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
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- 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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* @author Alexander Rose <alexander.rose@weirdbyte.de>
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@@ -54,7 +61,6 @@ function SegmentVisual(materialId, volume, key, props, webgl) {
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@@ -78,7 +84,6 @@ function eachSegment(loci, volume, key, props, apply) {
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return (0, util_1.eachVolumeLoci)(loci, volume, { segments }, apply);
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}
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|
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exports.eachSegment = eachSegment;
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//
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function getSegmentCells(set, bbox, cells) {
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const data = cells.data;
|
|
@@ -140,7 +145,6 @@ async function createVolumeSegmentMesh(ctx, volume, key, theme, props, mesh) {
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surface.setBoundingSphere(volume_1.Volume.Segment.getBoundingSphere(volume, [key]));
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...mesh_1.Mesh.Params,
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...texture_mesh_1.TextureMesh.Params,
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@@ -166,7 +170,6 @@ function SegmentMeshVisual(materialId) {
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}, materialId);
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exports.SegmentMeshVisual = SegmentMeshVisual;
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//
|
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const SegmentTextureName = 'segment-texture';
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@@ -241,7 +244,6 @@ function SegmentTextureMeshVisual(materialId) {
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exports.SegmentTextureMeshVisual = SegmentTextureMeshVisual;
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|
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function getSegments(props) {
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|
|
@@ -265,11 +267,9 @@ function getSegmentParams(ctx, volume) {
|
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|
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return p;
|
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|
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|
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|
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exports.getSegmentParams = getSegmentParams;
|
|
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|
function SegmentRepresentation(ctx, getParams) {
|
|
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|
return representation_2.Representation.createMulti('Segment', ctx, getParams, representation_2.Representation.StateBuilder, SegmentVisuals);
|
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|
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exports.SegmentRepresentation = SegmentRepresentation;
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exports.SegmentRepresentationProvider = (0, representation_1.VolumeRepresentationProvider)({
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|
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|
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|
|
@@ -16,24 +16,24 @@ export declare const SliceParams: {
|
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16
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|
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|
17
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|
18
18
|
options: readonly (readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string] | readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string, string | undefined])[];
|
|
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|
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|
|
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|
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|
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|
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|
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|
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|
|
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|
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|
|
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|
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|
|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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}
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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}
|
|
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|
+
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|
|
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|
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|
|
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|
+
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|
|
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|
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|
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|
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|
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|
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|
|
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|
+
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|
|
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|
+
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|
|
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|
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|
|
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|
dimension: PD.Mapped<PD.NamedParams<number, "x"> | PD.NamedParams<number, "y"> | PD.NamedParams<number, "z">>;
|
|
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39
|
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|
|
@@ -87,24 +87,24 @@ export declare function getSliceParams(ctx: ThemeRegistryContext, volume: Volume
|
|
|
87
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|
isEssential: boolean;
|
|
88
88
|
type: "select";
|
|
89
89
|
options: readonly (readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string] | readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string, string | undefined])[];
|
|
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|
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cycle?: boolean
|
|
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|
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isOptional?: boolean
|
|
90
|
+
cycle?: boolean;
|
|
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|
+
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|
|
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92
|
defaultValue: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
|
|
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|
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label?: string
|
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|
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|
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|
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legend?: import("../../mol-util/legend").Legend
|
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|
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|
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|
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|
|
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|
+
legend?: import("../../mol-util/legend").Legend;
|
|
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96
|
fieldLabels?: {
|
|
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97
|
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|
|
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|
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}
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|
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|
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|
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|
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|
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|
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|
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|
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}
|
|
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|
+
};
|
|
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|
+
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|
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|
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|
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|
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|
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|
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};
|
|
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|
};
|
|
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|
dimension: PD.Mapped<PD.NamedParams<number, "x"> | PD.NamedParams<number, "y"> | PD.NamedParams<number, "z">>;
|
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|
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|
@@ -159,24 +159,24 @@ export declare const SliceRepresentationProvider: VolumeRepresentationProvider<{
|
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|
159
159
|
isEssential: boolean;
|
|
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|
type: "select";
|
|
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161
|
options: readonly (readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string] | readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string, string | undefined])[];
|
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|
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cycle?: boolean
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|
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|
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|
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|
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cycle?: boolean;
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|
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isOptional?: boolean;
|
|
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164
|
defaultValue: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
|
|
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|
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|
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|
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|
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legend?: import("../../mol-util/legend").Legend
|
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|
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|
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|
|
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|
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|
|
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|
fieldLabels?: {
|
|
169
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|
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|
|
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|
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}
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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}
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|
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|
+
};
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
+
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|
|
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|
+
};
|
|
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|
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|
|
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|
dimension: PD.Mapped<PD.NamedParams<number, "x"> | PD.NamedParams<number, "y"> | PD.NamedParams<number, "z">>;
|
|
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|
|
@@ -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.SliceRepresentationProvider = exports.
|
|
8
|
+
exports.SliceRepresentationProvider = exports.SliceParams = void 0;
|
|
9
|
+
exports.createImage = createImage;
|
|
10
|
+
exports.getSliceParams = getSliceParams;
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exports.SliceVisual = SliceVisual;
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exports.SliceRepresentation = SliceRepresentation;
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const param_definition_1 = require("../../mol-util/param-definition");
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const image_1 = require("../../mol-geo/geometry/image/image");
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const volume_1 = require("../../mol-model/volume");
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@@ -53,7 +57,6 @@ async function createImage(ctx, volume, key, theme, props, image) {
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(0, util_1.transformPositionArray)(transform, corners, 0, 4);
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return image_1.Image.create(imageTexture, corners, groupTexture, image);
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}
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exports.createImage = createImage;
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function getSliceInfo(grid, props) {
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const { dimension: { name: dim, params: index } } = props;
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const { space } = grid.cells;
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@@ -159,7 +162,6 @@ function getSliceParams(ctx, volume) {
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p.isoValue = volume_1.Volume.createIsoValueParam(volume_1.Volume.IsoValue.absolute(volume.grid.stats.min), volume.grid.stats);
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exports.getSliceParams = getSliceParams;
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function SliceVisual(materialId) {
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defaultProps: param_definition_1.ParamDefinition.getDefaultValues(exports.SliceParams),
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@@ -184,7 +186,6 @@ function SliceVisual(materialId) {
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}
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}, materialId);
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exports.SliceVisual = SliceVisual;
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function updateRenderableState(state, props) {
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image_1.Image.Utils.updateRenderableState(state, props);
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state.opaque = false;
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@@ -193,7 +194,6 @@ function updateRenderableState(state, props) {
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function SliceRepresentation(ctx, getParams) {
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}
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exports.SliceRepresentation = SliceRepresentation;
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exports.SliceRepresentationProvider = (0, representation_1.VolumeRepresentationProvider)({
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name: 'slice',
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label: 'Slice',
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@@ -5,7 +5,11 @@
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5
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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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8
|
-
exports.
|
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8
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+
exports.eachVolumeLoci = eachVolumeLoci;
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9
|
+
exports.getVolumeTexture2dLayout = getVolumeTexture2dLayout;
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+
exports.createVolumeTexture2d = createVolumeTexture2d;
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+
exports.createVolumeTexture3d = createVolumeTexture3d;
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|
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exports.createSegmentTexture2d = createSegmentTexture2d;
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const volume_1 = require("../../mol-model/volume");
|
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const int_1 = require("../../mol-data/int");
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const common_1 = require("../../mol-math/linear-algebra/3d/common");
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@@ -92,7 +96,6 @@ function eachVolumeLoci(loci, volume, props, apply) {
|
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}
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return changed;
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}
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|
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|
-
exports.eachVolumeLoci = eachVolumeLoci;
|
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|
//
|
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function getVolumeTexture2dLayout(dim, padding = 0) {
|
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const area = dim[0] * dim[1] * dim[2];
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@@ -113,7 +116,6 @@ function getVolumeTexture2dLayout(dim, padding = 0) {
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}
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return { width, height, columns, rows, powerOfTwoSize: height < powerOfTwoSize ? powerOfTwoSize : powerOfTwoSize * 2 };
|
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}
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exports.getVolumeTexture2dLayout = getVolumeTexture2dLayout;
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function createVolumeTexture2d(volume, variant, padding = 0) {
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const { cells: { space, data }, stats: { max, min } } = volume.grid;
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const dim = space.dimensions;
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|
@@ -160,7 +162,6 @@ function createVolumeTexture2d(volume, variant, padding = 0) {
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}
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return textureImage;
|
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}
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|
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exports.createVolumeTexture2d = createVolumeTexture2d;
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function createVolumeTexture3d(volume) {
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const { cells: { space, data }, stats: { max, min } } = volume.grid;
|
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const [width, height, depth] = space.dimensions;
|
|
@@ -190,7 +191,6 @@ function createVolumeTexture3d(volume) {
|
|
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|
}
|
|
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|
return textureVolume;
|
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|
}
|
|
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|
-
exports.createVolumeTexture3d = createVolumeTexture3d;
|
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function createSegmentTexture2d(volume, set, bbox, padding = 0) {
|
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|
const data = volume.grid.cells.data;
|
|
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|
const dim = geometry_1.Box3D.size((0, vec3_1.Vec3)(), bbox);
|
|
@@ -227,4 +227,3 @@ function createSegmentTexture2d(volume, set, bbox, padding = 0) {
|
|
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|
}
|
|
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|
return textureImage;
|
|
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|
}
|
|
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|
-
exports.createSegmentTexture2d = createSegmentTexture2d;
|
|
@@ -5,7 +5,7 @@
|
|
|
5
5
|
* @author David Sehnal <david.sehnal@gmail.com>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.formatMolScript =
|
|
8
|
+
exports.formatMolScript = formatMolScript;
|
|
9
9
|
const expression_1 = require("./expression");
|
|
10
10
|
const { isLiteral, isSymbol, isArgumentsArray } = expression_1.Expression;
|
|
11
11
|
class Writer {
|
|
@@ -123,4 +123,3 @@ function formatMolScript(e) {
|
|
|
123
123
|
_format(e, writer);
|
|
124
124
|
return writer.getStr();
|
|
125
125
|
}
|
|
126
|
-
exports.formatMolScript = formatMolScript;
|
|
@@ -5,22 +5,21 @@
|
|
|
5
5
|
* @author David Sehnal <david.sehnal@gmail.com>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.symbol = symbol;
|
|
9
|
+
exports.normalizeTable = normalizeTable;
|
|
10
|
+
exports.symbolList = symbolList;
|
|
9
11
|
const symbol_1 = require("./symbol");
|
|
10
12
|
function symbol(args, type, description) {
|
|
11
13
|
return (0, symbol_1.MSymbol)('', args, type, description);
|
|
12
14
|
}
|
|
13
|
-
exports.symbol = symbol;
|
|
14
15
|
function normalizeTable(table) {
|
|
15
16
|
_normalizeTable('', '', table);
|
|
16
17
|
}
|
|
17
|
-
exports.normalizeTable = normalizeTable;
|
|
18
18
|
function symbolList(table) {
|
|
19
19
|
const list = [];
|
|
20
20
|
_symbolList(table, list);
|
|
21
21
|
return list;
|
|
22
22
|
}
|
|
23
|
-
exports.symbolList = symbolList;
|
|
24
23
|
function formatKey(key) {
|
|
25
24
|
const regex = /([a-z])([A-Z])([a-z]|$)/g;
|
|
26
25
|
// do this twice because 'xXxX'
|
|
@@ -5,7 +5,7 @@
|
|
|
5
5
|
* @author David Sehnal <david.sehnal@gmail.com>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.parseMolScript =
|
|
8
|
+
exports.parseMolScript = parseMolScript;
|
|
9
9
|
const monadic_parser_1 = require("../../mol-util/monadic-parser");
|
|
10
10
|
const expression_1 = require("./expression");
|
|
11
11
|
const builder_1 = require("./builder");
|
|
@@ -13,7 +13,6 @@ const type_helpers_1 = require("../../mol-util/type-helpers");
|
|
|
13
13
|
function parseMolScript(input) {
|
|
14
14
|
return Language.parse(input);
|
|
15
15
|
}
|
|
16
|
-
exports.parseMolScript = parseMolScript;
|
|
17
16
|
var Language;
|
|
18
17
|
(function (Language) {
|
|
19
18
|
let ASTNode;
|
|
@@ -16,7 +16,7 @@ export declare namespace Types {
|
|
|
16
16
|
const Regex: Type.Value<RegExp>;
|
|
17
17
|
const Set: <T extends Type>(t?: T) => Type.Container<Set<T["@type"]>>;
|
|
18
18
|
const List: <T extends Type>(t?: T) => Type.Container<List<T["@type"]>>;
|
|
19
|
-
const Fn: <T extends Type>(t?: T, alias?: string) => Type.Container<(env: any) => T[
|
|
19
|
+
const Fn: <T extends Type>(t?: T, alias?: string) => Type.Container<(env: any) => T["@type"]>;
|
|
20
20
|
const Flags: <T extends Type>(t: T, alias?: string) => Type.Container<number>;
|
|
21
21
|
const BitFlags: Type.Container<number>;
|
|
22
22
|
}
|
|
@@ -5,13 +5,16 @@
|
|
|
5
5
|
* @author David Sehnal <david.sehnal@gmail.com>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.Arguments = void 0;
|
|
9
|
+
exports.Argument = Argument;
|
|
10
|
+
exports.MSymbol = MSymbol;
|
|
11
|
+
exports.CustomPropSymbol = CustomPropSymbol;
|
|
12
|
+
exports.isSymbol = isSymbol;
|
|
9
13
|
const expression_1 = require("./expression");
|
|
10
14
|
function Argument(type, params) {
|
|
11
15
|
const { description = void 0, isOptional = false, isRest = false, defaultValue = void 0 } = params || {};
|
|
12
16
|
return { type, isOptional, isRest, defaultValue, description };
|
|
13
17
|
}
|
|
14
|
-
exports.Argument = Argument;
|
|
15
18
|
var Arguments;
|
|
16
19
|
(function (Arguments) {
|
|
17
20
|
Arguments.None = Dictionary({});
|
|
@@ -35,7 +38,6 @@ function MSymbol(name, args, type, description) {
|
|
|
35
38
|
symbol.type = type;
|
|
36
39
|
return symbol;
|
|
37
40
|
}
|
|
38
|
-
exports.MSymbol = MSymbol;
|
|
39
41
|
function CustomPropSymbol(namespace, name, type, description) {
|
|
40
42
|
const symbol = function (args) {
|
|
41
43
|
return expression_1.Expression.Apply(expression_1.Expression.Symbol(symbol.id), args);
|
|
@@ -46,9 +48,7 @@ function CustomPropSymbol(namespace, name, type, description) {
|
|
|
46
48
|
symbol.type = type;
|
|
47
49
|
return symbol;
|
|
48
50
|
}
|
|
49
|
-
exports.CustomPropSymbol = CustomPropSymbol;
|
|
50
51
|
function isSymbol(x) {
|
|
51
52
|
const s = x;
|
|
52
53
|
return typeof s === 'function' && !!s.info && !!s.args && typeof s.info.namespace === 'string' && !!s.type;
|
|
53
54
|
}
|
|
54
|
-
exports.isSymbol = isSymbol;
|
|
@@ -5,7 +5,8 @@
|
|
|
5
5
|
* @author David Sehnal <david.sehnal@gmail.com>
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
|
-
exports.
|
|
8
|
+
exports.QuerySymbolRuntime = exports.QueryRuntimeArguments = exports.CompiledQueryFn = exports.QueryCompiledSymbol = exports.QueryCompilerCtx = exports.DefaultQueryRuntimeTable = exports.QueryRuntimeTable = void 0;
|
|
9
|
+
exports.compile = compile;
|
|
9
10
|
const expression_1 = require("../../language/expression");
|
|
10
11
|
const structure_1 = require("../../../mol-model/structure");
|
|
11
12
|
class QueryRuntimeTable {
|
|
@@ -162,4 +163,3 @@ function compile(expression) {
|
|
|
162
163
|
const ctx = new QueryCompilerCtx(exports.DefaultQueryRuntimeTable);
|
|
163
164
|
return _compile(ctx, expression).fn;
|
|
164
165
|
}
|
|
165
|
-
exports.compile = compile;
|