molstar 3.3.0 → 3.5.0
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 +202 -194
- package/build/viewer/embedded.html +43 -43
- package/build/viewer/index.html +106 -106
- package/build/viewer/molstar.js +1 -1
- package/lib/apps/docking-viewer/index.html +36 -36
- package/lib/apps/docking-viewer/viewport.js +1 -1
- package/lib/apps/viewer/app.d.ts +7 -6
- package/lib/apps/viewer/app.js +2 -0
- package/lib/apps/viewer/embedded.html +43 -43
- package/lib/apps/viewer/index.html +106 -106
- package/lib/cli/chem-comp-dict/create-saccharides.d.ts +7 -0
- package/lib/cli/chem-comp-dict/create-saccharides.js +67 -0
- package/lib/cli/cif2bcif/converter.js +1 -1
- package/lib/cli/cif2bcif/index.js +4 -4
- package/lib/commonjs/apps/docking-viewer/index.js +12 -12
- package/lib/commonjs/apps/docking-viewer/viewport.js +33 -33
- package/lib/commonjs/apps/viewer/app.d.ts +7 -6
- package/lib/commonjs/apps/viewer/app.js +24 -22
- package/lib/commonjs/apps/viewer/index.js +1 -1
- package/lib/commonjs/cli/chem-comp-dict/create-ions.js +6 -6
- package/lib/commonjs/cli/chem-comp-dict/create-saccharides.d.ts +7 -0
- package/lib/commonjs/cli/chem-comp-dict/create-saccharides.js +69 -0
- package/lib/commonjs/cli/chem-comp-dict/create-table.js +8 -8
- package/lib/commonjs/cli/chem-comp-dict/util.js +17 -17
- package/lib/commonjs/cli/cif2bcif/converter.js +9 -9
- package/lib/commonjs/cli/cif2bcif/index.js +12 -12
- package/lib/commonjs/cli/cifschema/index.js +27 -27
- package/lib/commonjs/cli/cifschema/util/cif-dic.js +1 -1
- package/lib/commonjs/cli/lipid-params/index.js +9 -9
- package/lib/commonjs/cli/state-docs/index.js +2 -2
- package/lib/commonjs/cli/structure-info/helpers.js +11 -11
- package/lib/commonjs/cli/structure-info/model.js +15 -15
- package/lib/commonjs/cli/structure-info/volume.js +9 -9
- package/lib/commonjs/examples/alpha-orbitals/controls.js +3 -3
- package/lib/commonjs/examples/alpha-orbitals/index.js +11 -11
- package/lib/commonjs/examples/basic-wrapper/controls.js +2 -2
- package/lib/commonjs/examples/basic-wrapper/index.js +22 -22
- package/lib/commonjs/examples/basic-wrapper/superposition.js +8 -8
- package/lib/commonjs/examples/domain-annotation-server/mapping.js +3 -3
- package/lib/commonjs/examples/domain-annotation-server/server.js +6 -6
- package/lib/commonjs/examples/domain-annotation-server/test.js +3 -3
- package/lib/commonjs/examples/lighting/index.js +6 -6
- package/lib/commonjs/examples/proteopedia-wrapper/annotation.js +2 -2
- package/lib/commonjs/examples/proteopedia-wrapper/helpers.js +4 -4
- package/lib/commonjs/examples/proteopedia-wrapper/index.js +26 -26
- package/lib/commonjs/examples/proteopedia-wrapper/ui/controls.js +2 -2
- package/lib/commonjs/examples/task.js +15 -15
- package/lib/commonjs/extensions/alpha-orbitals/collocation.js +2 -2
- package/lib/commonjs/extensions/alpha-orbitals/data-model.js +1 -1
- package/lib/commonjs/extensions/alpha-orbitals/density.js +2 -2
- package/lib/commonjs/extensions/alpha-orbitals/gpu/compute.js +2 -2
- package/lib/commonjs/extensions/alpha-orbitals/orbitals.js +2 -2
- package/lib/commonjs/extensions/alpha-orbitals/transforms.js +13 -13
- package/lib/commonjs/extensions/anvil/algorithm.js +13 -13
- package/lib/commonjs/extensions/anvil/behavior.js +14 -14
- package/lib/commonjs/extensions/anvil/prop.js +7 -7
- package/lib/commonjs/extensions/anvil/representation.js +5 -5
- package/lib/commonjs/extensions/cellpack/index.js +1 -1
- package/lib/commonjs/extensions/cellpack/model.js +26 -24
- package/lib/commonjs/extensions/cellpack/preset.js +6 -6
- package/lib/commonjs/extensions/cellpack/property.js +3 -3
- package/lib/commonjs/extensions/cellpack/representation.js +2 -2
- package/lib/commonjs/extensions/cellpack/state.js +13 -13
- package/lib/commonjs/extensions/cellpack/util.js +14 -14
- package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.js +7 -7
- package/lib/commonjs/extensions/dnatco/confal-pyramids/color.d.ts +397 -2
- package/lib/commonjs/extensions/dnatco/confal-pyramids/color.js +223 -131
- package/lib/commonjs/extensions/dnatco/confal-pyramids/property.js +6 -8
- package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.js +2 -2
- package/lib/commonjs/extensions/dnatco/confal-pyramids/util.js +19 -20
- package/lib/commonjs/extensions/g3d/data.js +6 -6
- package/lib/commonjs/extensions/g3d/format.js +14 -14
- package/lib/commonjs/extensions/g3d/model.js +4 -4
- package/lib/commonjs/extensions/geo-export/controls.js +3 -3
- package/lib/commonjs/extensions/geo-export/glb-exporter.js +9 -9
- package/lib/commonjs/extensions/geo-export/index.js +1 -1
- package/lib/commonjs/extensions/geo-export/mesh-exporter.js +12 -12
- package/lib/commonjs/extensions/geo-export/obj-exporter.js +7 -7
- package/lib/commonjs/extensions/geo-export/stl-exporter.js +7 -7
- package/lib/commonjs/extensions/geo-export/ui.js +7 -7
- package/lib/commonjs/extensions/geo-export/usdz-exporter.js +9 -9
- package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.js +9 -9
- package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.js +4 -4
- package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.js +4 -4
- package/lib/commonjs/extensions/model-archive/quality-assessment/prop.js +5 -5
- package/lib/commonjs/extensions/model-export/export.js +4 -4
- package/lib/commonjs/extensions/model-export/index.js +1 -1
- package/lib/commonjs/extensions/model-export/ui.js +5 -5
- package/lib/commonjs/extensions/mp4-export/controls.js +5 -5
- package/lib/commonjs/extensions/mp4-export/encoder.js +4 -4
- package/lib/commonjs/extensions/mp4-export/index.js +1 -1
- package/lib/commonjs/extensions/mp4-export/ui.js +5 -5
- package/lib/commonjs/extensions/pdbe/preferred-assembly.js +2 -2
- package/lib/commonjs/extensions/pdbe/struct-ref-domain.js +2 -2
- package/lib/commonjs/extensions/pdbe/structure-quality-report/behavior.js +1 -1
- package/lib/commonjs/extensions/pdbe/structure-quality-report/prop.js +8 -8
- package/lib/commonjs/extensions/rcsb/assembly-symmetry/behavior.js +17 -17
- package/lib/commonjs/extensions/rcsb/assembly-symmetry/color.js +2 -2
- package/lib/commonjs/extensions/rcsb/assembly-symmetry/prop.js +9 -9
- package/lib/commonjs/extensions/rcsb/assembly-symmetry/representation.js +6 -6
- package/lib/commonjs/extensions/rcsb/assembly-symmetry/ui.js +9 -9
- package/lib/commonjs/extensions/rcsb/validation-report/behavior.js +17 -17
- package/lib/commonjs/extensions/rcsb/validation-report/prop.js +15 -15
- package/lib/commonjs/extensions/rcsb/validation-report/representation.js +22 -5
- package/lib/commonjs/extensions/zenodo/index.d.ts +7 -0
- package/lib/commonjs/extensions/zenodo/index.js +35 -0
- package/lib/commonjs/extensions/zenodo/ui.d.ts +61 -0
- package/lib/commonjs/extensions/zenodo/ui.js +306 -0
- package/lib/commonjs/mol-canvas3d/camera/stereo.js +1 -1
- package/lib/commonjs/mol-canvas3d/camera/util.js +1 -1
- package/lib/commonjs/mol-canvas3d/camera.js +2 -1
- package/lib/commonjs/mol-canvas3d/canvas3d.js +14 -14
- package/lib/commonjs/mol-canvas3d/controls/trackball.js +1 -1
- package/lib/commonjs/mol-canvas3d/helper/bounding-sphere-helper.js +1 -1
- package/lib/commonjs/mol-canvas3d/helper/camera-helper.js +5 -5
- package/lib/commonjs/mol-canvas3d/helper/handle-helper.js +5 -5
- package/lib/commonjs/mol-canvas3d/helper/helper.js +1 -1
- package/lib/commonjs/mol-canvas3d/helper/interaction-events.js +2 -2
- package/lib/commonjs/mol-canvas3d/passes/draw.js +3 -3
- package/lib/commonjs/mol-canvas3d/passes/fxaa.js +3 -3
- package/lib/commonjs/mol-canvas3d/passes/image.js +1 -1
- package/lib/commonjs/mol-canvas3d/passes/marking.js +6 -6
- package/lib/commonjs/mol-canvas3d/passes/multi-sample.js +3 -3
- package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +12 -12
- package/lib/commonjs/mol-canvas3d/passes/smaa.js +9 -9
- package/lib/commonjs/mol-canvas3d/passes/wboit.js +3 -3
- package/lib/commonjs/mol-canvas3d/util.js +2 -2
- package/lib/commonjs/mol-data/db/column.js +2 -2
- package/lib/commonjs/mol-data/db/table.js +1 -1
- package/lib/commonjs/mol-data/db.js +1 -1
- package/lib/commonjs/mol-data/generic.js +3 -3
- package/lib/commonjs/mol-data/index.js +4 -4
- package/lib/commonjs/mol-data/int/interval.js +1 -1
- package/lib/commonjs/mol-data/int/ordered-set.js +1 -1
- package/lib/commonjs/mol-data/int/segmentation.js +1 -1
- package/lib/commonjs/mol-data/int/sorted-array.js +1 -1
- package/lib/commonjs/mol-data/util.js +7 -7
- package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +2 -2
- package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +3 -3
- package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +3 -3
- package/lib/commonjs/mol-geo/geometry/direct-volume/transfer-function.js +1 -1
- package/lib/commonjs/mol-geo/geometry/image/image.js +3 -3
- package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +0 -1
- package/lib/commonjs/mol-geo/geometry/lines/lines.js +3 -3
- package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.d.ts +1 -1
- package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.js +5 -3
- package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +3 -3
- package/lib/commonjs/mol-geo/geometry/points/points.d.ts +1 -1
- package/lib/commonjs/mol-geo/geometry/points/points.js +3 -3
- package/lib/commonjs/mol-geo/geometry/size-data.js +1 -1
- package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +3 -3
- package/lib/commonjs/mol-geo/geometry/text/font-atlas.js +1 -1
- package/lib/commonjs/mol-geo/geometry/text/text-builder.js +3 -2
- package/lib/commonjs/mol-geo/geometry/text/text.js +3 -3
- package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.d.ts +1 -1
- package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.js +10 -8
- package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +3 -3
- package/lib/commonjs/mol-geo/primitive/circle.js +1 -1
- package/lib/commonjs/mol-geo/primitive/cylinder.js +1 -1
- package/lib/commonjs/mol-geo/primitive/polyhedron.js +1 -1
- package/lib/commonjs/mol-geo/primitive/prism.js +1 -1
- package/lib/commonjs/mol-geo/primitive/star.js +1 -1
- package/lib/commonjs/mol-geo/primitive/torus.js +1 -1
- package/lib/commonjs/mol-geo/util/marching-cubes/algorithm.js +9 -9
- package/lib/commonjs/mol-gl/compute/grid3d.js +5 -5
- package/lib/commonjs/mol-gl/compute/histogram-pyramid/reduction.js +3 -3
- package/lib/commonjs/mol-gl/compute/histogram-pyramid/sum.js +3 -3
- package/lib/commonjs/mol-gl/compute/marching-cubes/active-voxels.js +3 -3
- package/lib/commonjs/mol-gl/compute/marching-cubes/isosurface.js +3 -3
- package/lib/commonjs/mol-gl/compute/util.js +3 -3
- package/lib/commonjs/mol-gl/renderable/cylinders.js +3 -3
- package/lib/commonjs/mol-gl/renderable/direct-volume.js +3 -3
- package/lib/commonjs/mol-gl/renderable/image.js +3 -3
- package/lib/commonjs/mol-gl/renderable/lines.js +3 -3
- package/lib/commonjs/mol-gl/renderable/mesh.js +3 -3
- package/lib/commonjs/mol-gl/renderable/points.js +3 -3
- package/lib/commonjs/mol-gl/renderable/schema.js +1 -1
- package/lib/commonjs/mol-gl/renderable/spheres.js +3 -3
- package/lib/commonjs/mol-gl/renderable/text.js +3 -3
- package/lib/commonjs/mol-gl/renderable/texture-mesh.js +3 -3
- package/lib/commonjs/mol-gl/renderable/util.js +1 -1
- package/lib/commonjs/mol-gl/shader-code.js +2 -1
- package/lib/commonjs/mol-gl/webgl/buffer.js +4 -5
- package/lib/commonjs/mol-gl/webgl/context.d.ts +1 -1
- package/lib/commonjs/mol-gl/webgl/context.js +5 -5
- package/lib/commonjs/mol-gl/webgl/render-item.js +1 -1
- package/lib/commonjs/mol-gl/webgl/resources.js +2 -2
- package/lib/commonjs/mol-io/common/binary-cif/classifier.js +7 -6
- package/lib/commonjs/mol-io/common/binary-cif/decoder.js +4 -3
- package/lib/commonjs/mol-io/common/binary-cif.js +3 -3
- package/lib/commonjs/mol-io/common/io-buffer.d.ts +206 -0
- package/lib/commonjs/mol-io/common/io-buffer.js +408 -0
- package/lib/commonjs/mol-io/common/netcdf/reader.d.ts +78 -0
- package/lib/commonjs/mol-io/common/netcdf/reader.js +459 -0
- package/lib/commonjs/mol-io/common/typed-array.js +2 -2
- package/lib/commonjs/mol-io/reader/ccp4/parser.js +8 -8
- package/lib/commonjs/mol-io/reader/cif/binary/parser.js +3 -3
- package/lib/commonjs/mol-io/reader/cif/data-model.js +1 -1
- package/lib/commonjs/mol-io/reader/cif/schema/mmcif-extras.js +2 -2
- package/lib/commonjs/mol-io/reader/cif/schema/mmcif.d.ts +1 -1
- package/lib/commonjs/mol-io/reader/cif/schema.js +2 -2
- package/lib/commonjs/mol-io/reader/cif/text/parser.js +7 -7
- package/lib/commonjs/mol-io/reader/cif.js +1 -1
- package/lib/commonjs/mol-io/reader/common/text/tokenizer.js +4 -4
- package/lib/commonjs/mol-io/reader/csv/data-model.js +1 -1
- package/lib/commonjs/mol-io/reader/csv/parser.js +7 -7
- package/lib/commonjs/mol-io/reader/cube/parser.js +2 -2
- package/lib/commonjs/mol-io/reader/dcd/parser.js +2 -2
- package/lib/commonjs/mol-io/reader/dsn6/parser.js +8 -8
- package/lib/commonjs/mol-io/reader/dx/parser.js +4 -4
- package/lib/commonjs/mol-io/reader/gro/parser.js +6 -6
- package/lib/commonjs/mol-io/reader/mol/parser.js +2 -2
- package/lib/commonjs/mol-io/reader/mol2/parser.js +8 -8
- package/lib/commonjs/mol-io/reader/nctraj/parser.d.ts +18 -0
- package/lib/commonjs/mol-io/reader/nctraj/parser.js +101 -0
- package/lib/commonjs/mol-io/reader/obj/parser.js +4 -4
- package/lib/commonjs/mol-io/reader/pdb/parser.js +2 -2
- package/lib/commonjs/mol-io/reader/ply/parser.js +4 -4
- package/lib/commonjs/mol-io/reader/prmtop/parser.d.ts +58 -0
- package/lib/commonjs/mol-io/reader/prmtop/parser.js +172 -0
- package/lib/commonjs/mol-io/reader/psf/parser.js +8 -8
- package/lib/commonjs/mol-io/reader/sdf/parser.js +2 -2
- package/lib/commonjs/mol-io/reader/top/parser.d.ts +37 -0
- package/lib/commonjs/mol-io/reader/top/parser.js +303 -0
- package/lib/commonjs/mol-io/reader/trr/parser.d.ts +22 -0
- package/lib/commonjs/mol-io/reader/trr/parser.js +146 -0
- package/lib/commonjs/mol-io/reader/xtc/parser.js +4 -4
- package/lib/commonjs/mol-io/reader/xyz/parser.js +2 -2
- package/lib/commonjs/mol-io/writer/cif/encoder.js +3 -2
- package/lib/commonjs/mol-io/writer/cif.js +1 -1
- package/lib/commonjs/mol-io/writer/ligand-encoder.js +1 -1
- package/lib/commonjs/mol-io/writer/mol/encoder.js +1 -1
- package/lib/commonjs/mol-io/writer/mol2/encoder.js +1 -1
- package/lib/commonjs/mol-math/geometry/boundary-helper.js +5 -5
- package/lib/commonjs/mol-math/geometry/common.d.ts +2 -1
- package/lib/commonjs/mol-math/geometry/common.js +1 -1
- package/lib/commonjs/mol-math/geometry/gaussian-density/cpu.d.ts +1 -1
- package/lib/commonjs/mol-math/geometry/gaussian-density/cpu.js +6 -6
- package/lib/commonjs/mol-math/geometry/gaussian-density/gpu.d.ts +1 -1
- package/lib/commonjs/mol-math/geometry/gaussian-density/gpu.js +8 -8
- package/lib/commonjs/mol-math/geometry/gaussian-density.d.ts +2 -2
- package/lib/commonjs/mol-math/geometry/gaussian-density.js +5 -5
- package/lib/commonjs/mol-math/geometry/molecular-surface.d.ts +2 -1
- package/lib/commonjs/mol-math/geometry/molecular-surface.js +10 -10
- package/lib/commonjs/mol-math/geometry/primitives/box3d.js +2 -1
- package/lib/commonjs/mol-math/geometry/primitives/sphere3d.js +13 -7
- package/lib/commonjs/mol-math/geometry.js +8 -8
- package/lib/commonjs/mol-math/graph/inter-unit-graph.js +1 -1
- package/lib/commonjs/mol-math/graph.js +1 -1
- package/lib/commonjs/mol-math/linear-algebra.js +2 -2
- package/lib/commonjs/mol-model/sequence/alignment/alignment.js +1 -1
- package/lib/commonjs/mol-model/sequence/sequence.js +2 -1
- package/lib/commonjs/mol-model/sequence.js +1 -1
- package/lib/commonjs/mol-model/shape.js +1 -1
- package/lib/commonjs/mol-model/structure/coordinates.js +1 -1
- package/lib/commonjs/mol-model/structure/export/categories/secondary-structure.js +2 -2
- package/lib/commonjs/mol-model/structure/model/model.js +3 -3
- package/lib/commonjs/mol-model/structure/model/properties/atomic.js +3 -3
- package/lib/commonjs/mol-model/structure/model/properties/coarse.js +2 -2
- package/lib/commonjs/mol-model/structure/model/types/saccharides.d.ts +8 -0
- package/lib/commonjs/mol-model/structure/model/types/saccharides.js +11 -0
- package/lib/commonjs/mol-model/structure/model.js +3 -3
- package/lib/commonjs/mol-model/structure/query/queries/generators.js +2 -2
- package/lib/commonjs/mol-model/structure/query/queries/modifiers.js +2 -2
- package/lib/commonjs/mol-model/structure/query.js +6 -6
- package/lib/commonjs/mol-model/structure/structure/carbohydrates/compute.js +1 -1
- package/lib/commonjs/mol-model/structure/structure/carbohydrates/constants.d.ts +1 -1
- package/lib/commonjs/mol-model/structure/structure/carbohydrates/constants.js +6 -9
- package/lib/commonjs/mol-model/structure/structure/element/element.js +5 -5
- package/lib/commonjs/mol-model/structure/structure/element.js +1 -1
- package/lib/commonjs/mol-model/structure/structure/structure.js +9 -6
- package/lib/commonjs/mol-model/structure/structure/symmetry.js +10 -10
- package/lib/commonjs/mol-model/structure/structure/unit/bonds/data.js +2 -2
- package/lib/commonjs/mol-model/structure/structure/unit/bonds/inter-compute.d.ts +1 -0
- package/lib/commonjs/mol-model/structure/structure/unit/bonds/inter-compute.js +6 -4
- package/lib/commonjs/mol-model/structure/structure/unit/bonds/intra-compute.js +1 -1
- package/lib/commonjs/mol-model/structure/structure/unit/bonds.js +3 -3
- package/lib/commonjs/mol-model/structure/structure/unit.js +5 -22
- package/lib/commonjs/mol-model/structure/structure/util/superposition.js +1 -1
- package/lib/commonjs/mol-model/structure/structure.js +2 -2
- package/lib/commonjs/mol-model/structure/topology.js +1 -1
- package/lib/commonjs/mol-model/structure.js +6 -6
- package/lib/commonjs/mol-model/volume.js +2 -2
- package/lib/commonjs/mol-model-formats/shape/ply.js +7 -7
- package/lib/commonjs/mol-model-formats/structure/basic/atomic.d.ts +1 -1
- package/lib/commonjs/mol-model-formats/structure/basic/atomic.js +2 -15
- package/lib/commonjs/mol-model-formats/structure/basic/coarse.js +3 -3
- package/lib/commonjs/mol-model-formats/structure/basic/entities.js +1 -1
- package/lib/commonjs/mol-model-formats/structure/basic/parser.d.ts +1 -1
- package/lib/commonjs/mol-model-formats/structure/basic/parser.js +10 -10
- package/lib/commonjs/mol-model-formats/structure/basic/schema.d.ts +2 -2
- package/lib/commonjs/mol-model-formats/structure/basic/schema.js +7 -2
- package/lib/commonjs/mol-model-formats/structure/basic/sort.js +2 -2
- package/lib/commonjs/mol-model-formats/structure/basic/util.d.ts +33 -2
- package/lib/commonjs/mol-model-formats/structure/basic/util.js +26 -2
- package/lib/commonjs/mol-model-formats/structure/cif-core.js +6 -6
- package/lib/commonjs/mol-model-formats/structure/common/component.js +5 -1
- package/lib/commonjs/mol-model-formats/structure/cube.js +5 -5
- package/lib/commonjs/mol-model-formats/structure/dcd.js +2 -2
- package/lib/commonjs/mol-model-formats/structure/gro.js +5 -3
- package/lib/commonjs/mol-model-formats/structure/mmcif.d.ts +1 -1
- package/lib/commonjs/mol-model-formats/structure/mmcif.js +4 -2
- package/lib/commonjs/mol-model-formats/structure/mol.js +5 -5
- package/lib/commonjs/mol-model-formats/structure/mol2.js +6 -6
- package/lib/commonjs/mol-model-formats/structure/nctraj.d.ts +9 -0
- package/lib/commonjs/mol-model-formats/structure/nctraj.js +60 -0
- package/lib/commonjs/mol-model-formats/structure/pdb/to-cif.js +2 -2
- package/lib/commonjs/mol-model-formats/structure/pdb.d.ts +1 -1
- package/lib/commonjs/mol-model-formats/structure/pdb.js +7 -5
- package/lib/commonjs/mol-model-formats/structure/prmtop.d.ts +16 -0
- package/lib/commonjs/mol-model-formats/structure/prmtop.js +147 -0
- package/lib/commonjs/mol-model-formats/structure/property/bonds/index-pair.js +1 -1
- package/lib/commonjs/mol-model-formats/structure/property/symmetry.js +11 -1
- package/lib/commonjs/mol-model-formats/structure/psf.js +5 -3
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- package/lib/mol-plugin-state/formats/{structure.d.ts → coordinates.d.ts} +34 -18
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- package/lib/mol-plugin-ui/state/common.js +7 -7
- package/lib/mol-plugin-ui/state/snapshots.js +9 -9
- package/lib/mol-plugin-ui/state/tree.js +14 -14
- package/lib/mol-plugin-ui/state/update-transform.js +1 -1
- package/lib/mol-plugin-ui/structure/components.js +10 -10
- package/lib/mol-plugin-ui/structure/focus.js +1 -1
- package/lib/mol-plugin-ui/structure/generic.js +4 -4
- package/lib/mol-plugin-ui/structure/measurements.js +8 -8
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- package/lib/mol-script/language/parser.js +7 -4
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- package/lib/mol-task/util/scheduler.js +7 -7
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- package/lib/mol-util/file-info.d.ts +1 -3
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- package/lib/mol-util/index.d.ts +1 -0
- package/lib/mol-util/index.js +5 -0
- package/lib/mol-util/zip/deflate.js +2 -1
- package/lib/mol-util/zip/zip.d.ts +7 -1
- package/lib/mol-util/zip/zip.js +5 -1
- package/lib/servers/model/config.d.ts +2 -2
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- package/lib/commonjs/mol-plugin-state/formats/structure.js +0 -64
- package/lib/mol-plugin-state/formats/structure.js +0 -61
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@@ -34,8 +34,8 @@ exports.CameraHelperParams = {
|
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@@ -69,13 +69,13 @@ var CameraHelper = /** @class */ (function () {
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linear_algebra_1.Vec3.set(_this.camera.position, 0, 0, params.scale * 200);
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linear_algebra_1.Mat4.lookAt(_this.camera.view, _this.camera.position, _this.camera.target, _this.camera.up);
|
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p.axes.params =
|
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|
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}
|
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}
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});
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|
@@ -17,14 +17,14 @@ var cylinder_1 = require("../../mol-geo/geometry/mesh/builder/cylinder");
|
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|
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var param_definition_1 = require("../../mol-util/param-definition");
|
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var immer_1 =
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var shape_1 = require("../../mol-model/shape");
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var loci_1 = require("../../mol-model/loci");
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|
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|
|
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var HandleParams =
|
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|
+
var HandleParams = tslib_1.__assign(tslib_1.__assign({}, mesh_1.Mesh.Params), { alpha: tslib_1.__assign(tslib_1.__assign({}, mesh_1.Mesh.Params.alpha), { defaultValue: 1 }), ignoreLight: tslib_1.__assign(tslib_1.__assign({}, mesh_1.Mesh.Params.ignoreLight), { defaultValue: true }), colorX: param_definition_1.ParamDefinition.Color(names_1.ColorNames.red, { isEssential: true }), colorY: param_definition_1.ParamDefinition.Color(names_1.ColorNames.green, { isEssential: true }), colorZ: param_definition_1.ParamDefinition.Color(names_1.ColorNames.blue, { isEssential: true }), scale: param_definition_1.ParamDefinition.Numeric(0.33, { min: 0.1, max: 2, step: 0.1 }, { isEssential: true }) });
|
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exports.HandleHelperParams = {
|
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handle: param_definition_1.ParamDefinition.MappedStatic('off', {
|
|
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|
|
@@ -33,8 +33,8 @@ exports.HandleHelperParams = {
|
|
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33
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};
|
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var HandleHelper = /** @class */ (function () {
|
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|
|
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|
|
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var _this = this;
|
|
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this.webgl = webgl;
|
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this.props = {
|
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handle: { name: 'off', params: {} }
|
|
@@ -74,11 +74,11 @@ var HandleHelper = /** @class */ (function () {
|
|
|
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p.handle.name = props.handle.name;
|
|
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if (props.handle.name === 'on') {
|
|
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_this.scene.clear();
|
|
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|
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var params =
|
|
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|
+
var params = tslib_1.__assign(tslib_1.__assign({}, props.handle.params), { scale: props.handle.params.scale * _this.webgl.pixelRatio });
|
|
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|
|
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|
|
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|
|
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|
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|
|
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|
+
p.handle.params = tslib_1.__assign({}, props.handle.params);
|
|
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|
}
|
|
83
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|
}
|
|
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|
});
|
|
@@ -22,7 +22,7 @@ exports.DefaultHelperProps = param_definition_1.ParamDefinition.getDefaultValues
|
|
|
22
22
|
var Helper = /** @class */ (function () {
|
|
23
23
|
function Helper(webgl, scene, props) {
|
|
24
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|
if (props === void 0) { props = {}; }
|
|
25
|
-
var p =
|
|
25
|
+
var p = tslib_1.__assign(tslib_1.__assign({}, exports.DefaultHelperProps), props);
|
|
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|
this.debug = new bounding_sphere_helper_1.BoundingSphereHelper(webgl, scene, p.debug);
|
|
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|
this.camera = new camera_helper_1.CameraHelper(webgl, p.camera.helper);
|
|
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|
this.handle = new handle_helper_1.HandleHelper(webgl, p.handle);
|
|
@@ -23,8 +23,8 @@ exports.Canvas3dInteractionHelperParams = {
|
|
|
23
23
|
};
|
|
24
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|
var Canvas3dInteractionHelper = /** @class */ (function () {
|
|
25
25
|
function Canvas3dInteractionHelper(canvasIdentify, lociGetter, input, camera, props) {
|
|
26
|
-
var _this = this;
|
|
27
26
|
if (props === void 0) { props = {}; }
|
|
27
|
+
var _this = this;
|
|
28
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|
this.canvasIdentify = canvasIdentify;
|
|
29
29
|
this.lociGetter = lociGetter;
|
|
30
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|
this.input = input;
|
|
@@ -49,7 +49,7 @@ var Canvas3dInteractionHelper = /** @class */ (function () {
|
|
|
49
49
|
this.buttons = input_observer_1.ButtonsType.create(0);
|
|
50
50
|
this.button = input_observer_1.ButtonsType.create(0);
|
|
51
51
|
this.modifiers = input_observer_1.ModifiersKeys.None;
|
|
52
|
-
this.props =
|
|
52
|
+
this.props = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(exports.Canvas3dInteractionHelperParams)), props);
|
|
53
53
|
input.drag.subscribe(function (_a) {
|
|
54
54
|
var x = _a.x, y = _a.y, buttons = _a.buttons, button = _a.button, modifiers = _a.modifiers;
|
|
55
55
|
_this.isInteracting = true;
|
|
@@ -23,11 +23,11 @@ var wboit_1 = require("./wboit");
|
|
|
23
23
|
var postprocessing_1 = require("./postprocessing");
|
|
24
24
|
var marking_1 = require("./marking");
|
|
25
25
|
var util_2 = require("../../mol-gl/compute/util");
|
|
26
|
-
var DepthMergeSchema =
|
|
26
|
+
var DepthMergeSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tDepthPrimitives: (0, schema_1.TextureSpec)('texture', 'depth', 'ushort', 'nearest'), tDepthVolumes: (0, schema_1.TextureSpec)('texture', 'depth', 'ushort', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2'), dPackedDepth: (0, schema_1.DefineSpec)('boolean') });
|
|
27
27
|
var DepthMergeShaderCode = (0, shader_code_1.ShaderCode)('depth-merge', quad_vert_1.quad_vert, depth_merge_frag_1.depthMerge_frag);
|
|
28
28
|
function getDepthMergeRenderable(ctx, depthTexturePrimitives, depthTextureVolumes, packedDepth) {
|
|
29
|
-
var values =
|
|
30
|
-
var schema =
|
|
29
|
+
var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tDepthPrimitives: mol_util_1.ValueCell.create(depthTexturePrimitives), tDepthVolumes: mol_util_1.ValueCell.create(depthTextureVolumes), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(depthTexturePrimitives.getWidth(), depthTexturePrimitives.getHeight())), dPackedDepth: mol_util_1.ValueCell.create(packedDepth) });
|
|
30
|
+
var schema = tslib_1.__assign({}, DepthMergeSchema);
|
|
31
31
|
var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', DepthMergeShaderCode, schema, values);
|
|
32
32
|
return (0, renderable_1.createComputeRenderable)(renderItem, values);
|
|
33
33
|
}
|
|
@@ -81,13 +81,13 @@ var FxaaPass = /** @class */ (function () {
|
|
|
81
81
|
}());
|
|
82
82
|
exports.FxaaPass = FxaaPass;
|
|
83
83
|
//
|
|
84
|
-
var FxaaSchema =
|
|
84
|
+
var FxaaSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uTexSizeInv: (0, schema_1.UniformSpec)('v2'), dEdgeThresholdMin: (0, schema_1.DefineSpec)('number'), dEdgeThresholdMax: (0, schema_1.DefineSpec)('number'), dIterations: (0, schema_1.DefineSpec)('number'), dSubpixelQuality: (0, schema_1.DefineSpec)('number') });
|
|
85
85
|
var FxaaShaderCode = (0, shader_code_1.ShaderCode)('fxaa', quad_vert_1.quad_vert, fxaa_frag_1.fxaa_frag);
|
|
86
86
|
function getFxaaRenderable(ctx, colorTexture) {
|
|
87
87
|
var width = colorTexture.getWidth();
|
|
88
88
|
var height = colorTexture.getHeight();
|
|
89
|
-
var values =
|
|
90
|
-
var schema =
|
|
89
|
+
var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tColor: mol_util_1.ValueCell.create(colorTexture), uTexSizeInv: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1 / width, 1 / height)), dEdgeThresholdMin: mol_util_1.ValueCell.create(0.0312), dEdgeThresholdMax: mol_util_1.ValueCell.create(0.125), dIterations: mol_util_1.ValueCell.create(12), dSubpixelQuality: mol_util_1.ValueCell.create(0.3) });
|
|
90
|
+
var schema = tslib_1.__assign({}, FxaaSchema);
|
|
91
91
|
var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', FxaaShaderCode, schema, values);
|
|
92
92
|
return (0, renderable_1.createComputeRenderable)(renderItem, values);
|
|
93
93
|
}
|
|
@@ -32,7 +32,7 @@ var ImagePass = /** @class */ (function () {
|
|
|
32
32
|
this._width = 0;
|
|
33
33
|
this._height = 0;
|
|
34
34
|
this._camera = new camera_1.Camera();
|
|
35
|
-
this.props =
|
|
35
|
+
this.props = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(exports.ImageParams)), props);
|
|
36
36
|
this.drawPass = new draw_1.DrawPass(webgl, 128, 128, enableWboit);
|
|
37
37
|
this.multiSamplePass = new multi_sample_1.MultiSamplePass(webgl, this.drawPass);
|
|
38
38
|
this.multiSampleHelper = new multi_sample_1.MultiSampleHelper(this.multiSamplePass);
|
|
@@ -107,24 +107,24 @@ var MarkingPass = /** @class */ (function () {
|
|
|
107
107
|
}());
|
|
108
108
|
exports.MarkingPass = MarkingPass;
|
|
109
109
|
//
|
|
110
|
-
var EdgeSchema =
|
|
110
|
+
var EdgeSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tMaskTexture: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uTexSizeInv: (0, schema_1.UniformSpec)('v2'), dEdgeScale: (0, schema_1.DefineSpec)('number') });
|
|
111
111
|
var EdgeShaderCode = (0, shader_code_1.ShaderCode)('edge', quad_vert_1.quad_vert, edge_frag_1.edge_frag);
|
|
112
112
|
function getEdgeRenderable(ctx, maskTexture) {
|
|
113
113
|
var width = maskTexture.getWidth();
|
|
114
114
|
var height = maskTexture.getHeight();
|
|
115
|
-
var values =
|
|
116
|
-
var schema =
|
|
115
|
+
var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tMaskTexture: mol_util_1.ValueCell.create(maskTexture), uTexSizeInv: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1 / width, 1 / height)), dEdgeScale: mol_util_1.ValueCell.create(1) });
|
|
116
|
+
var schema = tslib_1.__assign({}, EdgeSchema);
|
|
117
117
|
var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', EdgeShaderCode, schema, values);
|
|
118
118
|
return (0, renderable_1.createComputeRenderable)(renderItem, values);
|
|
119
119
|
}
|
|
120
120
|
//
|
|
121
|
-
var OverlaySchema =
|
|
121
|
+
var OverlaySchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tEdgeTexture: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uTexSizeInv: (0, schema_1.UniformSpec)('v2'), uHighlightEdgeColor: (0, schema_1.UniformSpec)('v3'), uSelectEdgeColor: (0, schema_1.UniformSpec)('v3'), uGhostEdgeStrength: (0, schema_1.UniformSpec)('f'), uInnerEdgeFactor: (0, schema_1.UniformSpec)('f') });
|
|
122
122
|
var OverlayShaderCode = (0, shader_code_1.ShaderCode)('overlay', quad_vert_1.quad_vert, overlay_frag_1.overlay_frag);
|
|
123
123
|
function getOverlayRenderable(ctx, edgeTexture) {
|
|
124
124
|
var width = edgeTexture.getWidth();
|
|
125
125
|
var height = edgeTexture.getHeight();
|
|
126
|
-
var values =
|
|
127
|
-
var schema =
|
|
126
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var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tEdgeTexture: mol_util_1.ValueCell.create(edgeTexture), uTexSizeInv: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1 / width, 1 / height)), uHighlightEdgeColor: mol_util_1.ValueCell.create((0, linear_algebra_1.Vec3)()), uSelectEdgeColor: mol_util_1.ValueCell.create((0, linear_algebra_1.Vec3)()), uGhostEdgeStrength: mol_util_1.ValueCell.create(0), uInnerEdgeFactor: mol_util_1.ValueCell.create(0) });
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var SsaoBlurSchema =
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var SsaoBlurSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tSsaoDepth: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2'), uKernel: (0, schema_1.UniformSpec)('f[]'), dOcclusionKernelSize: (0, schema_1.DefineSpec)('number'), uBlurDirectionX: (0, schema_1.UniformSpec)('f'), uBlurDirectionY: (0, schema_1.UniformSpec)('f'), uMaxPossibleViewZDiff: (0, schema_1.UniformSpec)('f'), uNear: (0, schema_1.UniformSpec)('f'), uFar: (0, schema_1.UniformSpec)('f'), uBounds: (0, schema_1.UniformSpec)('v4'), dOrthographic: (0, schema_1.DefineSpec)('number') });
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var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tSsaoDepth: mol_util_1.ValueCell.create(ssaoDepthTexture), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(ssaoDepthTexture.getWidth(), ssaoDepthTexture.getHeight())), uKernel: mol_util_1.ValueCell.create([0.0]), dOcclusionKernelSize: mol_util_1.ValueCell.create(15), uBlurDirectionX: mol_util_1.ValueCell.create(direction === 'horizontal' ? 1 : 0), uBlurDirectionY: mol_util_1.ValueCell.create(direction === 'vertical' ? 1 : 0), uMaxPossibleViewZDiff: mol_util_1.ValueCell.create(0.5), uNear: mol_util_1.ValueCell.create(0.0), uFar: mol_util_1.ValueCell.create(10000.0), uBounds: mol_util_1.ValueCell.create((0, linear_algebra_1.Vec4)()), dOrthographic: mol_util_1.ValueCell.create(0) });
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var schema = tslib_1.__assign({}, SsaoBlurSchema);
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@@ -68,10 +68,10 @@ function getSamples(vectorSamples, nSamples) {
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var PostprocessingSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tSsaoDepth: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), tDepth: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), tOutlines: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2'), dOrthographic: (0, schema_1.DefineSpec)('number'), uNear: (0, schema_1.UniformSpec)('f'), uFar: (0, schema_1.UniformSpec)('f'), uFogNear: (0, schema_1.UniformSpec)('f'), uFogFar: (0, schema_1.UniformSpec)('f'), uFogColor: (0, schema_1.UniformSpec)('v3'), uOutlineColor: (0, schema_1.UniformSpec)('v3'), uTransparentBackground: (0, schema_1.UniformSpec)('b'), uMaxPossibleViewZDiff: (0, schema_1.UniformSpec)('f'), dOcclusionEnable: (0, schema_1.DefineSpec)('boolean'), uOcclusionOffset: (0, schema_1.UniformSpec)('v2'), dOutlineEnable: (0, schema_1.DefineSpec)('boolean'), dOutlineScale: (0, schema_1.DefineSpec)('number'), uOutlineThreshold: (0, schema_1.UniformSpec)('f') });
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var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tSsaoDepth: mol_util_1.ValueCell.create(ssaoDepthTexture), tColor: mol_util_1.ValueCell.create(colorTexture), tDepth: mol_util_1.ValueCell.create(depthTexture), tOutlines: mol_util_1.ValueCell.create(outlinesTexture), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(colorTexture.getWidth(), colorTexture.getHeight())), dOrthographic: mol_util_1.ValueCell.create(0), uNear: mol_util_1.ValueCell.create(1), uFar: mol_util_1.ValueCell.create(10000), uFogNear: mol_util_1.ValueCell.create(10000), uFogFar: mol_util_1.ValueCell.create(10000), uFogColor: mol_util_1.ValueCell.create(linear_algebra_1.Vec3.create(1, 1, 1)), uOutlineColor: mol_util_1.ValueCell.create(linear_algebra_1.Vec3.create(0, 0, 0)), uTransparentBackground: mol_util_1.ValueCell.create(false), uMaxPossibleViewZDiff: mol_util_1.ValueCell.create(0.5), dOcclusionEnable: mol_util_1.ValueCell.create(true), uOcclusionOffset: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(0, 0)), dOutlineEnable: mol_util_1.ValueCell.create(false), dOutlineScale: mol_util_1.ValueCell.create(1), uOutlineThreshold: mol_util_1.ValueCell.create(0.33) });
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@@ -120,40 +120,40 @@ var SmaaPass = /** @class */ (function () {
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//
|
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var EdgesSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uTexSizeInv: (0, schema_1.UniformSpec)('v2'), uViewport: (0, schema_1.UniformSpec)('v4'), dEdgeThreshold: (0, schema_1.DefineSpec)('number') });
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var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tColor: mol_util_1.ValueCell.create(colorTexture), uTexSizeInv: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1 / width, 1 / height)), uViewport: mol_util_1.ValueCell.create((0, linear_algebra_1.Vec4)()), dEdgeThreshold: mol_util_1.ValueCell.create(0.1) });
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//
|
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var WeightsSchema =
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var WeightsSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tEdges: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), tArea: (0, schema_1.TextureSpec)('texture', 'rgb', 'ubyte', 'linear'), tSearch: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'nearest'), uTexSizeInv: (0, schema_1.UniformSpec)('v2'), uViewport: (0, schema_1.UniformSpec)('v4'), dMaxSearchSteps: (0, schema_1.DefineSpec)('number') });
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var values =
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+
var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tEdges: mol_util_1.ValueCell.create(edgesTexture), tArea: mol_util_1.ValueCell.create(areaTexture), tSearch: mol_util_1.ValueCell.create(searchTexture), uTexSizeInv: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1 / width, 1 / height)), uViewport: mol_util_1.ValueCell.create((0, linear_algebra_1.Vec4)()), dMaxSearchSteps: mol_util_1.ValueCell.create(16) });
|
|
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// Note: loading image textures requires `HTMLImageElement` to be available
|
|
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|
(0, texture_1.loadImageTexture)(getAreaTexture(), values.tArea, areaTexture);
|
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var schema =
|
|
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|
+
var schema = tslib_1.__assign({}, WeightsSchema);
|
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|
var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', WeightsShaderCode, schema, values);
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|
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|
}
|
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//
|
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var BlendSchema =
|
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|
+
var BlendSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tColor: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), tWeights: (0, schema_1.TextureSpec)('texture', 'rgba', 'ubyte', 'linear'), uTexSizeInv: (0, schema_1.UniformSpec)('v2'), uViewport: (0, schema_1.UniformSpec)('v4') });
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var BlendShaderCode = (0, shader_code_1.ShaderCode)('smaa-blend', blend_vert_1.blend_vert, blend_frag_1.blend_frag);
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function getBlendRenderable(ctx, colorTexture, weightsTexture) {
|
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|
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var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tColor: mol_util_1.ValueCell.create(colorTexture), tWeights: mol_util_1.ValueCell.create(weightsTexture), uTexSizeInv: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(1 / width, 1 / height)), uViewport: mol_util_1.ValueCell.create((0, linear_algebra_1.Vec4)()) });
|
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+
var schema = tslib_1.__assign({}, BlendSchema);
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var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', BlendShaderCode, schema, values);
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return (0, renderable_1.createComputeRenderable)(renderItem, values);
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|
}
|
|
@@ -18,11 +18,11 @@ var quad_vert_1 = require("../../mol-gl/shader/quad.vert");
|
|
|
18
18
|
var evaluate_wboit_frag_1 = require("../../mol-gl/shader/evaluate-wboit.frag");
|
|
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|
var linear_algebra_1 = require("../../mol-math/linear-algebra");
|
|
20
20
|
var debug_1 = require("../../mol-util/debug");
|
|
21
|
-
var EvaluateWboitSchema =
|
|
21
|
+
var EvaluateWboitSchema = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadSchema), { tWboitA: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), tWboitB: (0, schema_1.TextureSpec)('texture', 'rgba', 'float', 'nearest'), uTexSize: (0, schema_1.UniformSpec)('v2') });
|
|
22
22
|
var EvaluateWboitShaderCode = (0, shader_code_1.ShaderCode)('evaluate-wboit', quad_vert_1.quad_vert, evaluate_wboit_frag_1.evaluateWboit_frag);
|
|
23
23
|
function getEvaluateWboitRenderable(ctx, wboitATexture, wboitBTexture) {
|
|
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|
-
var values =
|
|
25
|
-
var schema =
|
|
24
|
+
var values = tslib_1.__assign(tslib_1.__assign({}, util_1.QuadValues), { tWboitA: mol_util_1.ValueCell.create(wboitATexture), tWboitB: mol_util_1.ValueCell.create(wboitBTexture), uTexSize: mol_util_1.ValueCell.create(linear_algebra_1.Vec2.create(wboitATexture.getWidth(), wboitATexture.getHeight())) });
|
|
25
|
+
var schema = tslib_1.__assign({}, EvaluateWboitSchema);
|
|
26
26
|
var renderItem = (0, render_item_1.createComputeRenderItem)(ctx, 'triangles', EvaluateWboitShaderCode, schema, values);
|
|
27
27
|
return (0, renderable_1.createComputeRenderable)(renderItem, values);
|
|
28
28
|
}
|
|
@@ -47,8 +47,8 @@ function _canvasToBlob(canvas, callback, type, quality) {
|
|
|
47
47
|
callback(new Blob([a8], { type: type || 'image/png' }));
|
|
48
48
|
}
|
|
49
49
|
function canvasToBlob(canvas, type, quality) {
|
|
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|
-
return
|
|
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|
-
return
|
|
50
|
+
return tslib_1.__awaiter(this, void 0, void 0, function () {
|
|
51
|
+
return tslib_1.__generator(this, function (_a) {
|
|
52
52
|
return [2 /*return*/, new Promise(function (resolve, reject) {
|
|
53
53
|
var callback = function (blob) {
|
|
54
54
|
if (blob)
|
|
@@ -8,7 +8,7 @@
|
|
|
8
8
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
9
9
|
exports.Column = void 0;
|
|
10
10
|
var tslib_1 = require("tslib");
|
|
11
|
-
var ColumnHelpers =
|
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var ColumnHelpers = tslib_1.__importStar(require("./column-helpers"));
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var linear_algebra_1 = require("../../mol-math/linear-algebra");
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var number_parser_1 = require("../../mol-io/reader/common/text/number-parser");
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var Column;
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@@ -55,7 +55,7 @@ var Column;
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Schema.Matrix = Matrix;
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function Aliased(t, defaultValue) {
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if (typeof defaultValue !== 'undefined')
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-
return
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return tslib_1.__assign(tslib_1.__assign({}, t), { T: defaultValue });
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return t;
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}
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Schema.Aliased = Aliased;
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@@ -39,7 +39,7 @@ var Table;
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function ofColumns(schema, columns) {
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var _columns = Object.keys(columns);
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var _rowCount = columns[_columns[0]].rowCount;
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-
return
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return tslib_1.__assign({ _rowCount: _rowCount, _columns: _columns, _schema: schema }, columns);
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}
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Table.ofColumns = ofColumns;
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function ofPartialColumns(schema, partialColumns, rowCount) {
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@@ -14,5 +14,5 @@ var table_1 = require("./db/table");
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Object.defineProperty(exports, "Table", { enumerable: true, get: function () { return table_1.Table; } });
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var column_1 = require("./db/column");
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Object.defineProperty(exports, "Column", { enumerable: true, get: function () { return column_1.Column; } });
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var ColumnHelpers =
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+
var ColumnHelpers = tslib_1.__importStar(require("./db/column-helpers"));
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exports.ColumnHelpers = ColumnHelpers;
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@@ -6,6 +6,6 @@
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6
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*/
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7
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Object.defineProperty(exports, "__esModule", { value: true });
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8
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var tslib_1 = require("tslib");
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-
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10
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-
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-
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+
tslib_1.__exportStar(require("./generic/hash-set"), exports);
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+
tslib_1.__exportStar(require("./generic/linked-list"), exports);
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+
tslib_1.__exportStar(require("./generic/unique-array"), exports);
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@@ -7,13 +7,13 @@
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7
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Object.defineProperty(exports, "__esModule", { value: true });
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8
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exports.Generic = exports.Util = exports.Iterator = exports.Int = exports.DB = void 0;
|
|
9
9
|
var tslib_1 = require("tslib");
|
|
10
|
-
var DB =
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10
|
+
var DB = tslib_1.__importStar(require("./db"));
|
|
11
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|
exports.DB = DB;
|
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12
|
-
var Int =
|
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12
|
+
var Int = tslib_1.__importStar(require("./int"));
|
|
13
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|
exports.Int = Int;
|
|
14
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|
var iterator_1 = require("./iterator");
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15
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Object.defineProperty(exports, "Iterator", { enumerable: true, get: function () { return iterator_1.Iterator; } });
|
|
16
|
-
var Util =
|
|
16
|
+
var Util = tslib_1.__importStar(require("./util"));
|
|
17
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|
exports.Util = Util;
|
|
18
|
-
var Generic =
|
|
18
|
+
var Generic = tslib_1.__importStar(require("./generic"));
|
|
19
19
|
exports.Generic = Generic;
|
|
@@ -7,7 +7,7 @@
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|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
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|
8
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|
exports.Interval = void 0;
|
|
9
9
|
var tslib_1 = require("tslib");
|
|
10
|
-
var Impl =
|
|
10
|
+
var Impl = tslib_1.__importStar(require("./impl/interval"));
|
|
11
11
|
var Interval;
|
|
12
12
|
(function (Interval) {
|
|
13
13
|
Interval.Empty = Impl.Empty;
|
|
@@ -7,7 +7,7 @@
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|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
8
|
exports.OrderedSet = void 0;
|
|
9
9
|
var tslib_1 = require("tslib");
|
|
10
|
-
var Base =
|
|
10
|
+
var Base = tslib_1.__importStar(require("./impl/ordered-set"));
|
|
11
11
|
var interval_1 = require("./interval");
|
|
12
12
|
var OrderedSet;
|
|
13
13
|
(function (OrderedSet) {
|
|
@@ -7,7 +7,7 @@
|
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
8
|
exports.Segmentation = void 0;
|
|
9
9
|
var tslib_1 = require("tslib");
|
|
10
|
-
var Impl =
|
|
10
|
+
var Impl = tslib_1.__importStar(require("./impl/segmentation"));
|
|
11
11
|
var Segmentation;
|
|
12
12
|
(function (Segmentation) {
|
|
13
13
|
Segmentation.create = Impl.create;
|
|
@@ -7,7 +7,7 @@
|
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
8
|
exports.SortedArray = void 0;
|
|
9
9
|
var tslib_1 = require("tslib");
|
|
10
|
-
var Impl =
|
|
10
|
+
var Impl = tslib_1.__importStar(require("./impl/sorted-array"));
|
|
11
11
|
var SortedArray;
|
|
12
12
|
(function (SortedArray) {
|
|
13
13
|
SortedArray.Empty = Impl.Empty;
|
|
@@ -6,10 +6,10 @@
|
|
|
6
6
|
*/
|
|
7
7
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
8
8
|
var tslib_1 = require("tslib");
|
|
9
|
-
|
|
10
|
-
|
|
11
|
-
|
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12
|
-
|
|
13
|
-
|
|
14
|
-
|
|
15
|
-
|
|
9
|
+
tslib_1.__exportStar(require("./util/chunked-array"), exports);
|
|
10
|
+
tslib_1.__exportStar(require("./util/buckets"), exports);
|
|
11
|
+
tslib_1.__exportStar(require("./util/equivalence-classes"), exports);
|
|
12
|
+
tslib_1.__exportStar(require("./util/hash-functions"), exports);
|
|
13
|
+
tslib_1.__exportStar(require("./util/sort"), exports);
|
|
14
|
+
tslib_1.__exportStar(require("./util/grouping"), exports);
|
|
15
|
+
tslib_1.__exportStar(require("./util/array"), exports);
|