mol_util_1.ValueCell.create(linear_algebra_1.Vec4.ofSphere(invariantBoundingSphere)) }, color), size), marker), overpaint), transparency), substance), clipping), transform), { aTexCoord: text.tcoordBuffer, tFont: text.fontTexture, padding: mol_util_1.ValueCell.create(padding) }), base_1.BaseGeometry.createValues(props, counts)), { uSizeFactor: mol_util_1.ValueCell.create(props.sizeFactor), uBorderWidth: mol_util_1.ValueCell.create((0, interpolate_1.clamp)(props.borderWidth, 0, 0.5)), uBorderColor: mol_util_1.ValueCell.create(color_1.Color.toArrayNormalized(props.borderColor, linear_algebra_1.Vec3.zero(), 0)), uOffsetX: mol_util_1.ValueCell.create(props.offsetX), uOffsetY: mol_util_1.ValueCell.create(props.offsetY), uOffsetZ: mol_util_1.ValueCell.create(props.offsetZ), uBackgroundColor: mol_util_1.ValueCell.create(color_1.Color.toArrayNormalized(props.backgroundColor, linear_algebra_1.Vec3.zero(), 0)), uBackgroundOpacity: mol_util_1.ValueCell.create(props.backgroundOpacity) });
154
+ return tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({ dGeometryType: mol_util_1.ValueCell.create('text'), aPosition: text.centerBuffer, aMapping: text.mappingBuffer, aDepth: text.depthBuffer, aGroup: text.groupBuffer, elements: text.indexBuffer, boundingSphere: mol_util_1.ValueCell.create(boundingSphere), invariantBoundingSphere: mol_util_1.ValueCell.create(invariantBoundingSphere), uInvariantBoundingSphere: mol_util_1.ValueCell.create(linear_algebra_1.Vec4.ofSphere(invariantBoundingSphere)) }, color), size), marker), overpaint), transparency), substance), clipping), transform), { aTexCoord: text.tcoordBuffer, tFont: text.fontTexture, padding: mol_util_1.ValueCell.create(padding) }), base_1.BaseGeometry.createValues(props, counts)), { uSizeFactor: mol_util_1.ValueCell.create(props.sizeFactor), uBorderWidth: mol_util_1.ValueCell.create((0, interpolate_1.clamp)(props.borderWidth, 0, 0.5)), uBorderColor: mol_util_1.ValueCell.create(color_1.Color.toArrayNormalized(props.borderColor, linear_algebra_1.Vec3.zero(), 0)), uOffsetX: mol_util_1.ValueCell.create(props.offsetX), uOffsetY: mol_util_1.ValueCell.create(props.offsetY), uOffsetZ: mol_util_1.ValueCell.create(props.offsetZ), uBackgroundColor: mol_util_1.ValueCell.create(color_1.Color.toArrayNormalized(props.backgroundColor, linear_algebra_1.Vec3.zero(), 0)), uBackgroundOpacity: mol_util_1.ValueCell.create(props.backgroundOpacity) });
155
155
  }
156
156
  function createValuesSimple(text, props, colorValue, sizeValue, transform) {
157
157
  var s = base_1.BaseGeometry.createSimple(colorValue, sizeValue, transform);
158
- var p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(Text.Params)), props);
158
+ var p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(Text.Params)), props);
159
159
  return createValues(text, s.transform, s.locationIterator, s.theme, p);
160
160
  }
161
161
  function updateValues(values, props) {
@@ -113,7 +113,7 @@ function createAccumulateRenderable(ctx, input, box, resolution, stride) {
113
113
  uBboxSize: mol_util_1.ValueCell.create(extent),
114
114
  uResolution: mol_util_1.ValueCell.create(resolution),
115
115
  };
116
- var schema = (0, tslib_1.__assign)({}, exports.ColorAccumulateSchema);
116
+ var schema = tslib_1.__assign({}, exports.ColorAccumulateSchema);
117
117
  var shaderCode = (0, shader_code_1.ShaderCode)('accumulate', accumulate_vert_1.accumulate_vert, accumulate_frag_1.accumulate_frag, { drawBuffers: 'required' });
118
118
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'points', shaderCode, schema, values);
119
119
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
@@ -130,7 +130,7 @@ function setAccumulateDefaults(ctx) {
130
130
  state.blendEquation(gl.FUNC_ADD);
131
131
  }
132
132
  //
133
- exports.ColorNormalizeSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tCount: (0, schema_1.TextureSpec)('texture', 'alpha', 'float', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2') });
133
+ exports.ColorNormalizeSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tCount: (0, schema_1.TextureSpec)('texture', 'alpha', 'float', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2') });
134
134
  var ColorNormalizeName = 'color-normalize';
135
135
  function getNormalizeRenderable(ctx, color, count) {
136
136
  if (ctx.namedComputeRenderables[ColorNormalizeName]) {
@@ -146,8 +146,8 @@ function getNormalizeRenderable(ctx, color, count) {
146
146
  return ctx.namedComputeRenderables[ColorNormalizeName];
147
147
  }
148
148
  function createColorNormalizeRenderable(ctx, color, count) {
149
- var values = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadValues), { tColor: mol_util_1.ValueCell.create(color), tCount: mol_util_1.ValueCell.create(count), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(color.getWidth(), color.getHeight())) });
150
- var schema = (0, tslib_1.__assign)({}, exports.ColorNormalizeSchema);
149
+ var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tColor: mol_util_1.ValueCell.create(color), tCount: mol_util_1.ValueCell.create(count), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(color.getWidth(), color.getHeight())) });
150
+ var schema = tslib_1.__assign({}, exports.ColorNormalizeSchema);
151
151
  var shaderCode = (0, shader_code_1.ShaderCode)('normalize', quad_vert_1.quad_vert, normalize_frag_1.normalize_frag);
152
152
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', shaderCode, schema, values);
153
153
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
@@ -89,7 +89,7 @@ var TextureMesh;
89
89
  return create(0, 0, vt, gt, nt, bs, textureMesh);
90
90
  }
91
91
  TextureMesh.createEmpty = createEmpty;
92
- TextureMesh.Params = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, base_1.BaseGeometry.Params), { doubleSided: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.CustomQualityParamInfo), flipSided: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), flatShaded: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), ignoreLight: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), xrayShaded: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), bumpFrequency: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }, base_1.BaseGeometry.ShadingCategory), bumpAmplitude: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 5, step: 0.1 }, base_1.BaseGeometry.ShadingCategory) });
92
+ TextureMesh.Params = tslib_1.__assign(tslib_1.__assign({}, base_1.BaseGeometry.Params), { doubleSided: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.CustomQualityParamInfo), flipSided: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), flatShaded: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), ignoreLight: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), xrayShaded: param_definition_1.ParamDefinition.Boolean(false, base_1.BaseGeometry.ShadingCategory), bumpFrequency: param_definition_1.ParamDefinition.Numeric(0, { min: 0, max: 10, step: 0.1 }, base_1.BaseGeometry.ShadingCategory), bumpAmplitude: param_definition_1.ParamDefinition.Numeric(1, { min: 0, max: 5, step: 0.1 }, base_1.BaseGeometry.ShadingCategory) });
93
93
  TextureMesh.Utils = {
94
94
  Params: TextureMesh.Params,
95
95
  createEmpty: createEmpty,
@@ -113,11 +113,11 @@ var TextureMesh;
113
113
  var counts = { drawCount: textureMesh.vertexCount, vertexCount: textureMesh.vertexCount, groupCount: groupCount, instanceCount: instanceCount };
114
114
  var invariantBoundingSphere = geometry_1.Sphere3D.clone(textureMesh.boundingSphere);
115
115
  var boundingSphere = (0, util_1.calculateTransformBoundingSphere)(invariantBoundingSphere, transform.aTransform.ref.value, instanceCount);
116
- return (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({ dGeometryType: mol_util_1.ValueCell.create('textureMesh'), uGeoTexDim: textureMesh.geoTextureDim, tPosition: textureMesh.vertexTexture, tGroup: textureMesh.groupTexture, tNormal: textureMesh.normalTexture, boundingSphere: mol_util_1.ValueCell.create(boundingSphere), invariantBoundingSphere: mol_util_1.ValueCell.create(invariantBoundingSphere), uInvariantBoundingSphere: mol_util_1.ValueCell.create(linear_algebra_1.Vec4.ofSphere(invariantBoundingSphere)) }, color), marker), overpaint), transparency), substance), clipping), transform), base_1.BaseGeometry.createValues(props, counts)), { uDoubleSided: mol_util_1.ValueCell.create(props.doubleSided), dFlatShaded: mol_util_1.ValueCell.create(props.flatShaded), dFlipSided: mol_util_1.ValueCell.create(props.flipSided), dIgnoreLight: mol_util_1.ValueCell.create(props.ignoreLight), dXrayShaded: mol_util_1.ValueCell.create(props.xrayShaded), uBumpFrequency: mol_util_1.ValueCell.create(props.bumpFrequency), uBumpAmplitude: mol_util_1.ValueCell.create(props.bumpAmplitude), meta: mol_util_1.ValueCell.create(textureMesh.meta) });
116
+ return tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({ dGeometryType: mol_util_1.ValueCell.create('textureMesh'), uGeoTexDim: textureMesh.geoTextureDim, tPosition: textureMesh.vertexTexture, tGroup: textureMesh.groupTexture, tNormal: textureMesh.normalTexture, boundingSphere: mol_util_1.ValueCell.create(boundingSphere), invariantBoundingSphere: mol_util_1.ValueCell.create(invariantBoundingSphere), uInvariantBoundingSphere: mol_util_1.ValueCell.create(linear_algebra_1.Vec4.ofSphere(invariantBoundingSphere)) }, color), marker), overpaint), transparency), substance), clipping), transform), base_1.BaseGeometry.createValues(props, counts)), { uDoubleSided: mol_util_1.ValueCell.create(props.doubleSided), dFlatShaded: mol_util_1.ValueCell.create(props.flatShaded), dFlipSided: mol_util_1.ValueCell.create(props.flipSided), dIgnoreLight: mol_util_1.ValueCell.create(props.ignoreLight), dXrayShaded: mol_util_1.ValueCell.create(props.xrayShaded), uBumpFrequency: mol_util_1.ValueCell.create(props.bumpFrequency), uBumpAmplitude: mol_util_1.ValueCell.create(props.bumpAmplitude), meta: mol_util_1.ValueCell.create(textureMesh.meta) });
117
117
  }
118
118
  function createValuesSimple(textureMesh, props, colorValue, sizeValue, transform) {
119
119
  var s = base_1.BaseGeometry.createSimple(colorValue, sizeValue, transform);
120
- var p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(TextureMesh.Params)), props);
120
+ var p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(TextureMesh.Params)), props);
121
121
  return createValues(textureMesh, s.transform, s.locationIterator, s.theme, p);
122
122
  }
123
123
  function updateValues(values, props) {
@@ -14,7 +14,7 @@ exports.DefaultCircleProps = {
14
14
  thetaLength: Math.PI * 2
15
15
  };
16
16
  function Circle(props) {
17
- var _a = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.DefaultCircleProps), props), radius = _a.radius, segments = _a.segments, thetaStart = _a.thetaStart, thetaLength = _a.thetaLength;
17
+ var _a = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultCircleProps), props), radius = _a.radius, segments = _a.segments, thetaStart = _a.thetaStart, thetaLength = _a.thetaLength;
18
18
  var isFull = thetaLength === Math.PI * 2;
19
19
  var count = isFull ? segments + 1 : segments + 2;
20
20
  var vertices = new Float32Array(count * 3);
@@ -21,7 +21,7 @@ exports.DefaultCylinderProps = {
21
21
  thetaLength: Math.PI * 2
22
22
  };
23
23
  function Cylinder(props) {
24
- var _a = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.DefaultCylinderProps), props), radiusTop = _a.radiusTop, radiusBottom = _a.radiusBottom, height = _a.height, radialSegments = _a.radialSegments, heightSegments = _a.heightSegments, topCap = _a.topCap, bottomCap = _a.bottomCap, thetaStart = _a.thetaStart, thetaLength = _a.thetaLength;
24
+ var _a = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultCylinderProps), props), radiusTop = _a.radiusTop, radiusBottom = _a.radiusBottom, height = _a.height, radialSegments = _a.radialSegments, heightSegments = _a.heightSegments, topCap = _a.topCap, bottomCap = _a.bottomCap, thetaStart = _a.thetaStart, thetaLength = _a.thetaLength;
25
25
  // buffers
26
26
  var indices = [];
27
27
  var vertices = [];
@@ -15,7 +15,7 @@ exports.DefaultPolyhedronProps = {
15
15
  detail: 0
16
16
  };
17
17
  function Polyhedron(_vertices, _indices, props) {
18
- var _a = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.DefaultPolyhedronProps), props), radius = _a.radius, detail = _a.detail;
18
+ var _a = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultPolyhedronProps), props), radius = _a.radius, detail = _a.detail;
19
19
  var builder = createBuilder();
20
20
  var vertices = builder.vertices, indices = builder.indices;
21
21
  // the subdivision creates the vertex buffer data
@@ -24,7 +24,7 @@ function Prism(points, props) {
24
24
  var sideCount = points.length / 3;
25
25
  if (sideCount < 3)
26
26
  throw new Error('need at least 3 points to build a prism');
27
- var _a = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.DefaultPrismProps), props), height = _a.height, topCap = _a.topCap, bottomCap = _a.bottomCap;
27
+ var _a = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultPrismProps), props), height = _a.height, topCap = _a.topCap, bottomCap = _a.bottomCap;
28
28
  var triangleCount = sideCount * 2;
29
29
  var vertexCount = sideCount * 4;
30
30
  var capCount = (topCap ? 1 : 0) + (bottomCap ? 1 : 0);
@@ -18,7 +18,7 @@ exports.DefaultStarProps = {
18
18
  var op = linear_algebra_1.Vec3.zero(), on = linear_algebra_1.Vec3.zero();
19
19
  var a = linear_algebra_1.Vec3.zero(), b = linear_algebra_1.Vec3.zero(), c = linear_algebra_1.Vec3.zero();
20
20
  function Star(props) {
21
- var _a = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.DefaultStarProps), props), outerRadius = _a.outerRadius, innerRadius = _a.innerRadius, thickness = _a.thickness, pointCount = _a.pointCount;
21
+ var _a = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultStarProps), props), outerRadius = _a.outerRadius, innerRadius = _a.innerRadius, thickness = _a.thickness, pointCount = _a.pointCount;
22
22
  var triangleCount = pointCount * 2 * 2;
23
23
  var builder = (0, primitive_1.PrimitiveBuilder)(triangleCount);
24
24
  var innerPoints = new Float32Array(pointCount * 2);
@@ -17,7 +17,7 @@ exports.DefaultTorusProps = {
17
17
  arc: Math.PI * 2,
18
18
  };
19
19
  function Torus(props) {
20
- var _a = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.DefaultTorusProps), props), radius = _a.radius, tube = _a.tube, radialSegments = _a.radialSegments, tubularSegments = _a.tubularSegments, arc = _a.arc;
20
+ var _a = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultTorusProps), props), radius = _a.radius, tube = _a.tube, radialSegments = _a.radialSegments, tubularSegments = _a.tubularSegments, arc = _a.arc;
21
21
  // buffers
22
22
  var indices = [];
23
23
  var vertices = [];
@@ -13,7 +13,7 @@ var tables_1 = require("./tables");
13
13
  var mol_util_1 = require("../../../mol-util");
14
14
  var builder_1 = require("./builder");
15
15
  function getInputParams(params) {
16
- return (0, tslib_1.__assign)((0, tslib_1.__assign)({}, params), { bottomLeft: (0, mol_util_1.defaults)(params.bottomLeft, [0, 0, 0]), topRight: (0, mol_util_1.defaults)(params.topRight, params.scalarField.space.dimensions) });
16
+ return tslib_1.__assign(tslib_1.__assign({}, params), { bottomLeft: (0, mol_util_1.defaults)(params.bottomLeft, [0, 0, 0]), topRight: (0, mol_util_1.defaults)(params.topRight, params.scalarField.space.dimensions) });
17
17
  }
18
18
  function getExtent(inputParams) {
19
19
  return {
@@ -24,9 +24,9 @@ function getExtent(inputParams) {
24
24
  }
25
25
  function computeMarchingCubesMesh(params, mesh) {
26
26
  var _this = this;
27
- return mol_task_1.Task.create('Marching Cubes Mesh', function (ctx) { return (0, tslib_1.__awaiter)(_this, void 0, void 0, function () {
27
+ return mol_task_1.Task.create('Marching Cubes Mesh', function (ctx) { return tslib_1.__awaiter(_this, void 0, void 0, function () {
28
28
  var inputParams, _a, dX, dY, dZ, vertexChunkSize, builder;
29
- return (0, tslib_1.__generator)(this, function (_b) {
29
+ return tslib_1.__generator(this, function (_b) {
30
30
  switch (_b.label) {
31
31
  case 0:
32
32
  inputParams = getInputParams(params);
@@ -44,9 +44,9 @@ function computeMarchingCubesMesh(params, mesh) {
44
44
  exports.computeMarchingCubesMesh = computeMarchingCubesMesh;
45
45
  function computeMarchingCubesLines(params, lines) {
46
46
  var _this = this;
47
- return mol_task_1.Task.create('Marching Cubes Lines', function (ctx) { return (0, tslib_1.__awaiter)(_this, void 0, void 0, function () {
47
+ return mol_task_1.Task.create('Marching Cubes Lines', function (ctx) { return tslib_1.__awaiter(_this, void 0, void 0, function () {
48
48
  var inputParams, _a, dX, dY, dZ, vertexChunkSize, builder;
49
- return (0, tslib_1.__generator)(this, function (_b) {
49
+ return tslib_1.__generator(this, function (_b) {
50
50
  switch (_b.label) {
51
51
  case 0:
52
52
  inputParams = getInputParams(params);
@@ -82,9 +82,9 @@ var MarchingCubesComputation = /** @class */ (function () {
82
82
  this.sliceSize = (this.maxX - this.minX) * (this.maxY - this.minY);
83
83
  }
84
84
  MarchingCubesComputation.prototype.doSlices = function () {
85
- return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
85
+ return tslib_1.__awaiter(this, void 0, void 0, function () {
86
86
  var done, k;
87
- return (0, tslib_1.__generator)(this, function (_a) {
87
+ return tslib_1.__generator(this, function (_a) {
88
88
  switch (_a.label) {
89
89
  case 0:
90
90
  done = 0;
@@ -119,8 +119,8 @@ var MarchingCubesComputation = /** @class */ (function () {
119
119
  this.state.clearEdgeVertexIndexSlice(k);
120
120
  };
121
121
  MarchingCubesComputation.prototype.run = function () {
122
- return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
123
- return (0, tslib_1.__generator)(this, function (_a) {
122
+ return tslib_1.__awaiter(this, void 0, void 0, function () {
123
+ return tslib_1.__generator(this, function (_a) {
124
124
  switch (_a.label) {
125
125
  case 0: return [4 /*yield*/, this.doSlices()];
126
126
  case 1:
@@ -26,7 +26,7 @@ exports.canComputeGrid3dOnGPU = canComputeGrid3dOnGPU;
26
26
  var FrameBufferName = 'grid3d-computable';
27
27
  var Texture0Name = 'grid3d-computable-0';
28
28
  var Texture1Name = 'grid3d-computable-1';
29
- var SchemaBase = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadSchema), { uDimensions: (0, schema_1.UniformSpec)('v3'), uMin: (0, schema_1.UniformSpec)('v3'), uDelta: (0, schema_1.UniformSpec)('v3'), uWidth: (0, schema_1.UniformSpec)('f'), uLittleEndian: (0, schema_1.UniformSpec)('b') });
29
+ var SchemaBase = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { uDimensions: (0, schema_1.UniformSpec)('v3'), uMin: (0, schema_1.UniformSpec)('v3'), uDelta: (0, schema_1.UniformSpec)('v3'), uWidth: (0, schema_1.UniformSpec)('f'), uLittleEndian: (0, schema_1.UniformSpec)('b') });
30
30
  var CumulativeSumSchema = {
31
31
  tCumulativeSum: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest')
32
32
  };
@@ -57,13 +57,13 @@ function createGrid3dComputeRenderable(spec) {
57
57
  .replace('{MAIN}', spec.mainCode)
58
58
  .replace('{RETURN}', spec.returnCode);
59
59
  var shader = (0, shader_code_1.ShaderCode)(id, quad_vert_1.quad_vert, code);
60
- return function (ctx, webgl, grid, params) { return (0, tslib_1.__awaiter)(_this, void 0, void 0, function () {
60
+ return function (ctx, webgl, grid, params) { return tslib_1.__awaiter(_this, void 0, void 0, function () {
61
61
  var schema, _i, _a, b, framebuffer, tex, _b, nx, ny, nz, uWidth, values, renderable, cells, array, gl, states, yieldPeriod, i;
62
62
  var _c;
63
- return (0, tslib_1.__generator)(this, function (_d) {
63
+ return tslib_1.__generator(this, function (_d) {
64
64
  switch (_d.label) {
65
65
  case 0:
66
- schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, SchemaBase), (spec.cumulative ? CumulativeSumSchema : {})), spec.schema);
66
+ schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, SchemaBase), (spec.cumulative ? CumulativeSumSchema : {})), spec.schema);
67
67
  if (!webgl.isWebGL2) {
68
68
  if (spec.loopBounds) {
69
69
  for (_i = 0, _a = spec.loopBounds; _i < _a.length; _i++) {
@@ -89,7 +89,7 @@ function createGrid3dComputeRenderable(spec) {
89
89
  tex = [webgl.namedTextures[Texture0Name], webgl.namedTextures[Texture1Name]];
90
90
  _b = grid.dimensions, nx = _b[0], ny = _b[1], nz = _b[2];
91
91
  uWidth = Math.ceil(Math.sqrt(nx * ny * nz));
92
- values = (0, tslib_1.__assign)({ uDimensions: grid.dimensions, uMin: grid.box.min, uDelta: (0, common_1.getRegularGrid3dDelta)(grid), uWidth: uWidth, uLittleEndian: (0, is_little_endian_1.isLittleEndian)() }, spec.values(params, grid));
92
+ values = tslib_1.__assign({ uDimensions: grid.dimensions, uMin: grid.box.min, uDelta: (0, common_1.getRegularGrid3dDelta)(grid), uWidth: uWidth, uLittleEndian: (0, is_little_endian_1.isLittleEndian)() }, spec.values(params, grid));
93
93
  if (!webgl.isWebGL2) {
94
94
  values.WEBGL1 = true;
95
95
  }
@@ -18,7 +18,7 @@ var misc_1 = require("../../../mol-math/misc");
18
18
  var quad_vert_1 = require("../../../mol-gl/shader/quad.vert");
19
19
  var reduction_frag_1 = require("../../../mol-gl/shader/histogram-pyramid/reduction.frag");
20
20
  var compat_1 = require("../../webgl/compat");
21
- var HistopyramidReductionSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadSchema), { tInputLevel: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tPreviousLevel: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), uSize: (0, schema_1.UniformSpec)('f'), uTexSize: (0, schema_1.UniformSpec)('f'), uFirst: (0, schema_1.UniformSpec)('b') });
21
+ var HistopyramidReductionSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tInputLevel: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tPreviousLevel: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), uSize: (0, schema_1.UniformSpec)('f'), uTexSize: (0, schema_1.UniformSpec)('f'), uFirst: (0, schema_1.UniformSpec)('b') });
22
22
  var HistogramPyramidName = 'histogram-pyramid';
23
23
  function getHistopyramidReductionRenderable(ctx, inputLevel, previousLevel) {
24
24
  if (ctx.namedComputeRenderables[HistogramPyramidName]) {
@@ -33,8 +33,8 @@ function getHistopyramidReductionRenderable(ctx, inputLevel, previousLevel) {
33
33
  return ctx.namedComputeRenderables[HistogramPyramidName];
34
34
  }
35
35
  function createHistopyramidReductionRenderable(ctx, inputLevel, previousLevel) {
36
- var values = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadValues), { tInputLevel: mol_util_1.ValueCell.create(inputLevel), tPreviousLevel: mol_util_1.ValueCell.create(previousLevel), uSize: mol_util_1.ValueCell.create(0), uTexSize: mol_util_1.ValueCell.create(0), uFirst: mol_util_1.ValueCell.create(true) });
37
- var schema = (0, tslib_1.__assign)({}, HistopyramidReductionSchema);
36
+ var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tInputLevel: mol_util_1.ValueCell.create(inputLevel), tPreviousLevel: mol_util_1.ValueCell.create(previousLevel), uSize: mol_util_1.ValueCell.create(0), uTexSize: mol_util_1.ValueCell.create(0), uFirst: mol_util_1.ValueCell.create(true) });
37
+ var schema = tslib_1.__assign({}, HistopyramidReductionSchema);
38
38
  var shaderCode = (0, shader_code_1.ShaderCode)('reduction', quad_vert_1.quad_vert, reduction_frag_1.reduction_frag, {}, { 0: 'ivec4' });
39
39
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', shaderCode, schema, values);
40
40
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
@@ -17,7 +17,7 @@ var util_1 = require("../util");
17
17
  var quad_vert_1 = require("../../../mol-gl/shader/quad.vert");
18
18
  var sum_frag_1 = require("../../../mol-gl/shader/histogram-pyramid/sum.frag");
19
19
  var compat_1 = require("../../webgl/compat");
20
- var HistopyramidSumSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadSchema), { tTexture: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest') });
20
+ var HistopyramidSumSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tTexture: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest') });
21
21
  var HistopyramidSumName = 'histopyramid-sum';
22
22
  function getHistopyramidSumRenderable(ctx, texture) {
23
23
  if (ctx.namedComputeRenderables[HistopyramidSumName]) {
@@ -31,8 +31,8 @@ function getHistopyramidSumRenderable(ctx, texture) {
31
31
  return ctx.namedComputeRenderables[HistopyramidSumName];
32
32
  }
33
33
  function createHistopyramidSumRenderable(ctx, texture) {
34
- var values = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadValues), { tTexture: mol_util_1.ValueCell.create(texture) });
35
- var schema = (0, tslib_1.__assign)({}, HistopyramidSumSchema);
34
+ var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tTexture: mol_util_1.ValueCell.create(texture) });
35
+ var schema = tslib_1.__assign({}, HistopyramidSumSchema);
36
36
  var shaderCode = (0, shader_code_1.ShaderCode)('sum', quad_vert_1.quad_vert, sum_frag_1.sum_frag, {}, { 0: 'ivec4' });
37
37
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', shaderCode, schema, values);
38
38
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
@@ -16,7 +16,7 @@ var util_1 = require("../util");
16
16
  var tables_1 = require("./tables");
17
17
  var quad_vert_1 = require("../../../mol-gl/shader/quad.vert");
18
18
  var active_voxels_frag_1 = require("../../../mol-gl/shader/marching-cubes/active-voxels.frag");
19
- var ActiveVoxelsSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadSchema), { tTriCount: (0, schema_1.TextureSpec)('image-uint8', 'alpha', 'ubyte', 'nearest'), tVolumeData: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uIsoValue: (0, schema_1.UniformSpec)('f'), uGridDim: (0, schema_1.UniformSpec)('v3'), uGridTexDim: (0, schema_1.UniformSpec)('v3'), uScale: (0, schema_1.UniformSpec)('v2') });
19
+ var ActiveVoxelsSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tTriCount: (0, schema_1.TextureSpec)('image-uint8', 'alpha', 'ubyte', 'nearest'), tVolumeData: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uIsoValue: (0, schema_1.UniformSpec)('f'), uGridDim: (0, schema_1.UniformSpec)('v3'), uGridTexDim: (0, schema_1.UniformSpec)('v3'), uScale: (0, schema_1.UniformSpec)('v2') });
20
20
  var ActiveVoxelsName = 'active-voxels';
21
21
  function getActiveVoxelsRenderable(ctx, volumeData, gridDim, gridTexDim, isoValue, scale) {
22
22
  if (ctx.namedComputeRenderables[ActiveVoxelsName]) {
@@ -35,8 +35,8 @@ function getActiveVoxelsRenderable(ctx, volumeData, gridDim, gridTexDim, isoValu
35
35
  return ctx.namedComputeRenderables[ActiveVoxelsName];
36
36
  }
37
37
  function createActiveVoxelsRenderable(ctx, volumeData, gridDim, gridTexDim, isoValue, scale) {
38
- var values = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadValues), { tTriCount: mol_util_1.ValueCell.create((0, tables_1.getTriCount)()), uQuadScale: mol_util_1.ValueCell.create(scale), tVolumeData: mol_util_1.ValueCell.create(volumeData), uIsoValue: mol_util_1.ValueCell.create(isoValue), uGridDim: mol_util_1.ValueCell.create(gridDim), uGridTexDim: mol_util_1.ValueCell.create(gridTexDim), uScale: mol_util_1.ValueCell.create(scale) });
39
- var schema = (0, tslib_1.__assign)({}, ActiveVoxelsSchema);
38
+ var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tTriCount: mol_util_1.ValueCell.create((0, tables_1.getTriCount)()), uQuadScale: mol_util_1.ValueCell.create(scale), tVolumeData: mol_util_1.ValueCell.create(volumeData), uIsoValue: mol_util_1.ValueCell.create(isoValue), uGridDim: mol_util_1.ValueCell.create(gridDim), uGridTexDim: mol_util_1.ValueCell.create(gridTexDim), uScale: mol_util_1.ValueCell.create(scale) });
39
+ var schema = tslib_1.__assign({}, ActiveVoxelsSchema);
40
40
  var shaderCode = (0, shader_code_1.ShaderCode)('active-voxels', quad_vert_1.quad_vert, active_voxels_frag_1.activeVoxels_frag);
41
41
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', shaderCode, schema, values);
42
42
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
@@ -19,7 +19,7 @@ var quad_vert_1 = require("../../../mol-gl/shader/quad.vert");
19
19
  var isosurface_frag_1 = require("../../../mol-gl/shader/marching-cubes/isosurface.frag");
20
20
  var active_voxels_1 = require("./active-voxels");
21
21
  var compat_1 = require("../../webgl/compat");
22
- var IsosurfaceSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadSchema), { tTriIndices: (0, schema_1.TextureSpec)('image-uint8', 'alpha', 'ubyte', 'nearest'), tActiveVoxelsPyramid: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tActiveVoxelsBase: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tVolumeData: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uIsoValue: (0, schema_1.UniformSpec)('f'), uSize: (0, schema_1.UniformSpec)('f'), uLevels: (0, schema_1.UniformSpec)('f'), uCount: (0, schema_1.UniformSpec)('f'), uInvert: (0, schema_1.UniformSpec)('b'), uGridDim: (0, schema_1.UniformSpec)('v3'), uGridTexDim: (0, schema_1.UniformSpec)('v3'), uGridTransform: (0, schema_1.UniformSpec)('m4'), uScale: (0, schema_1.UniformSpec)('v2'), dPackedGroup: (0, schema_1.DefineSpec)('boolean'), dAxisOrder: (0, schema_1.DefineSpec)('string', ['012', '021', '102', '120', '201', '210']) });
22
+ var IsosurfaceSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tTriIndices: (0, schema_1.TextureSpec)('image-uint8', 'alpha', 'ubyte', 'nearest'), tActiveVoxelsPyramid: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tActiveVoxelsBase: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tVolumeData: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uIsoValue: (0, schema_1.UniformSpec)('f'), uSize: (0, schema_1.UniformSpec)('f'), uLevels: (0, schema_1.UniformSpec)('f'), uCount: (0, schema_1.UniformSpec)('f'), uInvert: (0, schema_1.UniformSpec)('b'), uGridDim: (0, schema_1.UniformSpec)('v3'), uGridTexDim: (0, schema_1.UniformSpec)('v3'), uGridTransform: (0, schema_1.UniformSpec)('m4'), uScale: (0, schema_1.UniformSpec)('v2'), dPackedGroup: (0, schema_1.DefineSpec)('boolean'), dAxisOrder: (0, schema_1.DefineSpec)('string', ['012', '021', '102', '120', '201', '210']) });
23
23
  var IsosurfaceName = 'isosurface';
24
24
  function getIsosurfaceRenderable(ctx, activeVoxelsPyramid, activeVoxelsBase, volumeData, gridDim, gridTexDim, transform, isoValue, levels, scale, count, invert, packedGroup, axisOrder) {
25
25
  if (ctx.namedComputeRenderables[IsosurfaceName]) {
@@ -47,8 +47,8 @@ function getIsosurfaceRenderable(ctx, activeVoxelsPyramid, activeVoxelsBase, vol
47
47
  }
48
48
  function createIsosurfaceRenderable(ctx, activeVoxelsPyramid, activeVoxelsBase, volumeData, gridDim, gridTexDim, transform, isoValue, levels, scale, count, invert, packedGroup, axisOrder) {
49
49
  // console.log('uSize', Math.pow(2, levels))
50
- var values = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, util_1.QuadValues), { tTriIndices: mol_util_1.ValueCell.create((0, tables_1.getTriIndices)()), tActiveVoxelsPyramid: mol_util_1.ValueCell.create(activeVoxelsPyramid), tActiveVoxelsBase: mol_util_1.ValueCell.create(activeVoxelsBase), tVolumeData: mol_util_1.ValueCell.create(volumeData), uIsoValue: mol_util_1.ValueCell.create(isoValue), uSize: mol_util_1.ValueCell.create(Math.pow(2, levels)), uLevels: mol_util_1.ValueCell.create(levels), uCount: mol_util_1.ValueCell.create(count), uInvert: mol_util_1.ValueCell.create(invert), uGridDim: mol_util_1.ValueCell.create(gridDim), uGridTexDim: mol_util_1.ValueCell.create(gridTexDim), uGridTransform: mol_util_1.ValueCell.create(transform), uScale: mol_util_1.ValueCell.create(scale), dPackedGroup: mol_util_1.ValueCell.create(packedGroup), dAxisOrder: mol_util_1.ValueCell.create(axisOrder.join('')) });
51
- var schema = (0, tslib_1.__assign)({}, IsosurfaceSchema);
50
+ var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tTriIndices: mol_util_1.ValueCell.create((0, tables_1.getTriIndices)()), tActiveVoxelsPyramid: mol_util_1.ValueCell.create(activeVoxelsPyramid), tActiveVoxelsBase: mol_util_1.ValueCell.create(activeVoxelsBase), tVolumeData: mol_util_1.ValueCell.create(volumeData), uIsoValue: mol_util_1.ValueCell.create(isoValue), uSize: mol_util_1.ValueCell.create(Math.pow(2, levels)), uLevels: mol_util_1.ValueCell.create(levels), uCount: mol_util_1.ValueCell.create(count), uInvert: mol_util_1.ValueCell.create(invert), uGridDim: mol_util_1.ValueCell.create(gridDim), uGridTexDim: mol_util_1.ValueCell.create(gridTexDim), uGridTransform: mol_util_1.ValueCell.create(transform), uScale: mol_util_1.ValueCell.create(scale), dPackedGroup: mol_util_1.ValueCell.create(packedGroup), dAxisOrder: mol_util_1.ValueCell.create(axisOrder.join('')) });
51
+ var schema = tslib_1.__assign({}, IsosurfaceSchema);
52
52
  var shaderCode = (0, shader_code_1.ShaderCode)('isosurface', quad_vert_1.quad_vert, isosurface_frag_1.isosurface_frag, { drawBuffers: 'required' });
53
53
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', shaderCode, schema, values);
54
54
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
@@ -33,11 +33,11 @@ exports.QuadValues = {
33
33
  uQuadScale: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1, 1)),
34
34
  };
35
35
  //
36
- var CopySchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2') });
36
+ var CopySchema = tslib_1.__assign(tslib_1.__assign({}, exports.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2') });
37
37
  var CopyShaderCode = (0, shader_code_1.ShaderCode)('copy', quad_vert_1.quad_vert, copy_frag_1.copy_frag);
38
38
  function createCopyRenderable(ctx, texture) {
39
- var values = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.QuadValues), { tColor: mol_util_1.ValueCell.create(texture), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(texture.getWidth(), texture.getHeight())) });
40
- var schema = (0, tslib_1.__assign)({}, CopySchema);
39
+ var values = tslib_1.__assign(tslib_1.__assign({}, exports.QuadValues), { tColor: mol_util_1.ValueCell.create(texture), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(texture.getWidth(), texture.getHeight())) });
40
+ var schema = tslib_1.__assign({}, CopySchema);
41
41
  var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', CopyShaderCode, schema, values);
42
42
  return (0, renderable_1.createComputeRenderable)(renderItem, values);
43
43
  }
@@ -12,14 +12,14 @@ var render_item_1 = require("../webgl/render-item");
12
12
  var schema_1 = require("./schema");
13
13
  var shader_code_1 = require("../shader-code");
14
14
  var mol_util_1 = require("../../mol-util");
15
- exports.CylindersSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.BaseSchema), schema_1.SizeSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aStart: (0, schema_1.AttributeSpec)('float32', 3, 0), aEnd: (0, schema_1.AttributeSpec)('float32', 3, 0), aMapping: (0, schema_1.AttributeSpec)('float32', 3, 0), aScale: (0, schema_1.AttributeSpec)('float32', 1, 0), aCap: (0, schema_1.AttributeSpec)('float32', 1, 0), elements: (0, schema_1.ElementsSpec)('uint32'), padding: (0, schema_1.ValueSpec)('number'), uDoubleSided: (0, schema_1.UniformSpec)('b'), dIgnoreLight: (0, schema_1.DefineSpec)('boolean'), dXrayShaded: (0, schema_1.DefineSpec)('boolean'), uBumpFrequency: (0, schema_1.UniformSpec)('f'), uBumpAmplitude: (0, schema_1.UniformSpec)('f') });
15
+ exports.CylindersSchema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.BaseSchema), schema_1.SizeSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aStart: (0, schema_1.AttributeSpec)('float32', 3, 0), aEnd: (0, schema_1.AttributeSpec)('float32', 3, 0), aMapping: (0, schema_1.AttributeSpec)('float32', 3, 0), aScale: (0, schema_1.AttributeSpec)('float32', 1, 0), aCap: (0, schema_1.AttributeSpec)('float32', 1, 0), elements: (0, schema_1.ElementsSpec)('uint32'), padding: (0, schema_1.ValueSpec)('number'), uDoubleSided: (0, schema_1.UniformSpec)('b'), dIgnoreLight: (0, schema_1.DefineSpec)('boolean'), dXrayShaded: (0, schema_1.DefineSpec)('boolean'), uBumpFrequency: (0, schema_1.UniformSpec)('f'), uBumpAmplitude: (0, schema_1.UniformSpec)('f') });
16
16
  function CylindersRenderable(ctx, id, values, state, materialId, variants) {
17
- var schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.CylindersSchema);
17
+ var schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.CylindersSchema);
18
18
  var internalValues = {
19
19
  uObjectId: mol_util_1.ValueCell.create(id),
20
20
  };
21
21
  var shaderCode = shader_code_1.CylindersShaderCode;
22
- var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, (0, tslib_1.__assign)((0, tslib_1.__assign)({}, values), internalValues), materialId, variants);
22
+ var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, tslib_1.__assign(tslib_1.__assign({}, values), internalValues), materialId, variants);
23
23
  return (0, renderable_1.createRenderable)(renderItem, values, state);
24
24
  }
25
25
  exports.CylindersRenderable = CylindersRenderable;
@@ -12,9 +12,9 @@ var render_item_1 = require("../webgl/render-item");
12
12
  var schema_1 = require("./schema");
13
13
  var shader_code_1 = require("../shader-code");
14
14
  var mol_util_1 = require("../../mol-util");
15
- exports.DirectVolumeSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.BaseSchema), { aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), elements: (0, schema_1.ElementsSpec)('uint32'), uBboxMin: (0, schema_1.UniformSpec)('v3'), uBboxMax: (0, schema_1.UniformSpec)('v3'), uBboxSize: (0, schema_1.UniformSpec)('v3'), uMaxSteps: (0, schema_1.UniformSpec)('i'), uStepScale: (0, schema_1.UniformSpec)('f'), uJumpLength: (0, schema_1.UniformSpec)('f'), uTransform: (0, schema_1.UniformSpec)('m4'), uGridDim: (0, schema_1.UniformSpec)('v3'), tTransferTex: (0, schema_1.TextureSpec)('image-uint8', 'alpha', 'ubyte', 'linear'), uTransferScale: (0, schema_1.UniformSpec)('f'), dGridTexType: (0, schema_1.DefineSpec)('string', ['2d', '3d']), uGridTexDim: (0, schema_1.UniformSpec)('v3'), tGridTex: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uGridStats: (0, schema_1.UniformSpec)('v4'), uCellDim: (0, schema_1.UniformSpec)('v3'), uCartnToUnit: (0, schema_1.UniformSpec)('m4'), uUnitToCartn: (0, schema_1.UniformSpec)('m4'), dPackedGroup: (0, schema_1.DefineSpec)('boolean'), dAxisOrder: (0, schema_1.DefineSpec)('string', ['012', '021', '102', '120', '201', '210']), dIgnoreLight: (0, schema_1.DefineSpec)('boolean'), dXrayShaded: (0, schema_1.DefineSpec)('boolean') });
15
+ exports.DirectVolumeSchema = tslib_1.__assign(tslib_1.__assign({}, schema_1.BaseSchema), { aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), elements: (0, schema_1.ElementsSpec)('uint32'), uBboxMin: (0, schema_1.UniformSpec)('v3'), uBboxMax: (0, schema_1.UniformSpec)('v3'), uBboxSize: (0, schema_1.UniformSpec)('v3'), uMaxSteps: (0, schema_1.UniformSpec)('i'), uStepScale: (0, schema_1.UniformSpec)('f'), uJumpLength: (0, schema_1.UniformSpec)('f'), uTransform: (0, schema_1.UniformSpec)('m4'), uGridDim: (0, schema_1.UniformSpec)('v3'), tTransferTex: (0, schema_1.TextureSpec)('image-uint8', 'alpha', 'ubyte', 'linear'), uTransferScale: (0, schema_1.UniformSpec)('f'), dGridTexType: (0, schema_1.DefineSpec)('string', ['2d', '3d']), uGridTexDim: (0, schema_1.UniformSpec)('v3'), tGridTex: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uGridStats: (0, schema_1.UniformSpec)('v4'), uCellDim: (0, schema_1.UniformSpec)('v3'), uCartnToUnit: (0, schema_1.UniformSpec)('m4'), uUnitToCartn: (0, schema_1.UniformSpec)('m4'), dPackedGroup: (0, schema_1.DefineSpec)('boolean'), dAxisOrder: (0, schema_1.DefineSpec)('string', ['012', '021', '102', '120', '201', '210']), dIgnoreLight: (0, schema_1.DefineSpec)('boolean'), dXrayShaded: (0, schema_1.DefineSpec)('boolean') });
16
16
  function DirectVolumeRenderable(ctx, id, values, state, materialId, variants) {
17
- var schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.DirectVolumeSchema);
17
+ var schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.DirectVolumeSchema);
18
18
  if (!ctx.isWebGL2) {
19
19
  // workaround for webgl1 limitation that loop counters need to be `const`
20
20
  schema.uMaxSteps = (0, schema_1.DefineSpec)('number');
@@ -23,7 +23,7 @@ function DirectVolumeRenderable(ctx, id, values, state, materialId, variants) {
23
23
  uObjectId: mol_util_1.ValueCell.create(id),
24
24
  };
25
25
  var shaderCode = shader_code_1.DirectVolumeShaderCode;
26
- var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, (0, tslib_1.__assign)((0, tslib_1.__assign)({}, values), internalValues), materialId, variants);
26
+ var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, tslib_1.__assign(tslib_1.__assign({}, values), internalValues), materialId, variants);
27
27
  return (0, renderable_1.createRenderable)(renderItem, values, state);
28
28
  }
29
29
  exports.DirectVolumeRenderable = DirectVolumeRenderable;
@@ -13,14 +13,14 @@ var schema_1 = require("./schema");
13
13
  var shader_code_1 = require("../shader-code");
14
14
  var mol_util_1 = require("../../mol-util");
15
15
  var image_1 = require("../../mol-geo/geometry/image/image");
16
- exports.ImageSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.BaseSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), aUv: (0, schema_1.AttributeSpec)('float32', 2, 0), elements: (0, schema_1.ElementsSpec)('uint32'), uImageTexDim: (0, schema_1.UniformSpec)('v2'), tImageTex: (0, schema_1.TextureSpec)('image-uint8', 'rgba', 'ubyte', 'nearest'), tGroupTex: (0, schema_1.TextureSpec)('image-uint8', 'rgba', 'ubyte', 'nearest'), dInterpolation: (0, schema_1.DefineSpec)('string', image_1.InterpolationTypeNames) });
16
+ exports.ImageSchema = tslib_1.__assign(tslib_1.__assign({}, schema_1.BaseSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), aUv: (0, schema_1.AttributeSpec)('float32', 2, 0), elements: (0, schema_1.ElementsSpec)('uint32'), uImageTexDim: (0, schema_1.UniformSpec)('v2'), tImageTex: (0, schema_1.TextureSpec)('image-uint8', 'rgba', 'ubyte', 'nearest'), tGroupTex: (0, schema_1.TextureSpec)('image-uint8', 'rgba', 'ubyte', 'nearest'), dInterpolation: (0, schema_1.DefineSpec)('string', image_1.InterpolationTypeNames) });
17
17
  function ImageRenderable(ctx, id, values, state, materialId, variants) {
18
- var schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.ImageSchema);
18
+ var schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.ImageSchema);
19
19
  var internalValues = {
20
20
  uObjectId: mol_util_1.ValueCell.create(id),
21
21
  };
22
22
  var shaderCode = shader_code_1.ImageShaderCode;
23
- var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, (0, tslib_1.__assign)((0, tslib_1.__assign)({}, values), internalValues), materialId, variants);
23
+ var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, tslib_1.__assign(tslib_1.__assign({}, values), internalValues), materialId, variants);
24
24
  return (0, renderable_1.createRenderable)(renderItem, values, state);
25
25
  }
26
26
  exports.ImageRenderable = ImageRenderable;
@@ -12,14 +12,14 @@ var render_item_1 = require("../webgl/render-item");
12
12
  var schema_1 = require("./schema");
13
13
  var mol_util_1 = require("../../mol-util");
14
14
  var shader_code_1 = require("../shader-code");
15
- exports.LinesSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.BaseSchema), schema_1.SizeSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aMapping: (0, schema_1.AttributeSpec)('float32', 2, 0), aStart: (0, schema_1.AttributeSpec)('float32', 3, 0), aEnd: (0, schema_1.AttributeSpec)('float32', 3, 0), elements: (0, schema_1.ElementsSpec)('uint32'), dLineSizeAttenuation: (0, schema_1.DefineSpec)('boolean'), uDoubleSided: (0, schema_1.UniformSpec)('b'), dFlipSided: (0, schema_1.DefineSpec)('boolean') });
15
+ exports.LinesSchema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.BaseSchema), schema_1.SizeSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aMapping: (0, schema_1.AttributeSpec)('float32', 2, 0), aStart: (0, schema_1.AttributeSpec)('float32', 3, 0), aEnd: (0, schema_1.AttributeSpec)('float32', 3, 0), elements: (0, schema_1.ElementsSpec)('uint32'), dLineSizeAttenuation: (0, schema_1.DefineSpec)('boolean'), uDoubleSided: (0, schema_1.UniformSpec)('b'), dFlipSided: (0, schema_1.DefineSpec)('boolean') });
16
16
  function LinesRenderable(ctx, id, values, state, materialId, variants) {
17
- var schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.LinesSchema);
17
+ var schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.LinesSchema);
18
18
  var internalValues = {
19
19
  uObjectId: mol_util_1.ValueCell.create(id),
20
20
  };
21
21
  var shaderCode = shader_code_1.LinesShaderCode;
22
- var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, (0, tslib_1.__assign)((0, tslib_1.__assign)({}, values), internalValues), materialId, variants);
22
+ var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, tslib_1.__assign(tslib_1.__assign({}, values), internalValues), materialId, variants);
23
23
  return (0, renderable_1.createRenderable)(renderItem, values, state);
24
24
  }
25
25
  exports.LinesRenderable = LinesRenderable;
@@ -12,14 +12,14 @@ var render_item_1 = require("../webgl/render-item");
12
12
  var schema_1 = require("./schema");
13
13
  var shader_code_1 = require("../shader-code");
14
14
  var mol_util_1 = require("../../mol-util");
15
- exports.MeshSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.BaseSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), aNormal: (0, schema_1.AttributeSpec)('float32', 3, 0), elements: (0, schema_1.ElementsSpec)('uint32'), dFlatShaded: (0, schema_1.DefineSpec)('boolean'), uDoubleSided: (0, schema_1.UniformSpec)('b'), dFlipSided: (0, schema_1.DefineSpec)('boolean'), dIgnoreLight: (0, schema_1.DefineSpec)('boolean'), dXrayShaded: (0, schema_1.DefineSpec)('boolean'), uBumpFrequency: (0, schema_1.UniformSpec)('f'), uBumpAmplitude: (0, schema_1.UniformSpec)('f'), meta: (0, schema_1.ValueSpec)('unknown') });
15
+ exports.MeshSchema = tslib_1.__assign(tslib_1.__assign({}, schema_1.BaseSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), aNormal: (0, schema_1.AttributeSpec)('float32', 3, 0), elements: (0, schema_1.ElementsSpec)('uint32'), dFlatShaded: (0, schema_1.DefineSpec)('boolean'), uDoubleSided: (0, schema_1.UniformSpec)('b'), dFlipSided: (0, schema_1.DefineSpec)('boolean'), dIgnoreLight: (0, schema_1.DefineSpec)('boolean'), dXrayShaded: (0, schema_1.DefineSpec)('boolean'), uBumpFrequency: (0, schema_1.UniformSpec)('f'), uBumpAmplitude: (0, schema_1.UniformSpec)('f'), meta: (0, schema_1.ValueSpec)('unknown') });
16
16
  function MeshRenderable(ctx, id, values, state, materialId, variants) {
17
- var schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.MeshSchema);
17
+ var schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.MeshSchema);
18
18
  var internalValues = {
19
19
  uObjectId: mol_util_1.ValueCell.create(id),
20
20
  };
21
21
  var shaderCode = shader_code_1.MeshShaderCode;
22
- var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, (0, tslib_1.__assign)((0, tslib_1.__assign)({}, values), internalValues), materialId, variants);
22
+ var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'triangles', shaderCode, schema, tslib_1.__assign(tslib_1.__assign({}, values), internalValues), materialId, variants);
23
23
  return (0, renderable_1.createRenderable)(renderItem, values, state);
24
24
  }
25
25
  exports.MeshRenderable = MeshRenderable;
@@ -12,14 +12,14 @@ var render_item_1 = require("../webgl/render-item");
12
12
  var schema_1 = require("./schema");
13
13
  var shader_code_1 = require("../shader-code");
14
14
  var mol_util_1 = require("../../mol-util");
15
- exports.PointsSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.BaseSchema), schema_1.SizeSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), dPointSizeAttenuation: (0, schema_1.DefineSpec)('boolean'), dPointStyle: (0, schema_1.DefineSpec)('string', ['square', 'circle', 'fuzzy']) });
15
+ exports.PointsSchema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.BaseSchema), schema_1.SizeSchema), { aGroup: (0, schema_1.AttributeSpec)('float32', 1, 0), aPosition: (0, schema_1.AttributeSpec)('float32', 3, 0), dPointSizeAttenuation: (0, schema_1.DefineSpec)('boolean'), dPointStyle: (0, schema_1.DefineSpec)('string', ['square', 'circle', 'fuzzy']) });
16
16
  function PointsRenderable(ctx, id, values, state, materialId, variants) {
17
- var schema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.PointsSchema);
17
+ var schema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, schema_1.GlobalUniformSchema), schema_1.GlobalTextureSchema), schema_1.InternalSchema), exports.PointsSchema);
18
18
  var internalValues = {
19
19
  uObjectId: mol_util_1.ValueCell.create(id),
20
20
  };
21
21
  var shaderCode = shader_code_1.PointsShaderCode;
22
- var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'points', shaderCode, schema, (0, tslib_1.__assign)((0, tslib_1.__assign)({}, values), internalValues), materialId, variants);
22
+ var renderItem = (0, render_item_1.createGraphicsRenderItem)(ctx, 'points', shaderCode, schema, tslib_1.__assign(tslib_1.__assign({}, values), internalValues), materialId, variants);
23
23
  return (0, renderable_1.createRenderable)(renderItem, values, state);
24
24
  }
25
25
  exports.PointsRenderable = PointsRenderable;
@@ -176,7 +176,7 @@ exports.ClippingSchema = {
176
176
  tClipping: TextureSpec('image-uint8', 'alpha', 'ubyte', 'nearest'),
177
177
  dClipping: DefineSpec('boolean'),
178
178
  };
179
- exports.BaseSchema = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({ dGeometryType: DefineSpec('string', ['cylinders', 'directVolume', 'image', 'lines', 'mesh', 'points', 'spheres', 'text', 'textureMesh']) }, exports.ColorSchema), exports.MarkerSchema), exports.OverpaintSchema), exports.TransparencySchema), exports.SubstanceSchema), exports.ClippingSchema), { dLightCount: DefineSpec('number'), dClipObjectCount: DefineSpec('number'), dClipVariant: DefineSpec('string', ['instance', 'pixel']), uClipObjectType: UniformSpec('i[]'), uClipObjectInvert: UniformSpec('b[]'), uClipObjectPosition: UniformSpec('v3[]'), uClipObjectRotation: UniformSpec('v4[]'), uClipObjectScale: UniformSpec('v3[]'), aInstance: AttributeSpec('float32', 1, 1),
179
+ exports.BaseSchema = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({ dGeometryType: DefineSpec('string', ['cylinders', 'directVolume', 'image', 'lines', 'mesh', 'points', 'spheres', 'text', 'textureMesh']) }, exports.ColorSchema), exports.MarkerSchema), exports.OverpaintSchema), exports.TransparencySchema), exports.SubstanceSchema), exports.ClippingSchema), { dLightCount: DefineSpec('number'), dClipObjectCount: DefineSpec('number'), dClipVariant: DefineSpec('string', ['instance', 'pixel']), uClipObjectType: UniformSpec('i[]'), uClipObjectInvert: UniformSpec('b[]'), uClipObjectPosition: UniformSpec('v3[]'), uClipObjectRotation: UniformSpec('v4[]'), uClipObjectScale: UniformSpec('v3[]'), aInstance: AttributeSpec('float32', 1, 1),
180
180
  /**
181
181
  * final per-instance transform calculated for instance `i` as
182
182
  * `aTransform[i] = matrix * transform[i] * extraTransform[i]`