molstar 4.3.0 → 4.4.1
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-theme/color/operator-hkl.d.ts +2 -2
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- package/lib/mol-theme/color/unit-index.d.ts +2 -2
- package/lib/mol-theme/color/volume-segment.d.ts +2 -2
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- package/lib/mol-util/data-source.d.ts +0 -1
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- 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
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- package/package.json +197 -196
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marker =
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// TODO: support
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10
|
+
exports.directVolume_frag = `
|
|
11
|
+
precision highp float;
|
|
12
|
+
precision highp int;
|
|
13
|
+
|
|
14
|
+
#include common
|
|
15
|
+
#include light_frag_params
|
|
16
|
+
|
|
17
|
+
#if dClipObjectCount != 0
|
|
18
|
+
uniform int uClipObjectType[dClipObjectCount];
|
|
19
|
+
uniform bool uClipObjectInvert[dClipObjectCount];
|
|
20
|
+
uniform vec3 uClipObjectPosition[dClipObjectCount];
|
|
21
|
+
uniform vec4 uClipObjectRotation[dClipObjectCount];
|
|
22
|
+
uniform vec3 uClipObjectScale[dClipObjectCount];
|
|
23
|
+
#endif
|
|
24
|
+
#include common_clip
|
|
25
|
+
|
|
26
|
+
#include read_from_texture
|
|
27
|
+
#include texture3d_from_1d_trilinear
|
|
28
|
+
#include texture3d_from_2d_nearest
|
|
29
|
+
#include texture3d_from_2d_linear
|
|
30
|
+
|
|
31
|
+
uniform mat4 uProjection, uTransform, uModelView, uModel, uView;
|
|
32
|
+
uniform vec3 uCameraDir;
|
|
33
|
+
|
|
34
|
+
uniform sampler2D tDepth;
|
|
35
|
+
uniform vec2 uDrawingBufferSize;
|
|
36
|
+
|
|
37
|
+
varying vec3 vOrigPos;
|
|
38
|
+
varying float vInstance;
|
|
39
|
+
varying vec4 vBoundingSphere;
|
|
40
|
+
varying mat4 vTransform;
|
|
41
|
+
|
|
42
|
+
uniform mat4 uInvView;
|
|
43
|
+
uniform vec3 uGridDim;
|
|
44
|
+
uniform vec3 uBboxSize;
|
|
45
|
+
uniform sampler2D tTransferTex;
|
|
46
|
+
uniform float uTransferScale;
|
|
47
|
+
uniform float uStepScale;
|
|
48
|
+
uniform float uJumpLength;
|
|
49
|
+
|
|
50
|
+
uniform int uObjectId;
|
|
51
|
+
uniform int uVertexCount;
|
|
52
|
+
uniform int uInstanceCount;
|
|
53
|
+
uniform int uGroupCount;
|
|
54
|
+
|
|
55
|
+
#if defined(dColorMarker)
|
|
56
|
+
uniform vec3 uHighlightColor;
|
|
57
|
+
uniform vec3 uSelectColor;
|
|
58
|
+
uniform vec3 uDimColor;
|
|
59
|
+
uniform float uHighlightStrength;
|
|
60
|
+
uniform float uSelectStrength;
|
|
61
|
+
uniform float uDimStrength;
|
|
62
|
+
uniform int uMarkerPriority;
|
|
63
|
+
uniform float uMarkerAverage;
|
|
64
|
+
|
|
65
|
+
uniform float uMarker;
|
|
66
|
+
uniform vec2 uMarkerTexDim;
|
|
67
|
+
uniform sampler2D tMarker;
|
|
68
|
+
#endif
|
|
69
|
+
|
|
70
|
+
uniform float uMetalness;
|
|
71
|
+
uniform float uRoughness;
|
|
72
|
+
uniform float uEmissive;
|
|
73
|
+
|
|
74
|
+
uniform bool uFog;
|
|
75
|
+
uniform float uFogNear;
|
|
76
|
+
uniform float uFogFar;
|
|
77
|
+
uniform vec3 uFogColor;
|
|
78
|
+
|
|
79
|
+
uniform float uAlpha;
|
|
80
|
+
uniform bool uTransparentBackground;
|
|
81
|
+
uniform float uXrayEdgeFalloff;
|
|
82
|
+
uniform float uCelSteps;
|
|
83
|
+
uniform float uExposure;
|
|
84
|
+
|
|
85
|
+
uniform int uRenderMask;
|
|
86
|
+
|
|
87
|
+
uniform float uNear;
|
|
88
|
+
uniform float uFar;
|
|
89
|
+
uniform float uIsOrtho;
|
|
90
|
+
|
|
91
|
+
uniform vec3 uCellDim;
|
|
92
|
+
uniform vec3 uCameraPosition;
|
|
93
|
+
uniform mat4 uCartnToUnit;
|
|
94
|
+
|
|
95
|
+
#if __VERSION__ != 100
|
|
96
|
+
// for webgl1 this is given as a 'define'
|
|
97
|
+
uniform int uMaxSteps;
|
|
98
|
+
#endif
|
|
99
|
+
|
|
100
|
+
#if defined(dGridTexType_2d)
|
|
101
|
+
precision highp sampler2D;
|
|
102
|
+
uniform sampler2D tGridTex;
|
|
103
|
+
uniform vec3 uGridTexDim;
|
|
104
|
+
#elif defined(dGridTexType_3d)
|
|
105
|
+
precision highp sampler3D;
|
|
106
|
+
uniform sampler3D tGridTex;
|
|
107
|
+
#endif
|
|
108
|
+
|
|
109
|
+
#if defined(dColorType_uniform)
|
|
110
|
+
uniform vec3 uColor;
|
|
111
|
+
#elif defined(dColorType_texture)
|
|
112
|
+
uniform vec2 uColorTexDim;
|
|
113
|
+
uniform sampler2D tColor;
|
|
114
|
+
#endif
|
|
115
|
+
|
|
116
|
+
#ifdef dOverpaint
|
|
117
|
+
#if defined(dOverpaintType_groupInstance) || defined(dOverpaintType_vertexInstance)
|
|
118
|
+
uniform vec2 uOverpaintTexDim;
|
|
119
|
+
uniform sampler2D tOverpaint;
|
|
120
|
+
#endif
|
|
121
|
+
#endif
|
|
122
|
+
|
|
123
|
+
#ifdef dUsePalette
|
|
124
|
+
uniform sampler2D tPalette;
|
|
125
|
+
#endif
|
|
126
|
+
|
|
127
|
+
#if defined(dGridTexType_2d)
|
|
128
|
+
vec4 textureVal(vec3 pos) {
|
|
129
|
+
return texture3dFrom2dLinear(tGridTex, pos + (vec3(0.5, 0.5, 0.0) / uGridDim), uGridDim, uGridTexDim.xy);
|
|
130
|
+
}
|
|
131
|
+
vec4 textureGroup(vec3 pos) {
|
|
132
|
+
return texture3dFrom2dNearest(tGridTex, pos + (vec3(0.5, 0.5, 0.0) / uGridDim), uGridDim, uGridTexDim.xy);
|
|
133
|
+
}
|
|
134
|
+
#elif defined(dGridTexType_3d)
|
|
135
|
+
vec4 textureVal(vec3 pos) {
|
|
136
|
+
return texture(tGridTex, pos + (vec3(0.5) / uGridDim));
|
|
137
|
+
}
|
|
138
|
+
vec4 textureGroup(vec3 pos) {
|
|
139
|
+
return texelFetch(tGridTex, ivec3(pos * uGridDim), 0);
|
|
140
|
+
}
|
|
141
|
+
#endif
|
|
142
|
+
|
|
143
|
+
float calcDepth(const in vec3 pos) {
|
|
144
|
+
vec2 clipZW = pos.z * uProjection[2].zw + uProjection[3].zw;
|
|
145
|
+
return 0.5 + 0.5 * clipZW.x / clipZW.y;
|
|
146
|
+
}
|
|
147
|
+
|
|
148
|
+
float transferFunction(float value) {
|
|
149
|
+
return texture2D(tTransferTex, vec2(value, 0.0)).a;
|
|
150
|
+
}
|
|
151
|
+
|
|
152
|
+
float getDepth(const in vec2 coords) {
|
|
153
|
+
#ifdef depthTextureSupport
|
|
154
|
+
return texture2D(tDepth, coords).r;
|
|
155
|
+
#else
|
|
156
|
+
return unpackRGBAToDepth(texture2D(tDepth, coords));
|
|
157
|
+
#endif
|
|
158
|
+
}
|
|
159
|
+
|
|
160
|
+
const float gradOffset = 0.5;
|
|
161
|
+
|
|
162
|
+
vec3 v3m4(vec3 p, mat4 m) {
|
|
163
|
+
return (m * vec4(p, 1.0)).xyz;
|
|
164
|
+
}
|
|
165
|
+
|
|
166
|
+
float preFogAlphaBlended = 0.0;
|
|
167
|
+
|
|
168
|
+
vec4 raymarch(vec3 startLoc, vec3 step, vec3 rayDir) {
|
|
169
|
+
mat3 normalMatrix = transpose3(inverse3(mat3(uModelView * vTransform)));
|
|
170
|
+
mat4 cartnToUnit = uCartnToUnit * inverse4(vTransform);
|
|
171
|
+
#if defined(dClipVariant_pixel) && dClipObjectCount != 0
|
|
172
|
+
mat4 modelTransform = uModel * vTransform * uTransform;
|
|
173
|
+
#endif
|
|
174
|
+
mat4 modelViewTransform = uModelView * vTransform * uTransform;
|
|
175
|
+
|
|
176
|
+
vec3 scaleVol = vec3(1.0) / uGridDim;
|
|
177
|
+
vec3 pos = startLoc;
|
|
178
|
+
vec4 cell;
|
|
179
|
+
float prevValue = -1.0;
|
|
180
|
+
float value = 0.0;
|
|
181
|
+
vec4 src = vec4(0.0);
|
|
182
|
+
vec4 dst = vec4(0.0);
|
|
183
|
+
float fragmentDepth;
|
|
184
|
+
|
|
185
|
+
vec3 posMin = vec3(0.0);
|
|
186
|
+
vec3 posMax = vec3(1.0) - vec3(1.0) / uGridDim;
|
|
187
|
+
|
|
188
|
+
vec3 unitPos;
|
|
189
|
+
|
|
190
|
+
vec3 nextPos;
|
|
191
|
+
float nextValue;
|
|
192
|
+
|
|
193
|
+
vec4 material;
|
|
194
|
+
vec4 overpaint;
|
|
195
|
+
float metalness = uMetalness;
|
|
196
|
+
float roughness = uRoughness;
|
|
197
|
+
float emissive = uEmissive;
|
|
198
|
+
|
|
199
|
+
vec3 gradient = vec3(1.0);
|
|
200
|
+
vec3 dx = vec3(gradOffset * scaleVol.x, 0.0, 0.0);
|
|
201
|
+
vec3 dy = vec3(0.0, gradOffset * scaleVol.y, 0.0);
|
|
202
|
+
vec3 dz = vec3(0.0, 0.0, gradOffset * scaleVol.z);
|
|
203
|
+
|
|
204
|
+
float maxDist = min(vBoundingSphere.w * 2.0, uFar - uNear);
|
|
205
|
+
float maxDistSq = maxDist * maxDist;
|
|
206
|
+
|
|
207
|
+
for (int i = 0; i < uMaxSteps; ++i) {
|
|
208
|
+
// break when beyond bounding-sphere or far-plane
|
|
209
|
+
vec3 distVec = startLoc - pos;
|
|
210
|
+
if (dot(distVec, distVec) > maxDistSq) break;
|
|
211
|
+
|
|
212
|
+
unitPos = v3m4(pos, cartnToUnit);
|
|
213
|
+
|
|
214
|
+
// continue when outside of grid
|
|
215
|
+
if (unitPos.x > posMax.x || unitPos.y > posMax.y || unitPos.z > posMax.z ||
|
|
216
|
+
unitPos.x < posMin.x || unitPos.y < posMin.y || unitPos.z < posMin.z
|
|
217
|
+
) {
|
|
218
|
+
prevValue = value;
|
|
219
|
+
pos += step;
|
|
220
|
+
continue;
|
|
221
|
+
}
|
|
222
|
+
|
|
223
|
+
cell = textureVal(unitPos);
|
|
224
|
+
value = cell.a; // current voxel value
|
|
225
|
+
|
|
226
|
+
if (uJumpLength > 0.0 && value < 0.01) {
|
|
227
|
+
nextPos = pos + rayDir * uJumpLength;
|
|
228
|
+
nextValue = textureVal(v3m4(nextPos, cartnToUnit)).a;
|
|
229
|
+
if (nextValue < 0.01) {
|
|
230
|
+
prevValue = nextValue;
|
|
231
|
+
pos = nextPos;
|
|
232
|
+
continue;
|
|
233
|
+
}
|
|
234
|
+
}
|
|
235
|
+
|
|
236
|
+
vec4 mvPosition = modelViewTransform * vec4(unitPos * uGridDim, 1.0);
|
|
237
|
+
if (calcDepth(mvPosition.xyz) > getDepth(gl_FragCoord.xy / uDrawingBufferSize))
|
|
238
|
+
break;
|
|
239
|
+
|
|
240
|
+
#if defined(dClipVariant_pixel) && dClipObjectCount != 0
|
|
241
|
+
vec3 vModelPosition = v3m4(unitPos * uGridDim, modelTransform);
|
|
242
|
+
if (clipTest(vec4(vModelPosition, 0.0))) {
|
|
243
|
+
prevValue = value;
|
|
244
|
+
pos += step;
|
|
245
|
+
continue;
|
|
246
|
+
}
|
|
247
|
+
#endif
|
|
248
|
+
|
|
249
|
+
vec3 vViewPosition = mvPosition.xyz;
|
|
250
|
+
material.a = transferFunction(value);
|
|
251
|
+
|
|
252
|
+
#ifdef dPackedGroup
|
|
253
|
+
float group = unpackRGBToInt(textureGroup(floor(unitPos * uGridDim + 0.5) / uGridDim).rgb);
|
|
254
|
+
#else
|
|
255
|
+
vec3 g = floor(unitPos * uGridDim + 0.5);
|
|
256
|
+
// note that we swap x and z because the texture is flipped around y
|
|
257
|
+
#if defined(dAxisOrder_012)
|
|
258
|
+
float group = g.z + g.y * uGridDim.z + g.x * uGridDim.z * uGridDim.y; // 210
|
|
259
|
+
#elif defined(dAxisOrder_021)
|
|
260
|
+
float group = g.y + g.z * uGridDim.y + g.x * uGridDim.y * uGridDim.z; // 120
|
|
261
|
+
#elif defined(dAxisOrder_102)
|
|
262
|
+
float group = g.z + g.x * uGridDim.z + g.y * uGridDim.z * uGridDim.x; // 201
|
|
263
|
+
#elif defined(dAxisOrder_120)
|
|
264
|
+
float group = g.x + g.z * uGridDim.x + g.y * uGridDim.x * uGridDim.z; // 021
|
|
265
|
+
#elif defined(dAxisOrder_201)
|
|
266
|
+
float group = g.y + g.x * uGridDim.y + g.z * uGridDim.y * uGridDim.x; // 102
|
|
267
|
+
#elif defined(dAxisOrder_210)
|
|
268
|
+
float group = g.x + g.y * uGridDim.x + g.z * uGridDim.x * uGridDim.y; // 012
|
|
269
|
+
#endif
|
|
270
|
+
#endif
|
|
271
|
+
|
|
272
|
+
#if defined(dColorType_direct) && defined(dUsePalette)
|
|
273
|
+
material.rgb = texture2D(tPalette, vec2(value, 0.0)).rgb;
|
|
274
|
+
#elif defined(dColorType_uniform)
|
|
275
|
+
material.rgb = uColor;
|
|
276
|
+
#elif defined(dColorType_instance)
|
|
277
|
+
material.rgb = readFromTexture(tColor, vInstance, uColorTexDim).rgb;
|
|
278
|
+
#elif defined(dColorType_group)
|
|
279
|
+
material.rgb = readFromTexture(tColor, group, uColorTexDim).rgb;
|
|
280
|
+
#elif defined(dColorType_groupInstance)
|
|
281
|
+
material.rgb = readFromTexture(tColor, vInstance * float(uGroupCount) + group, uColorTexDim).rgb;
|
|
282
|
+
#elif defined(dColorType_vertex)
|
|
283
|
+
material.rgb = texture3dFrom1dTrilinear(tColor, unitPos, uGridDim, uColorTexDim, 0.0).rgb;
|
|
284
|
+
#elif defined(dColorType_vertexInstance)
|
|
285
|
+
material.rgb = texture3dFrom1dTrilinear(tColor, unitPos, uGridDim, uColorTexDim, vInstance * float(uVertexCount)).rgb;
|
|
286
|
+
#endif
|
|
287
|
+
|
|
288
|
+
#ifdef dOverpaint
|
|
289
|
+
#if defined(dOverpaintType_groupInstance)
|
|
290
|
+
overpaint = readFromTexture(tOverpaint, vInstance * float(uGroupCount) + group, uOverpaintTexDim);
|
|
291
|
+
#elif defined(dOverpaintType_vertexInstance)
|
|
292
|
+
overpaint = texture3dFrom1dTrilinear(tOverpaint, unitPos, uGridDim, uOverpaintTexDim, vInstance * float(uVertexCount));
|
|
293
|
+
#endif
|
|
294
|
+
|
|
295
|
+
material.rgb = mix(material.rgb, overpaint.rgb, overpaint.a);
|
|
296
|
+
#endif
|
|
297
|
+
|
|
298
|
+
#if defined(dIgnoreLight)
|
|
299
|
+
gl_FragColor.rgb = material.rgb;
|
|
300
|
+
#else
|
|
301
|
+
if (material.a >= 0.01) {
|
|
302
|
+
#ifdef dPackedGroup
|
|
303
|
+
// compute gradient by central differences
|
|
304
|
+
gradient.x = textureVal(unitPos - dx).a - textureVal(unitPos + dx).a;
|
|
305
|
+
gradient.y = textureVal(unitPos - dy).a - textureVal(unitPos + dy).a;
|
|
306
|
+
gradient.z = textureVal(unitPos - dz).a - textureVal(unitPos + dz).a;
|
|
307
|
+
#else
|
|
308
|
+
gradient = cell.xyz * 2.0 - 1.0;
|
|
309
|
+
#endif
|
|
310
|
+
vec3 normal = -normalize(normalMatrix * normalize(gradient));
|
|
311
|
+
#include apply_light_color
|
|
312
|
+
} else {
|
|
313
|
+
gl_FragColor.rgb = material.rgb;
|
|
314
|
+
}
|
|
315
|
+
#endif
|
|
316
|
+
|
|
317
|
+
gl_FragColor.a = material.a * uAlpha * uTransferScale;
|
|
318
|
+
|
|
319
|
+
#if defined(dColorMarker)
|
|
320
|
+
float marker = uMarker;
|
|
321
|
+
if (uMarker == -1.0) {
|
|
322
|
+
marker = readFromTexture(tMarker, vInstance * float(uGroupCount) + group, uMarkerTexDim).a;
|
|
323
|
+
marker = floor(marker * 255.0 + 0.5); // rounding required to work on some cards on win
|
|
324
|
+
}
|
|
325
|
+
#endif
|
|
326
|
+
#include apply_marker_color
|
|
327
|
+
|
|
328
|
+
preFogAlphaBlended = (1.0 - preFogAlphaBlended) * gl_FragColor.a + preFogAlphaBlended;
|
|
329
|
+
fragmentDepth = calcDepth(mvPosition.xyz);
|
|
330
|
+
#include apply_fog
|
|
331
|
+
|
|
332
|
+
src = gl_FragColor;
|
|
333
|
+
|
|
334
|
+
if (!uTransparentBackground) {
|
|
335
|
+
// done in 'apply_fog' otherwise
|
|
336
|
+
src.rgb *= src.a;
|
|
337
|
+
}
|
|
338
|
+
dst = (1.0 - dst.a) * src + dst; // standard blending
|
|
339
|
+
|
|
340
|
+
// break if the color is opaque enough
|
|
341
|
+
if (dst.a > 0.95)
|
|
342
|
+
break;
|
|
343
|
+
|
|
344
|
+
pos += step;
|
|
345
|
+
}
|
|
346
|
+
|
|
347
|
+
return dst;
|
|
348
|
+
}
|
|
349
|
+
|
|
350
|
+
// TODO: support float texture for higher precision values???
|
|
351
|
+
// TODO: support clipping exclusion texture support
|
|
352
|
+
|
|
353
|
+
void main() {
|
|
354
|
+
#if defined(dRenderVariant_emissive)
|
|
355
|
+
discard;
|
|
356
|
+
#else
|
|
357
|
+
if (gl_FrontFacing)
|
|
358
|
+
discard;
|
|
359
|
+
|
|
360
|
+
vec3 rayDir = mix(normalize(vOrigPos - uCameraPosition), uCameraDir, uIsOrtho);
|
|
361
|
+
vec3 step = rayDir * uStepScale;
|
|
362
|
+
|
|
363
|
+
float boundingSphereNear = distance(vBoundingSphere.xyz, uCameraPosition) - vBoundingSphere.w;
|
|
364
|
+
float d = max(uNear, boundingSphereNear) - mix(0.0, distance(vOrigPos, uCameraPosition), uIsOrtho);
|
|
365
|
+
vec3 start = mix(uCameraPosition, vOrigPos, uIsOrtho) + (d * rayDir);
|
|
366
|
+
gl_FragColor = raymarch(start, step, rayDir);
|
|
367
|
+
|
|
368
|
+
float fragmentDepth = calcDepth((uModelView * vec4(start, 1.0)).xyz);
|
|
369
|
+
float preFogAlpha = clamp(preFogAlphaBlended, 0.0, 1.0);
|
|
370
|
+
#include wboit_write
|
|
371
|
+
#endif
|
|
372
|
+
}
|
|
372
373
|
`;
|