molstar 4.3.0 → 4.4.0
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.
- package/LICENSE +20 -20
- package/README.md +197 -197
- package/build/viewer/embedded.html +52 -52
- package/build/viewer/index.html +129 -129
- package/build/viewer/molstar.css +1 -1
- package/build/viewer/molstar.js +1 -1
- package/build/viewer/molstar.js.LICENSE.txt +0 -9
- package/lib/apps/docking-viewer/index.html +36 -36
- package/lib/apps/docking-viewer/viewport.d.ts +1 -1
- package/lib/apps/docking-viewer/viewport.js +2 -1
- package/lib/apps/mesoscale-explorer/app.d.ts +3 -1
- package/lib/apps/mesoscale-explorer/app.js +12 -1
- package/lib/apps/mesoscale-explorer/behavior/camera.d.ts +12 -0
- package/lib/apps/mesoscale-explorer/behavior/camera.js +32 -6
- package/lib/apps/mesoscale-explorer/behavior/select.d.ts +1 -0
- package/lib/apps/mesoscale-explorer/behavior/select.js +58 -9
- package/lib/apps/mesoscale-explorer/data/cellpack/model.js +4 -6
- package/lib/apps/mesoscale-explorer/data/cellpack/preset.js +8 -5
- package/lib/apps/mesoscale-explorer/data/generic/model.d.ts +1 -0
- package/lib/apps/mesoscale-explorer/data/generic/model.js +2 -1
- package/lib/apps/mesoscale-explorer/data/generic/preset.js +7 -6
- package/lib/apps/mesoscale-explorer/data/mmcif/model.js +3 -1
- package/lib/apps/mesoscale-explorer/data/mmcif/preset.js +6 -3
- package/lib/apps/mesoscale-explorer/data/petworld/model.js +3 -1
- package/lib/apps/mesoscale-explorer/data/petworld/preset.js +6 -3
- package/lib/apps/mesoscale-explorer/data/state.d.ts +48 -10
- package/lib/apps/mesoscale-explorer/data/state.js +83 -8
- package/lib/apps/mesoscale-explorer/index.html +106 -101
- package/lib/apps/mesoscale-explorer/style.scss +66 -33
- package/lib/apps/mesoscale-explorer/ui/entities.d.ts +23 -1
- package/lib/apps/mesoscale-explorer/ui/entities.js +301 -32
- package/lib/apps/mesoscale-explorer/ui/panels.d.ts +1 -0
- package/lib/apps/mesoscale-explorer/ui/panels.js +42 -5
- package/lib/apps/mesoscale-explorer/ui/states.d.ts +60 -2
- package/lib/apps/mesoscale-explorer/ui/states.js +471 -11
- package/lib/apps/viewer/app.d.ts +10 -4
- package/lib/apps/viewer/app.js +28 -0
- package/lib/apps/viewer/embedded.html +52 -52
- package/lib/apps/viewer/index.html +129 -129
- package/lib/cli/chem-comp-dict/create-ions.js +9 -9
- package/lib/cli/chem-comp-dict/create-saccharides.js +9 -9
- package/lib/cli/cifschema/util/generate.js +12 -12
- package/lib/cli/lipid-params/index.js +9 -9
- package/lib/commonjs/apps/docking-viewer/viewport.d.ts +1 -1
- package/lib/commonjs/apps/docking-viewer/viewport.js +2 -1
- package/lib/commonjs/apps/mesoscale-explorer/app.d.ts +3 -1
- package/lib/commonjs/apps/mesoscale-explorer/app.js +12 -1
- package/lib/commonjs/apps/mesoscale-explorer/behavior/camera.d.ts +12 -0
- package/lib/commonjs/apps/mesoscale-explorer/behavior/camera.js +34 -8
- package/lib/commonjs/apps/mesoscale-explorer/behavior/select.d.ts +1 -0
- package/lib/commonjs/apps/mesoscale-explorer/behavior/select.js +58 -9
- package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/model.js +4 -6
- package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/preset.js +8 -6
- package/lib/commonjs/apps/mesoscale-explorer/data/generic/model.d.ts +1 -0
- package/lib/commonjs/apps/mesoscale-explorer/data/generic/model.js +2 -1
- package/lib/commonjs/apps/mesoscale-explorer/data/generic/preset.js +9 -9
- package/lib/commonjs/apps/mesoscale-explorer/data/mmcif/model.js +3 -1
- package/lib/commonjs/apps/mesoscale-explorer/data/mmcif/preset.js +6 -4
- package/lib/commonjs/apps/mesoscale-explorer/data/petworld/model.js +3 -1
- package/lib/commonjs/apps/mesoscale-explorer/data/petworld/preset.js +6 -4
- package/lib/commonjs/apps/mesoscale-explorer/data/state.d.ts +48 -10
- package/lib/commonjs/apps/mesoscale-explorer/data/state.js +107 -28
- package/lib/commonjs/apps/mesoscale-explorer/data/util.js +2 -3
- package/lib/commonjs/apps/mesoscale-explorer/ui/entities.d.ts +23 -1
- package/lib/commonjs/apps/mesoscale-explorer/ui/entities.js +302 -30
- package/lib/commonjs/apps/mesoscale-explorer/ui/panels.d.ts +1 -0
- package/lib/commonjs/apps/mesoscale-explorer/ui/panels.js +39 -2
- package/lib/commonjs/apps/mesoscale-explorer/ui/states.d.ts +60 -2
- package/lib/commonjs/apps/mesoscale-explorer/ui/states.js +477 -13
- package/lib/commonjs/apps/viewer/app.d.ts +10 -4
- package/lib/commonjs/apps/viewer/app.js +28 -0
- package/lib/commonjs/cli/chem-comp-dict/create-ions.js +9 -9
- package/lib/commonjs/cli/chem-comp-dict/create-saccharides.js +9 -9
- package/lib/commonjs/cli/chem-comp-dict/util.js +7 -7
- package/lib/commonjs/cli/cif2bcif/converter.js +1 -2
- package/lib/commonjs/cli/cifschema/util/cif-dic.js +2 -3
- package/lib/commonjs/cli/cifschema/util/generate.js +13 -14
- package/lib/commonjs/cli/cifschema/util/helper.js +1 -2
- package/lib/commonjs/cli/cifschema/util/schema.js +9 -10
- package/lib/commonjs/cli/lipid-params/index.js +9 -9
- package/lib/commonjs/cli/state-docs/pd-to-md.js +1 -2
- package/lib/commonjs/cli/structure-info/helpers.js +2 -3
- package/lib/commonjs/cli/structure-info/model.js +11 -12
- package/lib/commonjs/examples/alpha-orbitals/controls.js +1 -2
- package/lib/commonjs/examples/alpha-orbitals/example-data.js +160 -160
- package/lib/commonjs/examples/basic-wrapper/custom-theme.js +2 -2
- package/lib/commonjs/examples/basic-wrapper/superposition.js +3 -3
- package/lib/commonjs/examples/domain-annotation-server/mapping.js +1 -2
- package/lib/commonjs/examples/lighting/index.d.ts +1 -1
- package/lib/commonjs/examples/lighting/index.js +2 -1
- package/lib/commonjs/examples/proteopedia-wrapper/coloring.d.ts +5 -20
- package/lib/commonjs/examples/proteopedia-wrapper/coloring.js +1 -2
- package/lib/commonjs/examples/proteopedia-wrapper/ui/controls.js +1 -2
- package/lib/commonjs/examples/task.js +6 -6
- package/lib/commonjs/extensions/alpha-orbitals/collocation.js +1 -2
- package/lib/commonjs/extensions/alpha-orbitals/data-model.js +4 -5
- package/lib/commonjs/extensions/alpha-orbitals/density.js +2 -3
- package/lib/commonjs/extensions/alpha-orbitals/gpu/compute.js +2 -3
- package/lib/commonjs/extensions/alpha-orbitals/gpu/shader.frag.js +136 -136
- package/lib/commonjs/extensions/alpha-orbitals/orbitals.js +2 -3
- package/lib/commonjs/extensions/alpha-orbitals/spherical-functions.js +2 -2
- package/lib/commonjs/extensions/alpha-orbitals/transforms.d.ts +3 -3
- package/lib/commonjs/extensions/anvil/algorithm.js +5 -5
- package/lib/commonjs/extensions/anvil/behavior.d.ts +1 -0
- package/lib/commonjs/extensions/anvil/behavior.js +2 -2
- package/lib/commonjs/extensions/anvil/representation.d.ts +4 -0
- package/lib/commonjs/extensions/anvil/representation.js +3 -3
- package/lib/commonjs/extensions/assembly-symmetry/behavior.d.ts +1 -0
- package/lib/commonjs/extensions/assembly-symmetry/behavior.js +3 -3
- package/lib/commonjs/extensions/assembly-symmetry/color.d.ts +2 -2
- package/lib/commonjs/extensions/assembly-symmetry/color.js +3 -3
- package/lib/commonjs/extensions/assembly-symmetry/prop.js +27 -27
- package/lib/commonjs/extensions/assembly-symmetry/representation.d.ts +1 -0
- package/lib/commonjs/extensions/assembly-symmetry/representation.js +2 -2
- package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.js +7 -7
- package/lib/commonjs/extensions/dnatco/confal-pyramids/color.js +3 -3
- package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.d.ts +3 -0
- package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.js +3 -3
- package/lib/commonjs/extensions/dnatco/ntc-tube/behavior.js +7 -7
- package/lib/commonjs/extensions/dnatco/ntc-tube/color.js +3 -3
- package/lib/commonjs/extensions/dnatco/ntc-tube/representation.d.ts +3 -0
- package/lib/commonjs/extensions/dnatco/ntc-tube/representation.js +3 -3
- package/lib/commonjs/extensions/g3d/data.js +2 -3
- package/lib/commonjs/extensions/g3d/format.d.ts +3 -3
- package/lib/commonjs/extensions/g3d/model.js +5 -5
- package/lib/commonjs/extensions/geo-export/mesh-exporter.d.ts +2 -2
- package/lib/commonjs/extensions/geo-export/ui.d.ts +0 -1
- package/lib/commonjs/extensions/geo-export/usdz-exporter.js +41 -41
- package/lib/commonjs/extensions/meshes/examples.js +9 -9
- package/lib/commonjs/extensions/meshes/mesh-extension.d.ts +3 -6
- package/lib/commonjs/extensions/meshes/mesh-extension.js +2 -2
- package/lib/commonjs/extensions/meshes/mesh-streaming/behavior.d.ts +3 -3
- package/lib/commonjs/extensions/meshes/mesh-streaming/server-info.d.ts +3 -3
- package/lib/commonjs/extensions/meshes/mesh-utils.js +9 -9
- package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.d.ts +1 -1
- package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.js +11 -8
- package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.js +3 -3
- package/lib/commonjs/extensions/model-export/export.js +2 -2
- package/lib/commonjs/extensions/model-export/ui.d.ts +0 -1
- package/lib/commonjs/extensions/mp4-export/controls.d.ts +1 -1
- package/lib/commonjs/extensions/mp4-export/encoder.js +1 -2
- package/lib/commonjs/extensions/mp4-export/ui.d.ts +0 -1
- package/lib/commonjs/extensions/mvs/camera.js +4 -5
- package/lib/commonjs/extensions/mvs/components/annotation-color-theme.js +2 -2
- package/lib/commonjs/extensions/mvs/components/annotation-label/representation.d.ts +32 -32
- package/lib/commonjs/extensions/mvs/components/annotation-label/representation.js +2 -2
- package/lib/commonjs/extensions/mvs/components/annotation-label/visual.d.ts +16 -16
- package/lib/commonjs/extensions/mvs/components/annotation-label/visual.js +2 -2
- package/lib/commonjs/extensions/mvs/components/annotation-prop.js +2 -2
- package/lib/commonjs/extensions/mvs/components/annotation-structure-component.js +4 -4
- package/lib/commonjs/extensions/mvs/components/custom-label/representation.d.ts +32 -32
- package/lib/commonjs/extensions/mvs/components/custom-label/representation.js +2 -2
- package/lib/commonjs/extensions/mvs/components/custom-label/visual.d.ts +16 -16
- package/lib/commonjs/extensions/mvs/components/custom-label/visual.js +2 -2
- package/lib/commonjs/extensions/mvs/components/formats.d.ts +6 -6
- package/lib/commonjs/extensions/mvs/components/formats.js +2 -2
- package/lib/commonjs/extensions/mvs/components/is-mvs-model-prop.js +3 -3
- package/lib/commonjs/extensions/mvs/components/multilayer-color-theme.js +3 -3
- package/lib/commonjs/extensions/mvs/components/selector.js +3 -3
- package/lib/commonjs/extensions/mvs/helpers/indexing.d.ts +2 -2
- package/lib/commonjs/extensions/mvs/helpers/label-text.js +1 -2
- package/lib/commonjs/extensions/mvs/helpers/param-definition.js +2 -3
- package/lib/commonjs/extensions/mvs/helpers/schemas.d.ts +1 -1
- package/lib/commonjs/extensions/mvs/helpers/schemas.js +2 -2
- package/lib/commonjs/extensions/mvs/helpers/selections.js +6 -7
- package/lib/commonjs/extensions/mvs/helpers/utils.d.ts +1 -1
- package/lib/commonjs/extensions/mvs/helpers/utils.js +7 -7
- package/lib/commonjs/extensions/mvs/load-helpers.d.ts +1 -1
- package/lib/commonjs/extensions/mvs/load-helpers.js +17 -17
- package/lib/commonjs/extensions/mvs/load.js +1 -2
- package/lib/commonjs/extensions/mvs/tree/generic/params-schema.js +8 -8
- package/lib/commonjs/extensions/mvs/tree/generic/tree-schema.js +8 -9
- package/lib/commonjs/extensions/mvs/tree/generic/tree-utils.js +10 -11
- package/lib/commonjs/extensions/mvs/tree/molstar/conversion.js +4 -4
- package/lib/commonjs/extensions/mvs/tree/mvs/mvs-builder.d.ts +0 -8
- package/lib/commonjs/extensions/mvs/tree/mvs/mvs-builder.js +3 -3
- package/lib/commonjs/extensions/pdbe/structure-quality-report/color.js +2 -2
- package/lib/commonjs/extensions/rcsb/validation-report/color/density-fit.js +2 -2
- package/lib/commonjs/extensions/rcsb/validation-report/color/geometry-quality.js +3 -3
- package/lib/commonjs/extensions/rcsb/validation-report/color/random-coil-index.js +2 -2
- package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts +5 -0
- package/lib/commonjs/extensions/rcsb/validation-report/representation.js +5 -5
- package/lib/commonjs/extensions/sb-ncbr/partial-charges/color.js +3 -3
- package/lib/commonjs/extensions/sb-ncbr/partial-charges/labels.js +1 -2
- package/lib/commonjs/extensions/sb-ncbr/partial-charges/property.js +2 -2
- package/lib/commonjs/extensions/sb-ncbr/tunnels/algorithm.js +2 -3
- package/lib/commonjs/extensions/sb-ncbr/tunnels/behavior.js +2 -2
- package/lib/commonjs/extensions/sb-ncbr/tunnels/data-model.d.ts +6 -6
- package/lib/commonjs/extensions/sb-ncbr/tunnels/examples.js +3 -3
- package/lib/commonjs/extensions/sb-ncbr/tunnels/props.js +2 -2
- package/lib/commonjs/extensions/volumes-and-segmentations/entry-root.d.ts +3 -3
- package/lib/commonjs/extensions/volumes-and-segmentations/entry-root.js +3 -3
- package/lib/commonjs/extensions/volumes-and-segmentations/entry-state.d.ts +3 -3
- package/lib/commonjs/extensions/volumes-and-segmentations/external-api.js +2 -3
- package/lib/commonjs/extensions/volumes-and-segmentations/global-state.d.ts +3 -3
- package/lib/commonjs/extensions/volumes-and-segmentations/helpers.js +6 -6
- package/lib/commonjs/extensions/volumes-and-segmentations/ui.d.ts +0 -1
- package/lib/commonjs/extensions/zenodo/ui.d.ts +0 -1
- package/lib/commonjs/mol-canvas3d/camera/transition.d.ts +1 -1
- package/lib/commonjs/mol-canvas3d/camera/transition.js +23 -6
- package/lib/commonjs/mol-canvas3d/camera/util.js +3 -4
- package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +9 -1
- package/lib/commonjs/mol-canvas3d/helper/bounding-sphere-helper.d.ts +1 -6
- package/lib/commonjs/mol-canvas3d/helper/camera-helper.js +2 -2
- package/lib/commonjs/mol-canvas3d/helper/handle-helper.d.ts +1 -0
- package/lib/commonjs/mol-canvas3d/helper/handle-helper.js +2 -2
- package/lib/commonjs/mol-canvas3d/helper/helper.d.ts +2 -0
- package/lib/commonjs/mol-canvas3d/passes/image.d.ts +2 -0
- package/lib/commonjs/mol-canvas3d/passes/multi-sample.d.ts +2 -1
- package/lib/commonjs/mol-canvas3d/passes/multi-sample.js +4 -3
- package/lib/commonjs/mol-canvas3d/passes/postprocessing.d.ts +1 -0
- package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +7 -2
- package/lib/commonjs/mol-canvas3d/util.js +3 -4
- package/lib/commonjs/mol-data/db/column-helpers.js +6 -7
- package/lib/commonjs/mol-data/db/column.d.ts +1 -1
- package/lib/commonjs/mol-data/generic/hash-set.js +1 -2
- package/lib/commonjs/mol-data/generic/linked-list.js +1 -2
- package/lib/commonjs/mol-data/int/impl/interval.js +15 -15
- package/lib/commonjs/mol-data/int/impl/ordered-set.js +25 -25
- package/lib/commonjs/mol-data/int/impl/segmentation.js +7 -7
- package/lib/commonjs/mol-data/int/impl/sorted-array.js +31 -31
- package/lib/commonjs/mol-data/int/linked-index.js +1 -2
- package/lib/commonjs/mol-data/util/array.js +5 -6
- package/lib/commonjs/mol-data/util/buckets.js +1 -2
- package/lib/commonjs/mol-data/util/combination.js +2 -2
- package/lib/commonjs/mol-data/util/equivalence-classes.js +2 -2
- package/lib/commonjs/mol-data/util/grouping.js +2 -3
- package/lib/commonjs/mol-data/util/hash-functions.js +9 -10
- package/lib/commonjs/mol-data/util/sort.js +5 -6
- package/lib/commonjs/mol-geo/geometry/base.d.ts +1 -1
- package/lib/commonjs/mol-geo/geometry/base.js +3 -3
- package/lib/commonjs/mol-geo/geometry/clipping-data.js +4 -5
- package/lib/commonjs/mol-geo/geometry/color-data.js +4 -5
- package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +1 -0
- package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +3 -0
- package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.d.ts +1 -0
- package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +3 -0
- package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.js +3 -4
- package/lib/commonjs/mol-geo/geometry/emissive-data.js +5 -6
- package/lib/commonjs/mol-geo/geometry/image/image.d.ts +1 -1
- package/lib/commonjs/mol-geo/geometry/marker-data.js +3 -4
- package/lib/commonjs/mol-geo/geometry/mesh/builder/axes.js +1 -2
- package/lib/commonjs/mol-geo/geometry/mesh/builder/box.js +2 -3
- package/lib/commonjs/mol-geo/geometry/mesh/builder/cylinder.js +4 -5
- package/lib/commonjs/mol-geo/geometry/mesh/builder/ellipsoid.js +1 -2
- package/lib/commonjs/mol-geo/geometry/mesh/builder/ribbon.js +1 -2
- package/lib/commonjs/mol-geo/geometry/mesh/builder/sheet.js +1 -2
- package/lib/commonjs/mol-geo/geometry/mesh/builder/sphere.js +2 -3
- package/lib/commonjs/mol-geo/geometry/mesh/builder/tube.js +1 -2
- package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.js +7 -8
- package/lib/commonjs/mol-geo/geometry/mesh/mesh.d.ts +1 -0
- package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +3 -0
- package/lib/commonjs/mol-geo/geometry/overpaint-data.js +4 -5
- package/lib/commonjs/mol-geo/geometry/points/points.d.ts +1 -1
- package/lib/commonjs/mol-geo/geometry/size-data.js +9 -9
- package/lib/commonjs/mol-geo/geometry/spheres/spheres.d.ts +1 -0
- package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +3 -0
- package/lib/commonjs/mol-geo/geometry/substance-data.js +4 -5
- package/lib/commonjs/mol-geo/geometry/text/font-atlas.js +3 -3
- package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.js +7 -7
- package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +1 -0
- package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +3 -0
- package/lib/commonjs/mol-geo/geometry/transform-data.js +4 -5
- package/lib/commonjs/mol-geo/geometry/transparency-data.js +5 -6
- package/lib/commonjs/mol-geo/primitive/box.js +3 -4
- package/lib/commonjs/mol-geo/primitive/cage.js +3 -4
- package/lib/commonjs/mol-geo/primitive/circle.js +2 -2
- package/lib/commonjs/mol-geo/primitive/cylinder.js +2 -2
- package/lib/commonjs/mol-geo/primitive/dodecahedron.js +3 -3
- package/lib/commonjs/mol-geo/primitive/icosahedron.js +2 -3
- package/lib/commonjs/mol-geo/primitive/octahedron.js +4 -4
- package/lib/commonjs/mol-geo/primitive/plane.js +2 -3
- package/lib/commonjs/mol-geo/primitive/polygon.js +1 -2
- package/lib/commonjs/mol-geo/primitive/polyhedron.js +2 -2
- package/lib/commonjs/mol-geo/primitive/primitive.js +4 -5
- package/lib/commonjs/mol-geo/primitive/prism.js +11 -11
- package/lib/commonjs/mol-geo/primitive/pyramid.js +6 -7
- package/lib/commonjs/mol-geo/primitive/sphere.js +2 -3
- package/lib/commonjs/mol-geo/primitive/spiked-ball.js +1 -2
- package/lib/commonjs/mol-geo/primitive/star.js +2 -2
- package/lib/commonjs/mol-geo/primitive/tetrahedron.js +3 -3
- package/lib/commonjs/mol-geo/primitive/torus.js +2 -2
- package/lib/commonjs/mol-geo/primitive/wedge.js +3 -4
- package/lib/commonjs/mol-geo/util/location-iterator.js +3 -4
- package/lib/commonjs/mol-geo/util/marching-cubes/algorithm.js +2 -3
- package/lib/commonjs/mol-geo/util/marching-cubes/builder.js +2 -3
- package/lib/commonjs/mol-geo/util/marching-cubes/tables.js +3 -3
- package/lib/commonjs/mol-geo/util.js +7 -8
- package/lib/commonjs/mol-gl/compute/grid3d.js +2 -3
- package/lib/commonjs/mol-gl/compute/hi-z.js +1 -2
- package/lib/commonjs/mol-gl/compute/histogram-pyramid/reduction.js +1 -2
- package/lib/commonjs/mol-gl/compute/histogram-pyramid/sum.js +1 -2
- package/lib/commonjs/mol-gl/compute/marching-cubes/active-voxels.js +1 -2
- package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.js +2 -3
- package/lib/commonjs/mol-gl/compute/marching-cubes/tables.js +2 -3
- package/lib/commonjs/mol-gl/compute/util.js +5 -5
- package/lib/commonjs/mol-gl/render-object.js +3 -3
- package/lib/commonjs/mol-gl/renderable/cylinders.d.ts +1 -0
- package/lib/commonjs/mol-gl/renderable/cylinders.js +3 -2
- package/lib/commonjs/mol-gl/renderable/direct-volume.d.ts +1 -0
- package/lib/commonjs/mol-gl/renderable/direct-volume.js +3 -2
- package/lib/commonjs/mol-gl/renderable/image.js +2 -2
- package/lib/commonjs/mol-gl/renderable/lines.js +2 -2
- package/lib/commonjs/mol-gl/renderable/mesh.d.ts +1 -0
- package/lib/commonjs/mol-gl/renderable/mesh.js +3 -2
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- package/lib/mol-gl/shader/spheres.frag.js +148 -148
- package/lib/mol-gl/shader/spheres.vert.js +132 -132
- package/lib/mol-gl/shader/ssao-blur.frag.d.ts +1 -1
- package/lib/mol-gl/shader/ssao-blur.frag.js +100 -97
- package/lib/mol-gl/shader/ssao.frag.js +211 -211
- package/lib/mol-gl/shader/text.frag.js +85 -85
- package/lib/mol-gl/shader/text.vert.js +85 -85
- package/lib/mol-gl/shader/util/grid3d-template.frag.js +46 -46
- package/lib/mol-gl/shader-code.js +16 -16
- package/lib/mol-gl/webgl/compat.js +12 -12
- package/lib/mol-gl/webgl/render-item.d.ts +2 -2
- package/lib/mol-io/common/simple-buffer.d.ts +0 -1
- package/lib/mol-io/reader/cif/schema/bird.d.ts +1 -1
- package/lib/mol-io/reader/cif/schema/bird.js +1 -1
- package/lib/mol-io/reader/cif/schema/ccd.d.ts +1 -1
- package/lib/mol-io/reader/cif/schema/ccd.js +1 -1
- package/lib/mol-io/reader/cif/schema/mmcif.d.ts +9 -1
- package/lib/mol-io/reader/cif/schema/mmcif.js +9 -1
- package/lib/mol-io/reader/common/text/column/fixed.d.ts +1 -1
- package/lib/mol-io/reader/common/text/column/token.d.ts +1 -1
- package/lib/mol-io/reader/ply/schema.d.ts +1 -1
- package/lib/mol-model/loci.d.ts +1 -1
- package/lib/mol-model/sequence/alignment/alignment.d.ts +2 -1
- package/lib/mol-model/structure/model/types/saccharides.js +1 -1
- package/lib/mol-model/structure/model/types.d.ts +3 -3
- package/lib/mol-model/structure/query/queries/generators.js +2 -2
- package/lib/mol-model/structure/structure/properties.d.ts +1 -0
- package/lib/mol-model/structure/structure/properties.js +1 -0
- package/lib/mol-model/volume/volume.d.ts +6 -6
- package/lib/mol-model-formats/shape/ply.d.ts +2 -0
- package/lib/mol-model-formats/structure/basic/schema.d.ts +1 -0
- package/lib/mol-model-formats/structure/common/entity.d.ts +1 -0
- package/lib/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts +1 -0
- package/lib/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts +1 -0
- package/lib/mol-model-props/computed/representations/interactions.d.ts +3 -0
- package/lib/mol-model-props/integrative/cross-link-restraint/representation.d.ts +4 -0
- package/lib/mol-model-props/sequence/themes/sifts-mapping.d.ts +2 -2
- package/lib/mol-plugin/behavior/behavior.d.ts +9 -9
- package/lib/mol-plugin/behavior/dynamic/volume-streaming/behavior.d.ts +3 -3
- package/lib/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +4 -4
- package/lib/mol-plugin/commands.d.ts +23 -87
- package/lib/mol-plugin/context.d.ts +3 -2
- package/lib/mol-plugin/context.js +4 -2
- package/lib/mol-plugin/state.d.ts +7 -7
- package/lib/mol-plugin/util/headless-screenshot.d.ts +1 -1
- package/lib/mol-plugin/util/headless-screenshot.js +3 -1
- package/lib/mol-plugin/util/viewport-screenshot.d.ts +1 -1
- package/lib/mol-plugin/util/viewport-screenshot.js +2 -1
- package/lib/mol-plugin/version.js +2 -2
- package/lib/mol-plugin-state/actions/volume.d.ts +1 -1
- package/lib/mol-plugin-state/actions/volume.js +4 -12
- package/lib/mol-plugin-state/animation/built-in/model-index.d.ts +2 -2
- package/lib/mol-plugin-state/formats/registry.d.ts +1 -1
- package/lib/mol-plugin-state/formats/trajectory.d.ts +9 -9
- package/lib/mol-plugin-state/formats/volume.d.ts +0 -1
- package/lib/mol-plugin-state/manager/structure/hierarchy.d.ts +3 -3
- package/lib/mol-plugin-state/manager/structure/measurement.d.ts +4 -0
- package/lib/mol-plugin-state/objects.d.ts +97 -97
- package/lib/mol-plugin-state/transforms/data.d.ts +10 -1
- package/lib/mol-plugin-state/transforms/data.js +30 -1
- package/lib/mol-plugin-state/transforms/representation.d.ts +6 -0
- package/lib/mol-plugin-ui/base.js +2 -1
- package/lib/mol-plugin-ui/controls/icons.d.ts +5 -0
- package/lib/mol-plugin-ui/controls/icons.js +10 -0
- package/lib/mol-plugin-ui/controls/parameters.d.ts +3 -3
- package/lib/mol-plugin-ui/controls.js +1 -1
- package/lib/mol-plugin-ui/left-panel.d.ts +0 -1
- package/lib/mol-plugin-ui/plugin.js +3 -2
- package/lib/mol-plugin-ui/skin/base/base.scss +37 -37
- package/lib/mol-plugin-ui/skin/base/components/controls-base.scss +333 -333
- package/lib/mol-plugin-ui/skin/base/components/controls.scss +451 -445
- package/lib/mol-plugin-ui/skin/base/components/help.scss +27 -27
- package/lib/mol-plugin-ui/skin/base/components/line-graph.scss +67 -67
- package/lib/mol-plugin-ui/skin/base/components/log.scss +100 -100
- package/lib/mol-plugin-ui/skin/base/components/misc.scss +663 -663
- package/lib/mol-plugin-ui/skin/base/components/sequence.scss +125 -125
- package/lib/mol-plugin-ui/skin/base/components/slider.scss +165 -165
- package/lib/mol-plugin-ui/skin/base/components/tasks.scss +99 -99
- package/lib/mol-plugin-ui/skin/base/components/toast.scss +83 -83
- package/lib/mol-plugin-ui/skin/base/components/transformer.scss +163 -163
- package/lib/mol-plugin-ui/skin/base/components/viewport.scss +194 -194
- package/lib/mol-plugin-ui/skin/base/layout/common.scss +71 -71
- package/lib/mol-plugin-ui/skin/base/layout/controls-landscape.scss +89 -89
- package/lib/mol-plugin-ui/skin/base/layout/controls-outside.scss +98 -98
- package/lib/mol-plugin-ui/skin/base/layout/controls-portrait.scss +108 -108
- package/lib/mol-plugin-ui/skin/base/layout.scss +40 -40
- package/lib/mol-plugin-ui/skin/base/logo.scss +12 -12
- package/lib/mol-plugin-ui/skin/base/normalize.scss +209 -209
- package/lib/mol-plugin-ui/skin/base/ui.scss +40 -40
- package/lib/mol-plugin-ui/skin/base/variables.scss +88 -88
- package/lib/mol-plugin-ui/skin/blue.scss +1 -1
- package/lib/mol-plugin-ui/skin/colors/blue.scss +23 -23
- package/lib/mol-plugin-ui/skin/colors/dark.scss +23 -23
- package/lib/mol-plugin-ui/skin/colors/light.scss +29 -29
- package/lib/mol-plugin-ui/skin/dark.scss +1 -1
- package/lib/mol-plugin-ui/skin/light.scss +1 -1
- package/lib/mol-plugin-ui/spec.d.ts +10 -10
- package/lib/mol-plugin-ui/spec.js +1 -1
- package/lib/mol-plugin-ui/state/apply-action.d.ts +1 -1
- package/lib/mol-plugin-ui/state/update-transform.d.ts +1 -1
- package/lib/mol-plugin-ui/structure/quick-styles.d.ts +2 -1
- package/lib/mol-plugin-ui/structure/quick-styles.js +5 -2
- package/lib/mol-plugin-ui/structure/selection.d.ts +2 -2
- package/lib/mol-repr/representation.d.ts +3 -3
- package/lib/mol-repr/shape/loci/angle.d.ts +1 -0
- package/lib/mol-repr/shape/loci/dihedral.d.ts +1 -0
- package/lib/mol-repr/shape/loci/orientation.d.ts +1 -0
- package/lib/mol-repr/shape/loci/plane.d.ts +1 -0
- package/lib/mol-repr/shape/model/unitcell.d.ts +1 -0
- package/lib/mol-repr/structure/complex-visual.d.ts +5 -0
- package/lib/mol-repr/structure/params.d.ts +5 -0
- package/lib/mol-repr/structure/registry.d.ts +11 -0
- package/lib/mol-repr/structure/representation/backbone.d.ts +3 -0
- package/lib/mol-repr/structure/representation/ball-and-stick.d.ts +3 -0
- package/lib/mol-repr/structure/representation/carbohydrate.d.ts +3 -0
- package/lib/mol-repr/structure/representation/cartoon.d.ts +3 -0
- package/lib/mol-repr/structure/representation/ellipsoid.d.ts +3 -0
- package/lib/mol-repr/structure/representation/gaussian-surface.d.ts +3 -0
- package/lib/mol-repr/structure/representation/gaussian-volume.d.ts +3 -0
- package/lib/mol-repr/structure/representation/molecular-surface.d.ts +3 -0
- package/lib/mol-repr/structure/representation/orientation.d.ts +3 -0
- package/lib/mol-repr/structure/representation/putty.d.ts +3 -0
- package/lib/mol-repr/structure/representation/spacefill.d.ts +3 -0
- package/lib/mol-repr/structure/units-visual.d.ts +5 -0
- package/lib/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +2 -0
- package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +2 -0
- package/lib/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +1 -0
- package/lib/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +1 -0
- package/lib/mol-repr/structure/visual/element-sphere.d.ts +4 -0
- package/lib/mol-repr/structure/visual/ellipsoid-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/gaussian-density-volume.d.ts +2 -0
- package/lib/mol-repr/structure/visual/gaussian-surface-mesh.d.ts +4 -0
- package/lib/mol-repr/structure/visual/molecular-surface-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/nucleotide-atomic-bond.d.ts +2 -0
- package/lib/mol-repr/structure/visual/nucleotide-atomic-element.d.ts +2 -0
- package/lib/mol-repr/structure/visual/nucleotide-atomic-ring-fill.d.ts +1 -0
- package/lib/mol-repr/structure/visual/nucleotide-block-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts +2 -0
- package/lib/mol-repr/structure/visual/polymer-backbone-sphere.d.ts +2 -0
- package/lib/mol-repr/structure/visual/polymer-direction-wedge.d.ts +1 -0
- package/lib/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +1 -0
- package/lib/mol-repr/structure/visual/polymer-trace-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/polymer-tube-mesh.d.ts +1 -0
- package/lib/mol-repr/structure/visual/util/nucleotide.d.ts +60 -60
- package/lib/mol-repr/volume/direct-volume.d.ts +48 -45
- package/lib/mol-repr/volume/isosurface.d.ts +95 -90
- package/lib/mol-repr/volume/registry.d.ts +63 -60
- package/lib/mol-repr/volume/segment.d.ts +80 -75
- package/lib/mol-repr/volume/slice.d.ts +45 -45
- package/lib/mol-script/language/symbol-table/core.d.ts +1 -1
- package/lib/mol-state/object.d.ts +4 -4
- package/lib/mol-state/state.d.ts +4 -4
- package/lib/mol-state/transform.d.ts +1 -1
- package/lib/mol-state/transformer.d.ts +1 -1
- package/lib/mol-task/util/scheduler.d.ts +0 -1
- package/lib/mol-theme/color/atom-id.d.ts +2 -2
- package/lib/mol-theme/color/chain-id.d.ts +2 -2
- package/lib/mol-theme/color/element-index.d.ts +2 -2
- package/lib/mol-theme/color/entity-id.d.ts +2 -2
- package/lib/mol-theme/color/entity-source.d.ts +2 -2
- package/lib/mol-theme/color/external-volume.d.ts +2 -2
- package/lib/mol-theme/color/model-index.d.ts +2 -2
- package/lib/mol-theme/color/operator-hkl.d.ts +2 -2
- package/lib/mol-theme/color/operator-name.d.ts +2 -2
- package/lib/mol-theme/color/polymer-id.d.ts +2 -2
- package/lib/mol-theme/color/polymer-index.d.ts +2 -2
- package/lib/mol-theme/color/structure-index.d.ts +2 -2
- package/lib/mol-theme/color/trajectory-index.d.ts +2 -2
- package/lib/mol-theme/color/unit-index.d.ts +2 -2
- package/lib/mol-theme/color/volume-segment.d.ts +2 -2
- package/lib/mol-theme/color.d.ts +16 -16
- package/lib/mol-theme/theme.d.ts +3 -3
- package/lib/mol-util/color/palette.d.ts +4 -3
- package/lib/mol-util/color/scale.d.ts +2 -1
- package/lib/mol-util/data-source.d.ts +0 -1
- package/lib/mol-util/nodejs-shims.d.ts +1 -1
- package/lib/servers/common/swagger-ui/indexTemplate.js +66 -66
- package/lib/servers/model/config.d.ts +4 -4
- package/lib/servers/model/utils/tar.d.ts +0 -1
- package/lib/servers/volume/common/binary-schema.d.ts +0 -1
- package/lib/servers/volume/common/data-format.d.ts +0 -1
- package/lib/servers/volume/config.d.ts +1 -5
- package/lib/servers/volume/config.js +5 -5
- package/package.json +197 -196
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exports.SpikedBall =
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exports.SpikedBall = SpikedBall;
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exports.
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exports.Star = Star;
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exports.Star = Star;
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exports.
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exports.tetrahedronIndices = exports.tetrahedronVertices = void 0;
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exports.Tetrahedron = Tetrahedron;
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exports.TetrahedronCage = TetrahedronCage;
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const primitive_1 = require("./primitive");
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const cage_1 = require("./cage");
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exports.tetrahedronVertices = [
|
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@@ -24,9 +26,7 @@ function Tetrahedron() {
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tetrahedron = (0, primitive_1.createPrimitive)(exports.tetrahedronVertices, exports.tetrahedronIndices);
|
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}
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|
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exports.Tetrahedron = Tetrahedron;
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const tetrahedronCage = (0, cage_1.createCage)(exports.tetrahedronVertices, tetrahedronEdges);
|
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function TetrahedronCage() {
|
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|
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exports.TetrahedronCage = TetrahedronCage;
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exports.
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exports.DefaultTorusProps = void 0;
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exports.Torus = Torus;
|
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|
// adapted from three.js, MIT License Copyright 2010-2021 three.js authors
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const linear_algebra_1 = require("../../mol-math/linear-algebra");
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exports.DefaultTorusProps = {
|
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@@ -59,4 +60,3 @@ function Torus(props) {
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indices: new Uint32Array(indices)
|
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};
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exports.Torus = Torus;
|
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Object.defineProperty(exports, "__esModule", { value: true });
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|
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exports.
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|
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exports.createWedge = createWedge;
|
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|
+
exports.Wedge = Wedge;
|
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|
+
exports.WedgeCage = WedgeCage;
|
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|
const linear_algebra_1 = require("../../mol-math/linear-algebra");
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const primitive_1 = require("./primitive");
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const polygon_1 = require("./polygon");
|
|
@@ -38,18 +40,15 @@ function createWedge() {
|
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|
builder.add(a, b, c);
|
|
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|
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|
|
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|
}
|
|
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|
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exports.createWedge = createWedge;
|
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|
let wedge;
|
|
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44
|
function Wedge() {
|
|
44
45
|
if (!wedge)
|
|
45
46
|
wedge = createWedge();
|
|
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47
|
return wedge;
|
|
47
48
|
}
|
|
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|
-
exports.Wedge = Wedge;
|
|
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49
|
let wedgeCage;
|
|
50
50
|
function WedgeCage() {
|
|
51
51
|
if (!wedgeCage)
|
|
52
52
|
wedgeCage = (0, prism_1.PrismCage)(points);
|
|
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53
|
return wedgeCage;
|
|
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|
}
|
|
55
|
-
exports.WedgeCage = WedgeCage;
|
|
@@ -7,7 +7,9 @@
|
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|
7
7
|
* @author Cai Huiyu <szmun.caihy@gmail.com>
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8
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|
*/
|
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9
|
Object.defineProperty(exports, "__esModule", { value: true });
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|
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exports.
|
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10
|
+
exports.LocationIterator = LocationIterator;
|
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11
|
+
exports.PositionLocation = PositionLocation;
|
|
12
|
+
exports.isPositionLocation = isPositionLocation;
|
|
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13
|
const linear_algebra_1 = require("../../mol-math/linear-algebra");
|
|
12
14
|
const location_1 = require("../../mol-model/location");
|
|
13
15
|
function LocationIterator(groupCount, instanceCount, stride, getLocation, nonInstanceable = false, isSecondary = () => false, getLocation2) {
|
|
@@ -85,7 +87,6 @@ function LocationIterator(groupCount, instanceCount, stride, getLocation, nonIns
|
|
|
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87
|
}
|
|
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|
};
|
|
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89
|
}
|
|
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|
-
exports.LocationIterator = LocationIterator;
|
|
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90
|
function PositionLocation(position, normal) {
|
|
90
91
|
return {
|
|
91
92
|
kind: 'position-location',
|
|
@@ -93,8 +94,6 @@ function PositionLocation(position, normal) {
|
|
|
93
94
|
normal: normal ? linear_algebra_1.Vec3.clone(normal) : (0, linear_algebra_1.Vec3)()
|
|
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95
|
};
|
|
95
96
|
}
|
|
96
|
-
exports.PositionLocation = PositionLocation;
|
|
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97
|
function isPositionLocation(x) {
|
|
98
98
|
return !!x && x.kind === 'position-location';
|
|
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99
|
}
|
|
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|
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exports.isPositionLocation = isPositionLocation;
|
|
@@ -6,7 +6,8 @@
|
|
|
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|
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|
|
7
7
|
*/
|
|
8
8
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
9
|
-
exports.
|
|
9
|
+
exports.computeMarchingCubesMesh = computeMarchingCubesMesh;
|
|
10
|
+
exports.computeMarchingCubesLines = computeMarchingCubesLines;
|
|
10
11
|
const mol_task_1 = require("../../../mol-task");
|
|
11
12
|
const tables_1 = require("./tables");
|
|
12
13
|
const mol_util_1 = require("../../../mol-util");
|
|
@@ -36,7 +37,6 @@ function computeMarchingCubesMesh(params, mesh) {
|
|
|
36
37
|
return builder.get();
|
|
37
38
|
});
|
|
38
39
|
}
|
|
39
|
-
exports.computeMarchingCubesMesh = computeMarchingCubesMesh;
|
|
40
40
|
function computeMarchingCubesLines(params, lines) {
|
|
41
41
|
return mol_task_1.Task.create('Marching Cubes Lines', async (ctx) => {
|
|
42
42
|
const inputParams = getInputParams(params);
|
|
@@ -48,7 +48,6 @@ function computeMarchingCubesLines(params, lines) {
|
|
|
48
48
|
return builder.get();
|
|
49
49
|
});
|
|
50
50
|
}
|
|
51
|
-
exports.computeMarchingCubesLines = computeMarchingCubesLines;
|
|
52
51
|
class MarchingCubesComputation {
|
|
53
52
|
async doSlices() {
|
|
54
53
|
let done = 0;
|
|
@@ -7,7 +7,8 @@
|
|
|
7
7
|
* @author Fred Ludlow <fred.ludlow@gmail.com>
|
|
8
8
|
*/
|
|
9
9
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
10
|
-
exports.
|
|
10
|
+
exports.MarchinCubesMeshBuilder = MarchinCubesMeshBuilder;
|
|
11
|
+
exports.MarchinCubesLinesBuilder = MarchinCubesLinesBuilder;
|
|
11
12
|
const util_1 = require("../../../mol-data/util");
|
|
12
13
|
const mol_util_1 = require("../../../mol-util");
|
|
13
14
|
const mesh_1 = require("../../geometry/mesh/mesh");
|
|
@@ -50,7 +51,6 @@ function MarchinCubesMeshBuilder(vertexChunkSize, mesh) {
|
|
|
50
51
|
}
|
|
51
52
|
};
|
|
52
53
|
}
|
|
53
|
-
exports.MarchinCubesMeshBuilder = MarchinCubesMeshBuilder;
|
|
54
54
|
function MarchinCubesLinesBuilder(vertexChunkSize, lines) {
|
|
55
55
|
const vertices = util_1.ChunkedArray.create(Float32Array, 3, vertexChunkSize);
|
|
56
56
|
const groups = util_1.ChunkedArray.create(Float32Array, 1, vertexChunkSize);
|
|
@@ -96,4 +96,3 @@ function MarchinCubesLinesBuilder(vertexChunkSize, lines) {
|
|
|
96
96
|
}
|
|
97
97
|
};
|
|
98
98
|
}
|
|
99
|
-
exports.MarchinCubesLinesBuilder = MarchinCubesLinesBuilder;
|
|
@@ -6,11 +6,11 @@
|
|
|
6
6
|
* @author Fred Ludlow <fred.ludlow@gmail.com>
|
|
7
7
|
*/
|
|
8
8
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
9
|
-
exports.AllowedContours = exports.TriTable = exports.EdgeTable = exports.EdgeIdInfo = exports.CubeEdges = exports.CubeVertices = exports.EdgesYZ = exports.EdgesXZ = exports.EdgesXY =
|
|
10
|
-
function Index(i, j, k) { return { i, j, k }; }
|
|
9
|
+
exports.AllowedContours = exports.TriTable = exports.EdgeTable = exports.EdgeIdInfo = exports.CubeEdges = exports.CubeVertices = exports.EdgesYZ = exports.EdgesXZ = exports.EdgesXY = void 0;
|
|
11
10
|
exports.Index = Index;
|
|
12
|
-
function IndexPair(a, b) { return { a, b }; }
|
|
13
11
|
exports.IndexPair = IndexPair;
|
|
12
|
+
function Index(i, j, k) { return { i, j, k }; }
|
|
13
|
+
function IndexPair(a, b) { return { a, b }; }
|
|
14
14
|
exports.EdgesXY = [
|
|
15
15
|
[],
|
|
16
16
|
[0, 3],
|
|
@@ -5,7 +5,13 @@
|
|
|
5
5
|
* @author Alexander Rose <alexander.rose@weirdbyte.de>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.normalizeVec3Array = normalizeVec3Array;
|
|
9
|
+
exports.transformPositionArray = transformPositionArray;
|
|
10
|
+
exports.transformDirectionArray = transformDirectionArray;
|
|
11
|
+
exports.appplyRadius = appplyRadius;
|
|
12
|
+
exports.computeIndexedVertexNormals = computeIndexedVertexNormals;
|
|
13
|
+
exports.computeVertexNormals = computeVertexNormals;
|
|
14
|
+
exports.createGroupMapping = createGroupMapping;
|
|
9
15
|
const linear_algebra_1 = require("../mol-math/linear-algebra");
|
|
10
16
|
const array_1 = require("../mol-util/array");
|
|
11
17
|
function normalizeVec3Array(a, count) {
|
|
@@ -20,7 +26,6 @@ function normalizeVec3Array(a, count) {
|
|
|
20
26
|
}
|
|
21
27
|
return a;
|
|
22
28
|
}
|
|
23
|
-
exports.normalizeVec3Array = normalizeVec3Array;
|
|
24
29
|
const tmpV3 = (0, linear_algebra_1.Vec3)();
|
|
25
30
|
function transformPositionArray(t, array, offset, count) {
|
|
26
31
|
for (let i = 0, il = count * 3; i < il; i += 3) {
|
|
@@ -29,7 +34,6 @@ function transformPositionArray(t, array, offset, count) {
|
|
|
29
34
|
linear_algebra_1.Vec3.toArray(tmpV3, array, offset + i);
|
|
30
35
|
}
|
|
31
36
|
}
|
|
32
|
-
exports.transformPositionArray = transformPositionArray;
|
|
33
37
|
function transformDirectionArray(n, array, offset, count) {
|
|
34
38
|
for (let i = 0, il = count * 3; i < il; i += 3) {
|
|
35
39
|
linear_algebra_1.Vec3.fromArray(tmpV3, array, offset + i);
|
|
@@ -37,7 +41,6 @@ function transformDirectionArray(n, array, offset, count) {
|
|
|
37
41
|
linear_algebra_1.Vec3.toArray(tmpV3, array, offset + i);
|
|
38
42
|
}
|
|
39
43
|
}
|
|
40
|
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exports.transformDirectionArray = transformDirectionArray;
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/** iterate over the entire array and apply the radius to each vertex */
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/**
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/**
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* @author David Sehnal <david.sehnal@gmail.com>
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*/
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.
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exports.createGrid3dComputeRenderable = createGrid3dComputeRenderable;
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const grid3d_template_frag_1 = require("../shader/util/grid3d-template.frag");
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function canComputeGrid3dOnGPU(webgl) {
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exports.canComputeGrid3dOnGPU = canComputeGrid3dOnGPU;
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const FrameBufferName = 'grid3d-computable';
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const Texture0Name = 'grid3d-computable-0';
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* @author Alexander Rose <alexander.rose@weirdbyte.de>
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*/
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.createHiZRenderable =
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exports.createHiZRenderable = createHiZRenderable;
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const vec2_1 = require("../../mol-math/linear-algebra/3d/vec2");
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const value_cell_1 = require("../../mol-util/value-cell");
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exports.createHiZRenderable = createHiZRenderable;
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*/
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.createHistogramPyramid =
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exports.createHistogramPyramid = createHistogramPyramid;
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exports.createHistogramPyramid = createHistogramPyramid;
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* @author Alexander Rose <alexander.rose@weirdbyte.de>
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*/
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.getHistopyramidSum =
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+
exports.getHistopyramidSum = getHistopyramidSum;
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const renderable_1 = require("../../renderable");
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const render_item_1 = require("../../webgl/render-item");
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@@ -85,4 +85,3 @@ function getHistopyramidSum(ctx, pyramidTopTexture) {
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? sumInts[0]
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: (0, number_packing_1.unpackRGBToInt)(sumBytes[0], sumBytes[1], sumBytes[2]);
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}
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|
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exports.getHistopyramidSum = getHistopyramidSum;
|
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@@ -5,7 +5,7 @@
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* @author Alexander Rose <alexander.rose@weirdbyte.de>
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6
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*/
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7
7
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Object.defineProperty(exports, "__esModule", { value: true });
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8
|
-
exports.calcActiveVoxels =
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8
|
+
exports.calcActiveVoxels = calcActiveVoxels;
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9
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const renderable_1 = require("../../renderable");
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const render_item_1 = require("../../webgl/render-item");
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const schema_1 = require("../../renderable/schema");
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@@ -102,4 +102,3 @@ function calcActiveVoxels(ctx, volumeData, gridDim, gridTexDim, isoValue, gridSc
|
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102
|
ctx.timer.markEnd('calcActiveVoxels');
|
|
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103
|
return activeVoxelsTex;
|
|
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|
}
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|
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|
-
exports.calcActiveVoxels = calcActiveVoxels;
|
|
@@ -5,7 +5,8 @@
|
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5
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* @author Alexander Rose <alexander.rose@weirdbyte.de>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.createIsosurfaceBuffers = createIsosurfaceBuffers;
|
|
9
|
+
exports.extractIsosurface = extractIsosurface;
|
|
9
10
|
const renderable_1 = require("../../renderable");
|
|
10
11
|
const render_item_1 = require("../../webgl/render-item");
|
|
11
12
|
const schema_1 = require("../../renderable/schema");
|
|
@@ -168,7 +169,6 @@ function createIsosurfaceBuffers(ctx, activeVoxelsBase, volumeData, histogramPyr
|
|
|
168
169
|
// printTextureImage(readTexture(ctx, normalTexture, new Float32Array(width * height * 4)), { scale: 0.75, normalize: true });
|
|
169
170
|
return { vertexTexture, groupTexture, normalTexture, vertexCount: count };
|
|
170
171
|
}
|
|
171
|
-
exports.createIsosurfaceBuffers = createIsosurfaceBuffers;
|
|
172
172
|
//
|
|
173
173
|
/**
|
|
174
174
|
* GPU isosurface extraction
|
|
@@ -189,4 +189,3 @@ function extractIsosurface(ctx, volumeData, gridDim, gridTexDim, gridTexScale, t
|
|
|
189
189
|
ctx.timer.markEnd('extractIsosurface');
|
|
190
190
|
return gv;
|
|
191
191
|
}
|
|
192
|
-
exports.extractIsosurface = extractIsosurface;
|
|
@@ -5,7 +5,8 @@
|
|
|
5
5
|
* @author Alexander Rose <alexander.rose@weirdbyte.de>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.getTriCount = getTriCount;
|
|
9
|
+
exports.getTriIndices = getTriIndices;
|
|
9
10
|
const tables_1 = require("../../../mol-geo/util/marching-cubes/tables");
|
|
10
11
|
const util_1 = require("../../../mol-gl/renderable/util");
|
|
11
12
|
let TriCount;
|
|
@@ -19,7 +20,6 @@ function getTriCount() {
|
|
|
19
20
|
}
|
|
20
21
|
return TriCount;
|
|
21
22
|
}
|
|
22
|
-
exports.getTriCount = getTriCount;
|
|
23
23
|
let TriIndices;
|
|
24
24
|
function getTriIndices() {
|
|
25
25
|
if (TriIndices !== undefined)
|
|
@@ -38,4 +38,3 @@ function getTriIndices() {
|
|
|
38
38
|
}
|
|
39
39
|
return TriIndices;
|
|
40
40
|
}
|
|
41
|
-
exports.getTriIndices = getTriIndices;
|
|
@@ -5,7 +5,11 @@
|
|
|
5
5
|
* @author Alexander Rose <alexander.rose@weirdbyte.de>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.QuadValues = exports.QuadSchema = exports.QuadPositions = void 0;
|
|
9
|
+
exports.createCopyRenderable = createCopyRenderable;
|
|
10
|
+
exports.getSharedCopyRenderable = getSharedCopyRenderable;
|
|
11
|
+
exports.readTexture = readTexture;
|
|
12
|
+
exports.readAlphaTexture = readAlphaTexture;
|
|
9
13
|
const texture_1 = require("../../mol-gl/webgl/texture");
|
|
10
14
|
const mol_util_1 = require("../../mol-util");
|
|
11
15
|
const schema_1 = require("../../mol-gl/renderable/schema");
|
|
@@ -48,7 +52,6 @@ function createCopyRenderable(ctx, texture) {
|
|
|
48
52
|
const renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', CopyShaderCode, schema, values);
|
|
49
53
|
return (0, renderable_1.createComputeRenderable)(renderItem, values);
|
|
50
54
|
}
|
|
51
|
-
exports.createCopyRenderable = createCopyRenderable;
|
|
52
55
|
const SharedCopyName = 'shared-copy';
|
|
53
56
|
function getSharedCopyRenderable(ctx, texture) {
|
|
54
57
|
if (!ctx.namedComputeRenderables[SharedCopyName]) {
|
|
@@ -60,7 +63,6 @@ function getSharedCopyRenderable(ctx, texture) {
|
|
|
60
63
|
copy.update();
|
|
61
64
|
return copy;
|
|
62
65
|
}
|
|
63
|
-
exports.getSharedCopyRenderable = getSharedCopyRenderable;
|
|
64
66
|
//
|
|
65
67
|
const ReadTextureName = 'read-texture';
|
|
66
68
|
const ReadAlphaTextureName = 'read-alpha-texture';
|
|
@@ -81,7 +83,6 @@ function readTexture(ctx, texture, array) {
|
|
|
81
83
|
ctx.readPixels(0, 0, width, height, array);
|
|
82
84
|
return { array, width, height };
|
|
83
85
|
}
|
|
84
|
-
exports.readTexture = readTexture;
|
|
85
86
|
function readAlphaTexture(ctx, texture) {
|
|
86
87
|
const { gl, state, resources } = ctx;
|
|
87
88
|
if (texture.type !== gl.UNSIGNED_BYTE)
|
|
@@ -117,4 +118,3 @@ function readAlphaTexture(ctx, texture) {
|
|
|
117
118
|
ctx.readPixels(0, 0, width, height, array);
|
|
118
119
|
return { array, width, height };
|
|
119
120
|
}
|
|
120
|
-
exports.readAlphaTexture = readAlphaTexture;
|
|
@@ -5,7 +5,9 @@
|
|
|
5
5
|
* @author Alexander Rose <alexander.rose@weirdbyte.de>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.getNextMaterialId = void 0;
|
|
9
|
+
exports.createRenderObject = createRenderObject;
|
|
10
|
+
exports.createRenderable = createRenderable;
|
|
9
11
|
const id_factory_1 = require("../mol-util/id-factory");
|
|
10
12
|
const direct_volume_1 = require("./renderable/direct-volume");
|
|
11
13
|
const mesh_1 = require("./renderable/mesh");
|
|
@@ -22,7 +24,6 @@ exports.getNextMaterialId = (0, id_factory_1.idFactory)(0, 0x7FFFFFFF);
|
|
|
22
24
|
function createRenderObject(type, values, state, materialId) {
|
|
23
25
|
return { id: getNextId(), type, values, state, materialId };
|
|
24
26
|
}
|
|
25
|
-
exports.createRenderObject = createRenderObject;
|
|
26
27
|
function createRenderable(ctx, o, transparency) {
|
|
27
28
|
switch (o.type) {
|
|
28
29
|
case 'mesh': return (0, mesh_1.MeshRenderable)(ctx, o.id, o.values, o.state, o.materialId, transparency);
|
|
@@ -37,4 +38,3 @@ function createRenderable(ctx, o, transparency) {
|
|
|
37
38
|
}
|
|
38
39
|
throw new Error('unsupported type');
|
|
39
40
|
}
|
|
40
|
-
exports.createRenderable = createRenderable;
|