higlass 1.13.5 → 2.0.0
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/README.md +48 -54
- package/app/globals.d.ts +1 -1
- package/app/missing-types.d.ts +4 -1
- package/app/scripts/AddTrackDialog.jsx +11 -4
- package/app/scripts/AddTrackPositionMenu.jsx +28 -7
- package/app/scripts/Annotations1dTrack.js +90 -251
- package/app/scripts/Annotations2dTrack.js +12 -7
- package/app/scripts/Autocomplete.jsx +13 -28
- package/app/scripts/AxisPixi.js +6 -10
- package/app/scripts/BarTrack.js +3 -3
- package/app/scripts/BedLikeTrack.js +556 -449
- package/app/scripts/Button.jsx +1 -1
- package/app/scripts/CNVIntervalTrack.js +1 -1
- package/app/scripts/CenterTrack.jsx +8 -7
- package/app/scripts/Chromosome2DAnnotations.js +1 -1
- package/app/scripts/Chromosome2DLabels.js +1 -1
- package/app/scripts/ChromosomeGrid.js +49 -38
- package/app/scripts/ChromosomeInfo.js +1 -1
- package/app/scripts/CombinedTrack.js +3 -1
- package/app/scripts/ConfigTrackMenu.jsx +1 -1
- package/app/scripts/ConfigViewMenu.jsx +2 -2
- package/app/scripts/ContextMenuContainer.jsx +4 -2
- package/app/scripts/ContextMenuItem.jsx +14 -2
- package/app/scripts/CrossRule.js +1 -1
- package/app/scripts/CustomTrackDialog.jsx +2 -2
- package/app/scripts/Dialog.jsx +2 -2
- package/app/scripts/DragListeningDiv.jsx +1 -1
- package/app/scripts/DraggableDiv.jsx +2 -3
- package/app/scripts/ExportLinkDialog.jsx +1 -1
- package/app/scripts/FilledLine.js +349 -0
- package/app/scripts/GalleryTracks.jsx +77 -78
- package/app/scripts/GenomePositionSearchBox.jsx +184 -482
- package/app/scripts/HeatmapOptions.jsx +4 -2
- package/app/scripts/HeatmapTiledPixiTrack.js +23 -32
- package/app/scripts/HiGlassComponent.jsx +515 -444
- package/app/scripts/HiGlassComponentContext.js +5 -0
- package/app/scripts/Horizontal1dHeatmapTrack.js +1 -1
- package/app/scripts/Horizontal2DDomainsTrack.js +1 -1
- package/app/scripts/HorizontalChromosomeLabels.js +28 -22
- package/app/scripts/HorizontalGeneAnnotationsTrack.js +1 -1
- package/app/scripts/HorizontalHeatmapTrack.js +2 -2
- package/app/scripts/HorizontalMultivecTrack.js +6 -7
- package/app/scripts/HorizontalRule.js +1 -2
- package/app/scripts/HorizontalTiled1DPixiTrack.js +4 -4
- package/app/scripts/HorizontalTiledPlot.jsx +9 -9
- package/app/scripts/LeftTrackModifier.js +4 -0
- package/app/scripts/ListWrapper.jsx +1 -2
- package/app/scripts/MapboxTilesTrack.js +1 -2
- package/app/scripts/Modal.jsx +2 -2
- package/app/scripts/MoveableTrack.jsx +10 -12
- package/app/scripts/NestedContextMenu.jsx +2 -1
- package/app/scripts/OSMTileIdsTrack.js +1 -1
- package/app/scripts/OverlayTrack.js +4 -4
- package/app/scripts/PixiTrack.js +27 -13
- package/app/scripts/PlotTypeChooser.jsx +3 -4
- package/app/scripts/SearchField.js +5 -5
- package/app/scripts/SeriesListItems.jsx +3 -4
- package/app/scripts/SeriesListMenu.jsx +95 -53
- package/app/scripts/SeriesListSubmenuMixin.jsx +2 -1
- package/app/scripts/SketchInlinePicker.jsx +2 -2
- package/app/scripts/SortableList.jsx +1 -1
- package/app/scripts/Tiled1DPixiTrack.js +4 -1
- package/app/scripts/TiledPixiTrack.js +244 -102
- package/app/scripts/TiledPlot.jsx +565 -118
- package/app/scripts/TilesetFinder.jsx +12 -4
- package/app/scripts/Track.js +1 -1
- package/app/scripts/TrackArea.jsx +4 -0
- package/app/scripts/TrackControl.jsx +2 -2
- package/app/scripts/TrackRenderer.jsx +32 -33
- package/app/scripts/ValueIntervalTrack.js +1 -1
- package/app/scripts/VerticalRule.js +2 -2
- package/app/scripts/VerticalTiledPlot.jsx +7 -7
- package/app/scripts/ViewConfigEditor.jsx +1 -1
- package/app/scripts/ViewContextMenu.jsx +53 -5
- package/app/scripts/ViewHeader.jsx +9 -9
- package/app/scripts/ViewportTracker2D.js +1 -1
- package/app/scripts/api.js +92 -12
- package/app/scripts/configs/available-track-types.js +1 -1
- package/app/scripts/configs/index.js +6 -1
- package/app/scripts/configs/positions-by-datatype.js +2 -2
- package/app/scripts/configs/primitives.js +2 -0
- package/app/scripts/configs/themes.js +0 -1
- package/app/scripts/configs/tracks-info-by-type.js +11 -8
- package/app/scripts/configs/tracks-info.js +3 -2
- package/app/scripts/d3-context-menu.js +3 -4
- package/app/scripts/data-fetchers/DataFetcher.js +35 -36
- package/app/scripts/data-fetchers/genbank-fetcher.js +13 -22
- package/app/scripts/data-fetchers/local-tile-fetcher.js +10 -8
- package/app/scripts/hglib.jsx +62 -71
- package/app/scripts/hocs/with-modal.jsx +32 -10
- package/app/scripts/hocs/with-pub-sub.js +12 -3
- package/app/scripts/hocs/with-theme.jsx +21 -14
- package/app/scripts/icons.jsx +3 -2
- package/app/scripts/mixwith.js +2 -2
- package/app/scripts/options-info.js +49 -11
- package/app/scripts/plugins/get-data-fetcher.js +2 -3
- package/app/scripts/services/chrom-info.js +32 -4
- package/app/scripts/services/element-resize-listener.js +2 -2
- package/app/scripts/services/index.js +0 -1
- package/app/scripts/services/tile-proxy.js +368 -285
- package/app/scripts/services/worker.js +31 -28
- package/app/scripts/test-helpers/index.js +2 -1
- package/app/scripts/test-helpers/test-helpers.jsx +157 -69
- package/app/scripts/types.ts +118 -47
- package/app/scripts/utils/LruCache.js +3 -2
- package/app/scripts/utils/assert.js +19 -0
- package/app/scripts/utils/background-task-scheduler.js +2 -0
- package/app/scripts/utils/color-domain-to-rgba-array.js +13 -3
- package/app/scripts/utils/copy-text-to-clipboard.js +36 -0
- package/app/scripts/utils/decompress.js +33 -0
- package/app/scripts/utils/default-tracks.js +46 -0
- package/app/scripts/utils/dict-items.js +1 -0
- package/app/scripts/utils/dict-keys.js +1 -0
- package/app/scripts/utils/dict-values.js +1 -0
- package/app/scripts/utils/expand-combined-tracks.js +11 -7
- package/app/scripts/utils/fill-in-min-widths.js +47 -21
- package/app/scripts/utils/flatten.js +0 -1
- package/app/scripts/utils/get-aggregation-function.js +1 -1
- package/app/scripts/utils/get-default-track-for-datatype.js +37 -10
- package/app/scripts/utils/get-default-tracks-for-datatype.ts +46 -0
- package/app/scripts/utils/get-higlass-components.js +27 -3
- package/app/scripts/utils/get-track-position-by-uid.js +8 -1
- package/app/scripts/utils/get-xylofon.js +12 -9
- package/app/scripts/utils/has-parent.js +5 -5
- package/app/scripts/utils/hex-string-to-int.js +1 -1
- package/app/scripts/utils/index.js +1 -0
- package/app/scripts/utils/interval-tree.js +222 -177
- package/app/scripts/utils/load-chrom-infos.js +4 -1
- package/app/scripts/utils/pixi-text-to-svg.js +5 -9
- package/app/scripts/utils/positioned-tracks-to-all-tracks.js +55 -0
- package/app/scripts/utils/range-query-2d.js +3 -3
- package/app/scripts/utils/reduce.js +12 -5
- package/app/scripts/utils/segments-to-rows.js +14 -11
- package/app/scripts/utils/svg-line.js +7 -8
- package/app/scripts/utils/type-guards.js +16 -7
- package/app/scripts/utils/visit-positioned-tracks.js +9 -4
- package/app/styles/AddTrackPositionMenu.module.scss +37 -0
- package/app/styles/HiGlass.module.scss +3 -1
- package/app/styles/d3-context-menu.css +0 -1
- package/app/styles/prism.css +1 -0
- package/dist/app/schema.json +525 -0
- package/dist/app/scripts/AddTrackDialog.d.ts +64 -0
- package/dist/app/scripts/AddTrackPositionMenu.d.ts +5 -0
- package/dist/app/scripts/Annotations1dTrack.d.ts +15 -0
- package/dist/app/scripts/Annotations2dTrack.d.ts +95 -0
- package/dist/app/scripts/ArrowheadDomainsTrack.d.ts +36 -0
- package/dist/app/scripts/Autocomplete.d.ts +102 -0
- package/dist/app/scripts/AxisPixi.d.ts +25 -0
- package/dist/app/scripts/BarTrack.d.ts +28 -0
- package/dist/app/scripts/BedLikeTrack.d.ts +84 -0
- package/dist/app/scripts/Button.d.ts +3 -0
- package/dist/app/scripts/CNVIntervalTrack.d.ts +12 -0
- package/dist/app/scripts/CenterTiledPlot.d.ts +3 -0
- package/dist/app/scripts/CenterTrack.d.ts +92 -0
- package/dist/app/scripts/Chromosome2DAnnotations.d.ts +10 -0
- package/dist/app/scripts/Chromosome2DLabels.d.ts +13 -0
- package/dist/app/scripts/ChromosomeGrid.d.ts +24 -0
- package/dist/app/scripts/ChromosomeInfo.d.ts +14 -0
- package/dist/app/scripts/CloseTrackMenu.d.ts +10 -0
- package/dist/app/scripts/CombinedTrack.d.ts +32 -0
- package/dist/app/scripts/ConfigTrackMenu.d.ts +10 -0
- package/dist/app/scripts/ConfigViewMenu.d.ts +34 -0
- package/dist/app/scripts/ConfigureSeriesMenu.d.ts +3 -0
- package/dist/app/scripts/ContextMenuContainer.d.ts +36 -0
- package/dist/app/scripts/ContextMenuItem.d.ts +34 -0
- package/dist/app/scripts/Cross.d.ts +3 -0
- package/dist/app/scripts/CrossRule.d.ts +24 -0
- package/dist/app/scripts/CustomTrackDialog.d.ts +17 -0
- package/dist/app/scripts/Dialog.d.ts +5 -0
- package/dist/app/scripts/DivergentBarTrack.d.ts +4 -0
- package/dist/app/scripts/DragListeningDiv.d.ts +32 -0
- package/dist/app/scripts/DraggableDiv.d.ts +63 -0
- package/dist/app/scripts/ExportLinkDialog.d.ts +21 -0
- package/dist/app/scripts/FilledLine.d.ts +5 -0
- package/dist/app/scripts/FixedTrack.d.ts +5 -0
- package/dist/app/scripts/GalleryTracks.d.ts +20 -0
- package/dist/app/scripts/GenomePositionSearchBox.d.ts +95 -0
- package/dist/app/scripts/HeatmapOptions.d.ts +30 -0
- package/dist/app/scripts/HeatmapTiledPixiTrack.d.ts +184 -0
- package/dist/app/scripts/HiGlassComponent.d.ts +762 -0
- package/dist/app/scripts/HiGlassComponentContext.d.ts +3 -0
- package/dist/app/scripts/HiGlassTrackComponent.d.ts +37 -0
- package/dist/app/scripts/Horizontal1dHeatmapTrack.d.ts +9 -0
- package/dist/app/scripts/Horizontal2DDomainsTrack.d.ts +21 -0
- package/dist/app/scripts/HorizontalChromosomeLabels.d.ts +47 -0
- package/dist/app/scripts/HorizontalGeneAnnotationsTrack.d.ts +25 -0
- package/dist/app/scripts/HorizontalHeatmapTrack.d.ts +12 -0
- package/dist/app/scripts/HorizontalItem.d.ts +3 -0
- package/dist/app/scripts/HorizontalLine1DPixiTrack.d.ts +23 -0
- package/dist/app/scripts/HorizontalMultivecTrack.d.ts +50 -0
- package/dist/app/scripts/HorizontalPoint1DPixiTrack.d.ts +5 -0
- package/dist/app/scripts/HorizontalRule.d.ts +22 -0
- package/dist/app/scripts/HorizontalTiled1DPixiTrack.d.ts +26 -0
- package/dist/app/scripts/HorizontalTiledPlot.d.ts +49 -0
- package/dist/app/scripts/HorizontalTrack.d.ts +6 -0
- package/dist/app/scripts/Id2DTiledPixiTrack.d.ts +10 -0
- package/dist/app/scripts/IdHorizontal1DTiledPixiTrack.d.ts +6 -0
- package/dist/app/scripts/IdVertical1DTiledPixiTrack.d.ts +7 -0
- package/dist/app/scripts/LeftAxisTrack.d.ts +9 -0
- package/dist/app/scripts/LeftTrackModifier.d.ts +29 -0
- package/dist/app/scripts/ListWrapper.d.ts +64 -0
- package/dist/app/scripts/MapboxTilesTrack.d.ts +9 -0
- package/dist/app/scripts/Modal.d.ts +5 -0
- package/dist/app/scripts/MoveableTrack.d.ts +18 -0
- package/dist/app/scripts/NestedContextMenu.d.ts +7 -0
- package/dist/app/scripts/OSMTileIdsTrack.d.ts +5 -0
- package/dist/app/scripts/OSMTilesTrack.d.ts +129 -0
- package/dist/app/scripts/OverlayTrack.d.ts +13 -0
- package/dist/app/scripts/PixiTrack.d.ts +174 -0
- package/dist/app/scripts/PlotTypeChooser.d.ts +25 -0
- package/dist/app/scripts/PopupMenu.d.ts +28 -0
- package/dist/app/scripts/RasterTilesTrack.d.ts +9 -0
- package/dist/app/scripts/RuleMixin.d.ts +2 -0
- package/dist/app/scripts/SVGTrack.d.ts +15 -0
- package/dist/app/scripts/SearchField.d.ts +13 -0
- package/dist/app/scripts/SeriesListItems.d.ts +2 -0
- package/dist/app/scripts/SeriesListMenu.d.ts +51 -0
- package/dist/app/scripts/SeriesListSubmenuMixin.d.ts +2 -0
- package/dist/app/scripts/SketchInlinePicker.d.ts +25 -0
- package/dist/app/scripts/SortableList.d.ts +22 -0
- package/dist/app/scripts/SquareMarkersTrack.d.ts +22 -0
- package/dist/app/scripts/Tiled1DPixiTrack.d.ts +60 -0
- package/dist/app/scripts/TiledPixiTrack.d.ts +369 -0
- package/dist/app/scripts/TiledPlot.d.ts +313 -0
- package/dist/app/scripts/TilesetFinder.d.ts +65 -0
- package/dist/app/scripts/TopAxisTrack.d.ts +9 -0
- package/dist/app/scripts/Track.d.ts +196 -0
- package/dist/app/scripts/TrackArea.d.ts +26 -0
- package/dist/app/scripts/TrackControl.d.ts +5 -0
- package/dist/app/scripts/TrackRenderer.d.ts +724 -0
- package/dist/app/scripts/UnknownPixiTrack.d.ts +7 -0
- package/dist/app/scripts/ValueIntervalTrack.d.ts +6 -0
- package/dist/app/scripts/VerticalItem.d.ts +3 -0
- package/dist/app/scripts/VerticalRule.d.ts +21 -0
- package/dist/app/scripts/VerticalTiled1DPixiTrack.d.ts +6 -0
- package/dist/app/scripts/VerticalTiledPlot.d.ts +50 -0
- package/dist/app/scripts/VerticalTrack.d.ts +6 -0
- package/dist/app/scripts/ViewConfigEditor.d.ts +53 -0
- package/dist/app/scripts/ViewContextMenu.d.ts +17 -0
- package/dist/app/scripts/ViewHeader.d.ts +75 -0
- package/dist/app/scripts/ViewportTracker2D.d.ts +17 -0
- package/dist/app/scripts/ViewportTracker2DPixi.d.ts +11 -0
- package/dist/app/scripts/ViewportTrackerHorizontal.d.ts +17 -0
- package/dist/app/scripts/ViewportTrackerVertical.d.ts +17 -0
- package/dist/app/scripts/api.d.ts +640 -0
- package/dist/app/scripts/configs/available-track-types.d.ts +2 -0
- package/dist/app/scripts/configs/colormaps.d.ts +2 -0
- package/dist/app/scripts/configs/datatype-to-track-type.d.ts +4 -0
- package/dist/app/scripts/configs/default-tracks-for-datatype.d.ts +38 -0
- package/dist/app/scripts/configs/dense-data-extrema-config.d.ts +2 -0
- package/dist/app/scripts/configs/globals.d.ts +5 -0
- package/dist/app/scripts/configs/index.d.ts +16 -0
- package/dist/app/scripts/configs/positions-by-datatype.d.ts +2 -0
- package/dist/app/scripts/configs/primitives.d.ts +20 -0
- package/dist/app/scripts/configs/themes.d.ts +3 -0
- package/dist/app/scripts/configs/tracks-info-by-type.d.ts +4 -0
- package/dist/app/scripts/configs/tracks-info.d.ts +24 -0
- package/dist/app/scripts/d3-context-menu.d.ts +2 -0
- package/dist/app/scripts/data-fetchers/DataFetcher.d.ts +151 -0
- package/dist/app/scripts/data-fetchers/genbank-fetcher.d.ts +86 -0
- package/dist/app/scripts/data-fetchers/index.d.ts +3 -0
- package/dist/app/scripts/data-fetchers/local-tile-fetcher.d.ts +47 -0
- package/dist/app/scripts/gosling-exports.d.ts +17 -0
- package/dist/app/scripts/hglib.d.ts +24 -0
- package/dist/app/scripts/hocs/with-modal.d.ts +19 -0
- package/dist/app/scripts/hocs/with-pub-sub.d.ts +22 -0
- package/dist/app/scripts/hocs/with-theme.d.ts +13 -0
- package/dist/app/scripts/icons.d.ts +161 -0
- package/dist/app/scripts/mixwith.d.ts +27 -0
- package/dist/app/scripts/options-info.d.ts +1355 -0
- package/dist/app/scripts/plugins/available-for-plugins.d.ts +2338 -0
- package/dist/app/scripts/plugins/get-data-fetcher.d.ts +2 -0
- package/dist/app/scripts/plugins/index.d.ts +2 -0
- package/dist/app/scripts/services/chrom-info.d.ts +10 -0
- package/dist/app/scripts/services/dom-event.d.ts +7 -0
- package/dist/app/scripts/services/element-resize-listener.d.ts +5 -0
- package/dist/app/scripts/services/index.d.ts +5 -0
- package/dist/app/scripts/services/tile-proxy.d.ts +180 -0
- package/dist/app/scripts/services/worker.d.ts +157 -0
- package/dist/app/scripts/symbol.d.ts +13 -0
- package/dist/app/scripts/test-helpers/index.d.ts +1 -0
- package/dist/app/scripts/test-helpers/test-helpers.d.ts +33 -0
- package/dist/app/scripts/track-utils.d.ts +73 -0
- package/dist/app/scripts/types.d.ts +199 -0
- package/dist/app/scripts/utils/DenseDataExtrema1D.d.ts +88 -0
- package/dist/app/scripts/utils/DenseDataExtrema2D.d.ts +97 -0
- package/dist/app/scripts/utils/LruCache.d.ts +44 -0
- package/dist/app/scripts/utils/abs-to-chr.d.ts +14 -0
- package/dist/app/scripts/utils/accessor-transposition.d.ts +14 -0
- package/dist/app/scripts/utils/add-arrays.d.ts +18 -0
- package/dist/app/scripts/utils/add-class.d.ts +8 -0
- package/dist/app/scripts/utils/add-event-listener-once.d.ts +11 -0
- package/dist/app/scripts/utils/assert.d.ts +17 -0
- package/dist/app/scripts/utils/background-task-scheduler.d.ts +47 -0
- package/dist/app/scripts/utils/base64-to-canvas.d.ts +9 -0
- package/dist/app/scripts/utils/chr-to-abs.d.ts +10 -0
- package/dist/app/scripts/utils/chrom-info-bisector.d.ts +4 -0
- package/dist/app/scripts/utils/clone-event.d.ts +12 -0
- package/dist/app/scripts/utils/color-domain-to-rgba-array.d.ts +13 -0
- package/dist/app/scripts/utils/color-to-hex.d.ts +9 -0
- package/dist/app/scripts/utils/color-to-rgba.d.ts +9 -0
- package/dist/app/scripts/utils/copy-text-to-clipboard.d.ts +2 -0
- package/dist/app/scripts/utils/data-to-genomic-loci.d.ts +11 -0
- package/dist/app/scripts/utils/debounce.d.ts +5 -0
- package/dist/app/scripts/utils/dec-to-hex-str.d.ts +8 -0
- package/dist/app/scripts/utils/decompress.d.ts +27 -0
- package/dist/app/scripts/utils/default-tracks.d.ts +3 -0
- package/dist/app/scripts/utils/dict-from-tuples.d.ts +11 -0
- package/dist/app/scripts/utils/dict-items.d.ts +18 -0
- package/dist/app/scripts/utils/dict-keys.d.ts +10 -0
- package/dist/app/scripts/utils/dict-values.d.ts +8 -0
- package/dist/app/scripts/utils/download.d.ts +7 -0
- package/dist/app/scripts/utils/expand-combined-tracks.d.ts +11 -0
- package/dist/app/scripts/utils/fake-pub-sub.d.ts +11 -0
- package/dist/app/scripts/utils/fill-in-min-widths.d.ts +44 -0
- package/dist/app/scripts/utils/flatten.d.ts +9 -0
- package/dist/app/scripts/utils/for-each.d.ts +9 -0
- package/dist/app/scripts/utils/forward-event.d.ts +7 -0
- package/dist/app/scripts/utils/genome-loci-to-pixels.d.ts +9 -0
- package/dist/app/scripts/utils/genomic-range-to-chromosome-chunks.d.ts +21 -0
- package/dist/app/scripts/utils/get-aggregation-function.d.ts +10 -0
- package/dist/app/scripts/utils/get-default-track-for-datatype.d.ts +21 -0
- package/dist/app/scripts/utils/get-default-tracks-for-datatype.d.ts +3 -0
- package/dist/app/scripts/utils/get-element-dim.d.ts +7 -0
- package/dist/app/scripts/utils/get-higlass-components.d.ts +7 -0
- package/dist/app/scripts/utils/get-track-by-uid.d.ts +7 -0
- package/dist/app/scripts/utils/get-track-conf-from-hgc.d.ts +10 -0
- package/dist/app/scripts/utils/get-track-obj-by-id.d.ts +2 -0
- package/dist/app/scripts/utils/get-track-position-by-uid.d.ts +13 -0
- package/dist/app/scripts/utils/get-xylofon.d.ts +2 -0
- package/dist/app/scripts/utils/gradient.d.ts +14 -0
- package/dist/app/scripts/utils/has-class.d.ts +8 -0
- package/dist/app/scripts/utils/has-parent.d.ts +9 -0
- package/dist/app/scripts/utils/hex-string-to-int.d.ts +14 -0
- package/dist/app/scripts/utils/index.d.ts +89 -0
- package/dist/app/scripts/utils/interval-tree.d.ts +109 -0
- package/dist/app/scripts/utils/into-the-void.d.ts +6 -0
- package/dist/app/scripts/utils/is-track-or-child-track.d.ts +7 -0
- package/dist/app/scripts/utils/is-track-range-selectable.d.ts +2 -0
- package/dist/app/scripts/utils/is-within.d.ts +12 -0
- package/dist/app/scripts/utils/lat-to-y.d.ts +9 -0
- package/dist/app/scripts/utils/lng-to-x.d.ts +8 -0
- package/dist/app/scripts/utils/load-chrom-infos.d.ts +8 -0
- package/dist/app/scripts/utils/map.d.ts +13 -0
- package/dist/app/scripts/utils/max-non-zero.d.ts +6 -0
- package/dist/app/scripts/utils/max.d.ts +10 -0
- package/dist/app/scripts/utils/min-non-zero.d.ts +6 -0
- package/dist/app/scripts/utils/min.d.ts +10 -0
- package/dist/app/scripts/utils/mod.d.ts +9 -0
- package/dist/app/scripts/utils/ndarray-assign.d.ts +2 -0
- package/dist/app/scripts/utils/ndarray-flatten.d.ts +2 -0
- package/dist/app/scripts/utils/ndarray-to-list.d.ts +2 -0
- package/dist/app/scripts/utils/numericify-version.d.ts +6 -0
- package/dist/app/scripts/utils/obj-vals.d.ts +8 -0
- package/dist/app/scripts/utils/or.d.ts +8 -0
- package/dist/app/scripts/utils/parse-chromsizes-rows.d.ts +34 -0
- package/dist/app/scripts/utils/pixi-text-to-svg.d.ts +2 -0
- package/dist/app/scripts/utils/positioned-tracks-to-all-tracks.d.ts +26 -0
- package/dist/app/scripts/utils/q.d.ts +18 -0
- package/dist/app/scripts/utils/rad-to-deg.d.ts +7 -0
- package/dist/app/scripts/utils/range-query-2d.d.ts +17 -0
- package/dist/app/scripts/utils/reduce.d.ts +14 -0
- package/dist/app/scripts/utils/rel-to-abs-chrom-pos.d.ts +10 -0
- package/dist/app/scripts/utils/remove-class.d.ts +7 -0
- package/dist/app/scripts/utils/reset-d3-brush-style.d.ts +10 -0
- package/dist/app/scripts/utils/rgb-to-hex.d.ts +8 -0
- package/dist/app/scripts/utils/scales-center-and-k.d.ts +12 -0
- package/dist/app/scripts/utils/scales-to-genome-loci.d.ts +3 -0
- package/dist/app/scripts/utils/segments-to-rows.d.ts +15 -0
- package/dist/app/scripts/utils/selected-items-to-cum-weights.d.ts +12 -0
- package/dist/app/scripts/utils/selected-items-to-size.d.ts +13 -0
- package/dist/app/scripts/utils/show-mouse-position.d.ts +54 -0
- package/dist/app/scripts/utils/some.d.ts +10 -0
- package/dist/app/scripts/utils/sum.d.ts +8 -0
- package/dist/app/scripts/utils/svg-line.d.ts +2 -0
- package/dist/app/scripts/utils/throttle-and-debounce.d.ts +33 -0
- package/dist/app/scripts/utils/tile-to-canvas.d.ts +9 -0
- package/dist/app/scripts/utils/timeout.d.ts +3 -0
- package/dist/app/scripts/utils/to-void.d.ts +3 -0
- package/dist/app/scripts/utils/total-track-pixel-height.d.ts +27 -0
- package/dist/app/scripts/utils/trim-trailing-slash.d.ts +7 -0
- package/dist/app/scripts/utils/type-guards.d.ts +36 -0
- package/dist/app/scripts/utils/value-to-color.d.ts +12 -0
- package/dist/app/scripts/utils/visit-positioned-tracks.d.ts +18 -0
- package/dist/app/scripts/utils/visit-tracks.d.ts +9 -0
- package/dist/esm.html +1 -3
- package/dist/hglib.js +86315 -100592
- package/dist/hglib.min.js +123 -131
- package/dist/higlass.mjs +88861 -103138
- package/dist/index.html +1 -3
- package/dist/package.json +134 -0
- package/package.json +25 -27
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/** @typedef {import('./types').Scale} Scale */
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/** @typedef {import('./types').TrackConfig} TrackConfig */
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/** @typedef {import('./types').TrackObject} TrackObject */
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/** @typedef {import('./types').TilesetInfo} TilesetInfo */
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/** @typedef {TrackRenderer["setCenter"]} SetCentersFunction */
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/** @typedef {(x: Scale, y: Scale) => [Scale, Scale]} ProjectorFunction */
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/**
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* @typedef TrackDefinition
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* @property {TrackConfig} track
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* @property {number} width
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* @property {number} height
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* @property {number} top
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* @property {number} left
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*/
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/**
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* @typedef MetaPluginTrackContext
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* @property {(trackId: string) => TrackObject | undefined} getTrackObject
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* @property {() => void} onNewTilesLoaded
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* @property {TrackConfig} definition
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*/
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/**
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* @typedef {Object} PluginTrackContext
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* @property {string} id
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* @property {string} trackUid
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* @property {string} trackType
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* @property {string} viewUid
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* @property {import('pub-sub-es').PubSub} pubSub
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* @property {import("pixi.js").Graphics} scene
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* @property {Record<string, unknown>} dataConfig
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* @property {unknown} dataFetcher
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* @property {() => unknown} getLockGroupExtrema
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* @property {(tilesetInfo: TilesetInfo) => void} handleTilesetInfoReceived
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* @property {() => void} animate
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* @property {HTMLElement} svgElement
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* @property {() => boolean} isValueScaleLocked
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* @property {() => void} onValueScaleChanged
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* @property {(newOption: Record<string, unknown>) => void} onTrackOptionsChanged
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* @property {() => void} onMouseMoveZoom
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* @property {string=} chromInfoPath
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* @property {() => boolean} isShowGlobalMousePosition
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* @property {() => import('./types').Theme} getTheme
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* @property {unknown=} AVAILABLE_FOR_PLUGINS
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* @property {(HTMLDivElement | null)=} baseEl
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* @property {TrackConfig=} definition
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* @property {number=} x
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* @property {number=} y
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* @property {number=} xPosition
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* @property {number=} yPosition
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* @property {[number, number]=} projectionXDomain
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* @property {[number, number]=} projectionYDomain
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* @property {unknown=} registerViewportChanged
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* @property {unknown=} removeViewportChanged
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* @property {unknown=} setDomainsCallback
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* @property {TrackConfig[]=} tracks
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* @property {TrackRenderer["createTrackObject"]=} createTrackObject
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* @property {string=} orientation
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* @property {boolean=} isOverlay
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*/
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/**
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* @typedef PluginTrack
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* @property {{ new (availableForPlugins: unknown, context: PluginTrackContext, options: Record<string, unknown>): TrackObject }} track
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* @property {false=} isMetaTrack
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*/
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/**
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* @typedef MetaPluginTrack
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* @property {{ new (availableForPlugins: unknown, context: MetaPluginTrackContext, options: Record<string, unknown>): TrackObject }} track
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* @property {true} isMetaTrack
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*/
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/**
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* @template T
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* @typedef {T & { __zoom?: import('d3-zoom').ZoomTransform }} WithZoomTransform
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*/
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/**
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* @typedef TrackRendererProps
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* @property {HTMLElement} canvasElement
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* @property {number} centerHeight
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* @property {number} centerWidth
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* @property {Array<JSX.Element>} children
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* @property {number} galleryDim
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* @property {number} height
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* @property {[number, number]} initialXDomain
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* @property {[number, number]} initialYDomain
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* @property {boolean} isShowGlobalMousePosition
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* @property {boolean} isRangeSelection
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* @property {number} leftWidth
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* @property {number} leftWidthNoGallery
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* @property {number} paddingLeft
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* @property {number} paddingTop
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* @property {Array<TrackConfig>} metaTracks
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* @property {() => void} onMouseMoveZoom
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* @property {(trackId?: string) => void} onNewTilesLoaded
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* @property {(x: Scale, y: Scale) => void} onScalesChanged
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* @property {import("pixi.js").Renderer} pixiRenderer
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* @property {import("pixi.js").Container} pixiStage
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* @property {Record<string, unknown>} pluginDataFetchers
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* @property {Record<string, PluginTrack | MetaPluginTrack>} pluginTracks
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* @property {Array<TrackDefinition>} positionedTracks
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* @property {import('pub-sub-es').PubSub} pubSub
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* @property {(func: SetCentersFunction) => void} setCentersFunction
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* @property {HTMLElement} svgElement
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* @property {import('./types').Theme} theme
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* @property {number} topHeight
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* @property {number} topHeightNoGallery
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* @property {{ backgroundColor?: string }} viewOptions
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* @property {number} width
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* @property {[number, number]} xDomainLimits
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* @property {[number, number]} yDomainLimits
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* @property {boolean} valueScaleZoom
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* @property {boolean} zoomable
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* @property {[number, number]} zoomDomain
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* @property {[number, number]} zoomLimits
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* @property {string} uid
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* @property {boolean} dragging
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* @property {(func: (draggingStatus: boolean) => void) => void} registerDraggingChangedListener
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* @property {boolean} disableTrackMenu
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* @property {(listener: (draggingStatus: boolean) => void) => void} removeDraggingChangedListener
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* @property {(trackId: string, tilesetInfo: TilesetInfo) => void} onTilesetInfoReceived
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* @property {(trackId: string) => unknown} getLockGroupExtrema
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* @property {(trackId: string) => boolean} isValueScaleLocked
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* @property {(trackId: string) => void} onValueScaleChanged
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* @property {(trackId: string, newOption: Record<string, unknown>) => void} onTrackOptionsChanged
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*/
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/**
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* @extends {React.Component<TrackRendererProps>}
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*/
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export class TrackRenderer extends React.Component<TrackRendererProps, any, any> {
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/**
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* Maintain a list of tracks, and re-render them whenever either
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* their size changes or the zoom level changes
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*
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* Zooming changes the domain of the scales.
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*
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* Resizing changes the range. Both trigger a rerender.
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*
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* @param {TrackRendererProps} props
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*/
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constructor(props: TrackRendererProps);
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/** @type {boolean} */
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dragging: boolean;
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/** @type {WithZoomTransform<HTMLElement> | null} */
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element: WithZoomTransform<HTMLElement> | null;
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/** @type {HTMLElement | null} */
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eventTracker: HTMLElement | null;
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/** @type {HTMLElement | null} */
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eventTrackerOld: HTMLElement | null;
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/** @type {boolean} */
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closing: boolean;
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/** @type {number} */
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yPositionOffset: number;
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/** @type {number} */
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xPositionOffset: number;
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/** @type {number} */
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scrollTop: number;
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/** @type {ReturnType<typeof setTimeout> | null} */
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scrollTimeout: ReturnType<typeof setTimeout> | null;
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/** @type {number} */
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activeTransitions: number;
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/** @type {import('d3-zoom').ZoomTransform} */
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zoomTransform: import("d3-zoom").ZoomTransform;
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/** @type {() => void} */
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windowScrolledBound: () => void;
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/** @type {(event?: import('d3-zoom').D3ZoomEvent<HTMLElement, unknown>) => void} */
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zoomStartedBound: (event?: import("d3-zoom").D3ZoomEvent<HTMLElement, unknown>) => void;
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/** @type {(event: import('d3-zoom').D3ZoomEvent<HTMLElement, unknown> & { shiftKey?: boolean }) => void} */
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zoomedBound: (event: import("d3-zoom").D3ZoomEvent<HTMLElement, unknown> & {
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shiftKey?: boolean;
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}) => void;
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/** @type {() => void} */
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zoomEndedBound: () => void;
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/** @type {string} */
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uid: string;
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/** @type {string} */
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viewUid: string;
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/** @type {unknown} */
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availableForPlugins: unknown;
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/** @type {boolean} */
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mounted: boolean;
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/** @type {import("d3-zoom").ZoomBehavior<HTMLElement, unknown>} */
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emptyZoomBehavior: import("d3-zoom").ZoomBehavior<HTMLElement, unknown>;
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/** @type {TrackRendererProps} */
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currentProps: TrackRendererProps;
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/** @type {string} */
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prevPropsStr: string;
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/** @type {import("d3-zoom").ZoomBehavior<HTMLElement, unknown>} */
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zoomBehavior: import("d3-zoom").ZoomBehavior<HTMLElement, unknown>;
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/** @type {import('d3-zoom').ZoomTransform} */
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prevZoomTransform: import("d3-zoom").ZoomTransform;
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/** @type {[number, number]} */
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initialXDomain: [number, number];
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/** @type {[number, number]} */
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initialYDomain: [number, number];
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/** @type {[number, number]} */
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xDomainLimits: [number, number];
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/** @type {[number, number]} */
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yDomainLimits: [number, number];
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/** @type {[number, number]} */
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zoomLimits: [number, number];
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/** @type {number} */
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prevCenterX: number;
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/** @type {number} */
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prevCenterY: number;
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/** @type {number} */
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cumCenterXOffset: number;
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/** @type {number} */
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cumCenterYOffset: number;
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/** @type {Record<string, { trackObject: TrackObject, trackDef: TrackDefinition }>} */
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trackDefObjects: Record<string, {
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trackObject: TrackObject;
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trackDef: TrackDefinition;
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}>;
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/** @type {Record<string, { trackObject: TrackObject | UnknownPixiTrack, trackDef: TrackConfig }>} */
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metaTracks: Record<string, {
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trackObject: TrackObject | UnknownPixiTrack;
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trackDef: TrackConfig;
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}>;
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/** @type {Array<import("pub-sub-es").Subscription>} */
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pubSubs: Array<import("pub-sub-es").Subscription>;
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/** @type {<T extends Event>(event: T & { sourceUid?: string, forwarded?: boolean }) => void} */
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boundForwardEvent: <T extends Event>(event: T & {
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sourceUid?: string;
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forwarded?: boolean;
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}) => void;
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/** @type {() => void} */
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boundScrollEvent: () => void;
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/** @type {(event: { altKey: boolean, preventDefault(): void }) => void} */
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boundForwardContextMenu: (event: {
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altKey: boolean;
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preventDefault(): void;
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}) => void;
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/** @type {(event: Event & { sourceUid: string, type: string }) => void} */
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dispatchEventBound: (event: Event & {
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sourceUid: string;
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type: string;
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}) => void;
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/** @type {(opts: { pos: [number, number, number, number], animateTime: number, isMercator: boolean }) => void} */
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zoomToDataPosHandlerBound: (opts: {
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pos: [number, number, number, number];
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animateTime: number;
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isMercator: boolean;
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}) => void;
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/** @type {(scrollTop: number) => void} */
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onScrollHandlerBound: (scrollTop: number) => void;
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/** @type {{ height: number, width: number, left: number, top: number }} */
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elementPos: {
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height: number;
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width: number;
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left: number;
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top: number;
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};
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/** @type {import('d3-selection').Selection<WithZoomTransform<HTMLElement>, unknown, null, unknown> | null} */
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elementSelection: import("d3-selection").Selection<WithZoomTransform<HTMLElement>, unknown, null, unknown> | null;
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get xScale(): import("d3-scale").ScaleLinear<number, number, never>;
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get yScale(): import("d3-scale").ScaleLinear<number, number, never>;
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UNSAFE_componentWillMount(): void;
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componentDidMount(): void;
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/** @type {import('pixi.js').Graphics} */
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pStage: import("pixi.js").Graphics | undefined;
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/** @type {import('pixi.js').Graphics} */
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pMask: import("pixi.js").Graphics | undefined;
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/** @type {import('pixi.js').Graphics} */
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pOutline: import("pixi.js").Graphics | undefined;
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262
|
+
/** @type {import('pixi.js').Graphics} */
|
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263
|
+
pBackground: import("pixi.js").Graphics | undefined;
|
|
264
|
+
svgElement: HTMLElement | undefined;
|
|
265
|
+
/** @param {TrackRendererProps} nextProps */
|
|
266
|
+
UNSAFE_componentWillReceiveProps(nextProps: TrackRendererProps): void;
|
|
267
|
+
/** @param {TrackRendererProps} prevProps */
|
|
268
|
+
componentDidUpdate(prevProps: TrackRendererProps): void;
|
|
269
|
+
componentWillUnmount(): void;
|
|
270
|
+
/**
|
|
271
|
+
* Dispatch a forwarded event on the main DOM element
|
|
272
|
+
*
|
|
273
|
+
* @param {Event & { sourceUid: string, type: string }} event Event to be dispatched.
|
|
274
|
+
*/
|
|
275
|
+
dispatchEvent(event: Event & {
|
|
276
|
+
sourceUid: string;
|
|
277
|
+
type: string;
|
|
278
|
+
}): void;
|
|
279
|
+
/**
|
|
280
|
+
* Check of a view position (i.e., pixel coords) is within this view
|
|
281
|
+
*
|
|
282
|
+
* @param {number} x - X position to be tested.
|
|
283
|
+
* @param {number} y - Y position to be tested.
|
|
284
|
+
* @return {boolean} If `true` position is within this view.
|
|
285
|
+
*/
|
|
286
|
+
isWithin(x: number, y: number): boolean;
|
|
287
|
+
/** @param {{ pos: [number, number, number, number], animateTime: number }} opts */
|
|
288
|
+
zoomToDataPosHandler({ pos, animateTime }: {
|
|
289
|
+
pos: [number, number, number, number];
|
|
290
|
+
animateTime: number;
|
|
291
|
+
}): void;
|
|
292
|
+
addZoom(): void;
|
|
293
|
+
removeZoom(): void;
|
|
294
|
+
setMask(): void;
|
|
295
|
+
setBackground(): void;
|
|
296
|
+
windowScrolled(): void;
|
|
297
|
+
/**
|
|
298
|
+
* @param {[number, number]} initialXDomain
|
|
299
|
+
* @param {[number, number]} initialYDomain
|
|
300
|
+
* @param {[number, number]} xDomainLimits
|
|
301
|
+
* @param {[number, number]} yDomainLimits
|
|
302
|
+
* @param {[number, number]} zoomLimits
|
|
303
|
+
*/
|
|
304
|
+
setUpInitialScales(initialXDomain?: [number, number], initialYDomain?: [number, number], xDomainLimits?: [number, number], yDomainLimits?: [number, number], zoomLimits?: [number, number]): void;
|
|
305
|
+
drawableToDomainX: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
306
|
+
drawableToDomainY: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
307
|
+
/** @param {TrackRendererProps} props */
|
|
308
|
+
updatablePropsToString(props: TrackRendererProps): string;
|
|
309
|
+
/** @param {boolean} draggingStatus */
|
|
310
|
+
draggingChanged(draggingStatus: boolean): void;
|
|
311
|
+
setUpScales(notify?: boolean): void;
|
|
312
|
+
_xScale: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
313
|
+
_yScale: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
314
|
+
/**
|
|
315
|
+
* Get a track's viewconf definition by its object
|
|
316
|
+
*
|
|
317
|
+
* @param {TrackObject} trackObjectIn
|
|
318
|
+
*/
|
|
319
|
+
getTrackDef(trackObjectIn: TrackObject): import("./types").TrackConfig | null;
|
|
320
|
+
/**
|
|
321
|
+
* Fetch the trackObject for a track with a given ID
|
|
322
|
+
*
|
|
323
|
+
* @param {string} trackId
|
|
324
|
+
* @return {TrackObject | undefined}
|
|
325
|
+
*/
|
|
326
|
+
getTrackObject(trackId: string): TrackObject | undefined;
|
|
327
|
+
timedUpdatePositionAndDimensions(): void;
|
|
328
|
+
/**
|
|
329
|
+
* @param {Array<TrackConfig>} trackDefinitions
|
|
330
|
+
*/
|
|
331
|
+
syncMetaTracks(trackDefinitions: Array<TrackConfig>): void;
|
|
332
|
+
/**
|
|
333
|
+
* @param {Array<TrackDefinition>} trackDefinitions
|
|
334
|
+
*/
|
|
335
|
+
syncTrackObjects(trackDefinitions: Array<TrackDefinition>): void;
|
|
336
|
+
/**
|
|
337
|
+
* Make sure we have a track object for every passed track definition.
|
|
338
|
+
*
|
|
339
|
+
* If we get a track definition for which we have no Track object, we
|
|
340
|
+
* create a new one.
|
|
341
|
+
*
|
|
342
|
+
* If we have a track object for which we have no definition, we remove
|
|
343
|
+
* the object.
|
|
344
|
+
*
|
|
345
|
+
* All the others we ignore.
|
|
346
|
+
*
|
|
347
|
+
* Track definitions should be of the following form:
|
|
348
|
+
*
|
|
349
|
+
* { height: 100, width: 50, top: 30, left: 40, track: {...}}
|
|
350
|
+
*
|
|
351
|
+
* @param trackDefinitions: The definition of the track
|
|
352
|
+
* @return: Nothing
|
|
353
|
+
*/
|
|
354
|
+
prevTrackDefinitions: string | undefined;
|
|
355
|
+
/**
|
|
356
|
+
* Add new meta tracks
|
|
357
|
+
*
|
|
358
|
+
* @param {Array<TrackConfig>} metaTrackDefs Definitions of meta tracks to be added.
|
|
359
|
+
*/
|
|
360
|
+
addMetaTracks(metaTrackDefs: Array<TrackConfig>): void;
|
|
361
|
+
/**
|
|
362
|
+
* @param {Array<TrackDefinition>} newTrackDefinitions
|
|
363
|
+
*/
|
|
364
|
+
addNewTracks(newTrackDefinitions: Array<TrackDefinition>): void;
|
|
365
|
+
/** @param {unknown} _unused */
|
|
366
|
+
updateMetaTracks(_unused: unknown): void;
|
|
367
|
+
/** @param {Array<TrackDefinition>} newTrackDefs */
|
|
368
|
+
updateExistingTrackDefs(newTrackDefs: Array<TrackDefinition>): void;
|
|
369
|
+
updateTrackPositions(): boolean;
|
|
370
|
+
/** @param {string[]} trackIds */
|
|
371
|
+
removeMetaTracks(trackIds: string[]): void;
|
|
372
|
+
/** @param {string[]} trackUids */
|
|
373
|
+
removeTracks(trackUids: string[]): void;
|
|
374
|
+
/**
|
|
375
|
+
* Set the center of this view to a paticular X and Y coordinate
|
|
376
|
+
* @param {number} centerX Centeral X data? position.
|
|
377
|
+
* @param {number} centerY Central Y data? position.
|
|
378
|
+
* @param {number} sourceK Source zoom level? @Pete what's the source?
|
|
379
|
+
* @param {boolean} notify If `true` notify listeners that the scales
|
|
380
|
+
* have changed. This can be turned off to prevent circular updates when
|
|
381
|
+
* scales are locked.
|
|
382
|
+
* @param {number} animateTime Animation time in milliseconds. Only used
|
|
383
|
+
* when `animate` is true.
|
|
384
|
+
* @param {Scale} xScale The scale to use for the X axis.
|
|
385
|
+
* @param {Scale} yScale The scale to use for the Y axis.
|
|
386
|
+
*/
|
|
387
|
+
setCenter(centerX: number, centerY: number, sourceK: number, notify?: boolean, animateTime?: number, xScale?: Scale, yScale?: Scale): [import("d3-scale").ScaleContinuousNumeric<number, number, never>, import("d3-scale").ScaleContinuousNumeric<number, number, never>] | undefined;
|
|
388
|
+
/** @param {number} movement */
|
|
389
|
+
valueScaleMove(movement: number): void;
|
|
390
|
+
/**
|
|
391
|
+
* @param {{ sourceEvent: Event }} event
|
|
392
|
+
* @param {string | null} orientation
|
|
393
|
+
*/
|
|
394
|
+
valueScaleZoom(event: {
|
|
395
|
+
sourceEvent: Event;
|
|
396
|
+
}, orientation: string | null): void;
|
|
397
|
+
/**
|
|
398
|
+
* Respond to a zoom event.
|
|
399
|
+
*
|
|
400
|
+
* We need to update our local record of the zoom transform and apply it
|
|
401
|
+
* to all the tracks.
|
|
402
|
+
*
|
|
403
|
+
* @param {import("d3-zoom").D3ZoomEvent<HTMLElement, unknown> & { shiftKey?: boolean }} event
|
|
404
|
+
*/
|
|
405
|
+
zoomed(event: import("d3-zoom").D3ZoomEvent<HTMLElement, unknown> & {
|
|
406
|
+
shiftKey?: boolean;
|
|
407
|
+
}): void;
|
|
408
|
+
/**
|
|
409
|
+
* Return a list of tracks under this position.
|
|
410
|
+
*
|
|
411
|
+
* The position should be relative to this.props.canvasElement.
|
|
412
|
+
*
|
|
413
|
+
* @param {number} x The query x position
|
|
414
|
+
* @param {number} y The query y position
|
|
415
|
+
* @return {Array<TrackObject>} An array of tracks at this position
|
|
416
|
+
*/
|
|
417
|
+
getTracksAtPosition(x: number, y: number): Array<TrackObject>;
|
|
418
|
+
/** @param {import('d3-zoom').D3ZoomEvent<HTMLElement, unknown>=} event */
|
|
419
|
+
zoomStarted(event?: import("d3-zoom").D3ZoomEvent<HTMLElement, unknown> | undefined): void;
|
|
420
|
+
zooming: boolean | undefined;
|
|
421
|
+
zoomStartPos: [number, number] | null | undefined;
|
|
422
|
+
valueScaleZooming: boolean | undefined;
|
|
423
|
+
zoomStartTransform: import("d3-zoom").ZoomTransform | undefined;
|
|
424
|
+
zoomEnded(): void;
|
|
425
|
+
/**
|
|
426
|
+
* @param {boolean=} notify
|
|
427
|
+
* @returns {[Scale, Scale] | undefined}
|
|
428
|
+
*/
|
|
429
|
+
applyZoomTransform(notify?: boolean | undefined): [Scale, Scale] | undefined;
|
|
430
|
+
zoomedXScale: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
431
|
+
zoomedYScale: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
432
|
+
currentXScale: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
433
|
+
currentYScale: import("d3-scale").ScaleLinear<number, number, never> | undefined;
|
|
434
|
+
/** @param {TrackConfig} track */
|
|
435
|
+
createMetaTrack(track: TrackConfig): import("./types").TrackObject | UnknownPixiTrack;
|
|
436
|
+
/** @param {TrackConfig} track */
|
|
437
|
+
createTrackObject(track: TrackConfig): import("./types").TrackObject | CombinedTrack | Annotations1dTrack | BedLikeTrack | Annotations2dTrack | ArrowheadDomainsTrack | HorizontalLine1DPixiTrack | CNVIntervalTrack | Chromosome2DAnnotations | Chromosome2DLabels | ChromosomeGrid | CrossRule | HeatmapTiledPixiTrack | Horizontal2DDomainsTrack | HorizontalChromosomeLabels | HorizontalGeneAnnotationsTrack | HorizontalHeatmapTrack | HorizontalMultivecTrack | HorizontalPoint1DPixiTrack | HorizontalRule | Id2DTiledPixiTrack | IdHorizontal1DTiledPixiTrack | IdVertical1DTiledPixiTrack | SVGTrack | MapboxTilesTrack | OSMTilesTrack | OSMTileIdsTrack | OverlayTrack | RasterTilesTrack | SquareMarkersTrack | VerticalRule | ViewportTracker2D | ViewportTrackerHorizontal | ViewportTrackerVertical | UnknownPixiTrack | LeftTrackModifier | Track<{}>;
|
|
438
|
+
/** @param {TrackConfig} track */
|
|
439
|
+
createLocationAgnosticTrackObject(track: TrackConfig): import("./types").TrackObject | CombinedTrack | Annotations1dTrack | BedLikeTrack | Annotations2dTrack | ArrowheadDomainsTrack | HorizontalLine1DPixiTrack | CNVIntervalTrack | Chromosome2DAnnotations | Chromosome2DLabels | ChromosomeGrid | CrossRule | HeatmapTiledPixiTrack | Horizontal2DDomainsTrack | HorizontalChromosomeLabels | HorizontalGeneAnnotationsTrack | HorizontalHeatmapTrack | HorizontalMultivecTrack | HorizontalPoint1DPixiTrack | HorizontalRule | Id2DTiledPixiTrack | IdHorizontal1DTiledPixiTrack | IdVertical1DTiledPixiTrack | SVGTrack | MapboxTilesTrack | OSMTilesTrack | OSMTileIdsTrack | OverlayTrack | RasterTilesTrack | SquareMarkersTrack | VerticalRule | ViewportTracker2D | ViewportTrackerHorizontal | ViewportTrackerVertical | UnknownPixiTrack | Track<{}>;
|
|
440
|
+
/**
|
|
441
|
+
* Zoom to a location given the data coordinates
|
|
442
|
+
* @param {number} dataXStart Data start X coordinate.
|
|
443
|
+
* @param {number} dataXEnd Data end X coordinate.
|
|
444
|
+
* @param {number} dataYStart Data start Y coordinate.
|
|
445
|
+
* @param {number} dataYEnd Data end Y coordinate.
|
|
446
|
+
* @param {number} animateTime Animation time in milliseconds.
|
|
447
|
+
* @param {ProjectorFunction | null} projector If not `null` a projector function that
|
|
448
|
+
* provides adjusted x and y scales.
|
|
449
|
+
*/
|
|
450
|
+
zoomToDataPos(dataXStart: number, dataXEnd: number, dataYStart: number, dataYEnd: number, animateTime?: number, projector?: ProjectorFunction | null): void;
|
|
451
|
+
/**
|
|
452
|
+
* @param {{ altKey: boolean, preventDefault: () => void }} e
|
|
453
|
+
*/
|
|
454
|
+
forwardContextMenu(e: {
|
|
455
|
+
altKey: boolean;
|
|
456
|
+
preventDefault: () => void;
|
|
457
|
+
}): void;
|
|
458
|
+
addEventTracker(): void;
|
|
459
|
+
removeEventTracker(): void;
|
|
460
|
+
scrollEvent(): void;
|
|
461
|
+
/**
|
|
462
|
+
* Publishes an event to the pubSub channel, first overriding the
|
|
463
|
+
* sourceUid to be the uid of this track renderer.
|
|
464
|
+
*
|
|
465
|
+
* @template {Event} T
|
|
466
|
+
* @param {T & { sourceUid?: string; forwarded?: boolean }} event
|
|
467
|
+
*/
|
|
468
|
+
forwardEvent<T extends Event>(event: T & {
|
|
469
|
+
sourceUid?: string;
|
|
470
|
+
forwarded?: boolean;
|
|
471
|
+
}): void;
|
|
472
|
+
/** @param {number} scrollTop */
|
|
473
|
+
onScrollHandler(scrollTop: number): void;
|
|
474
|
+
render(): React.JSX.Element;
|
|
475
|
+
baseEl: HTMLDivElement | null | undefined;
|
|
476
|
+
}
|
|
477
|
+
export namespace TrackRenderer {
|
|
478
|
+
namespace defaultProps {
|
|
479
|
+
let pluginDataFetchers: {};
|
|
480
|
+
let pluginTracks: {};
|
|
481
|
+
let canvasElement: null;
|
|
482
|
+
let centerHeight: number;
|
|
483
|
+
let centerWidth: number;
|
|
484
|
+
let children: never[];
|
|
485
|
+
let galleryDim: number;
|
|
486
|
+
let height: number;
|
|
487
|
+
let initialXDomain: never[];
|
|
488
|
+
let initialYDomain: never[];
|
|
489
|
+
let isShowGlobalMousePosition: boolean;
|
|
490
|
+
let isRangeSelection: boolean;
|
|
491
|
+
let leftWidth: number;
|
|
492
|
+
let leftWidthNoGallery: number;
|
|
493
|
+
let paddingLeft: number;
|
|
494
|
+
let paddingTop: number;
|
|
495
|
+
let positionedTracks: never[];
|
|
496
|
+
let topHeight: number;
|
|
497
|
+
let topHeightNoGallery: number;
|
|
498
|
+
let width: number;
|
|
499
|
+
let metaTracks: never[];
|
|
500
|
+
}
|
|
501
|
+
namespace propTypes {
|
|
502
|
+
let canvasElement_1: PropTypes.Requireable<object>;
|
|
503
|
+
export { canvasElement_1 as canvasElement };
|
|
504
|
+
let centerHeight_1: PropTypes.Requireable<number>;
|
|
505
|
+
export { centerHeight_1 as centerHeight };
|
|
506
|
+
let centerWidth_1: PropTypes.Requireable<number>;
|
|
507
|
+
export { centerWidth_1 as centerWidth };
|
|
508
|
+
let children_1: PropTypes.Requireable<any[]>;
|
|
509
|
+
export { children_1 as children };
|
|
510
|
+
export let disableTrackMenu: PropTypes.Requireable<boolean>;
|
|
511
|
+
let galleryDim_1: PropTypes.Requireable<number>;
|
|
512
|
+
export { galleryDim_1 as galleryDim };
|
|
513
|
+
let height_1: PropTypes.Requireable<number>;
|
|
514
|
+
export { height_1 as height };
|
|
515
|
+
let initialXDomain_1: PropTypes.Requireable<any[]>;
|
|
516
|
+
export { initialXDomain_1 as initialXDomain };
|
|
517
|
+
let initialYDomain_1: PropTypes.Requireable<any[]>;
|
|
518
|
+
export { initialYDomain_1 as initialYDomain };
|
|
519
|
+
let isShowGlobalMousePosition_1: PropTypes.Requireable<boolean>;
|
|
520
|
+
export { isShowGlobalMousePosition_1 as isShowGlobalMousePosition };
|
|
521
|
+
let isRangeSelection_1: PropTypes.Requireable<boolean>;
|
|
522
|
+
export { isRangeSelection_1 as isRangeSelection };
|
|
523
|
+
let leftWidth_1: PropTypes.Requireable<number>;
|
|
524
|
+
export { leftWidth_1 as leftWidth };
|
|
525
|
+
let leftWidthNoGallery_1: PropTypes.Requireable<number>;
|
|
526
|
+
export { leftWidthNoGallery_1 as leftWidthNoGallery };
|
|
527
|
+
let paddingLeft_1: PropTypes.Requireable<number>;
|
|
528
|
+
export { paddingLeft_1 as paddingLeft };
|
|
529
|
+
let paddingTop_1: PropTypes.Requireable<number>;
|
|
530
|
+
export { paddingTop_1 as paddingTop };
|
|
531
|
+
let metaTracks_1: PropTypes.Requireable<any[]>;
|
|
532
|
+
export { metaTracks_1 as metaTracks };
|
|
533
|
+
export let onMouseMoveZoom: PropTypes.Requireable<(...args: any[]) => any>;
|
|
534
|
+
export let onNewTilesLoaded: PropTypes.Validator<(...args: any[]) => any>;
|
|
535
|
+
export let onScalesChanged: PropTypes.Validator<(...args: any[]) => any>;
|
|
536
|
+
export let pixiRenderer: PropTypes.Validator<object>;
|
|
537
|
+
export let pixiStage: PropTypes.Validator<object>;
|
|
538
|
+
let pluginDataFetchers_1: PropTypes.Requireable<object>;
|
|
539
|
+
export { pluginDataFetchers_1 as pluginDataFetchers };
|
|
540
|
+
let pluginTracks_1: PropTypes.Requireable<object>;
|
|
541
|
+
export { pluginTracks_1 as pluginTracks };
|
|
542
|
+
let positionedTracks_1: PropTypes.Requireable<any[]>;
|
|
543
|
+
export { positionedTracks_1 as positionedTracks };
|
|
544
|
+
export let pubSub: PropTypes.Validator<object>;
|
|
545
|
+
export let setCentersFunction: PropTypes.Requireable<(...args: any[]) => any>;
|
|
546
|
+
export let svgElement: PropTypes.Validator<object>;
|
|
547
|
+
export let theme: PropTypes.Validator<symbol>;
|
|
548
|
+
let topHeight_1: PropTypes.Requireable<number>;
|
|
549
|
+
export { topHeight_1 as topHeight };
|
|
550
|
+
let topHeightNoGallery_1: PropTypes.Requireable<number>;
|
|
551
|
+
export { topHeightNoGallery_1 as topHeightNoGallery };
|
|
552
|
+
export let viewOptions: PropTypes.Requireable<object>;
|
|
553
|
+
let width_1: PropTypes.Requireable<number>;
|
|
554
|
+
export { width_1 as width };
|
|
555
|
+
export let xDomainLimits: PropTypes.Requireable<any[]>;
|
|
556
|
+
export let yDomainLimits: PropTypes.Requireable<any[]>;
|
|
557
|
+
export let valueScaleZoom: PropTypes.Requireable<boolean>;
|
|
558
|
+
export let zoomable: PropTypes.Validator<boolean>;
|
|
559
|
+
export let zoomDomain: PropTypes.Requireable<any[]>;
|
|
560
|
+
export let uid: PropTypes.Requireable<string>;
|
|
561
|
+
export let zoomLimits: PropTypes.Requireable<any[]>;
|
|
562
|
+
}
|
|
563
|
+
}
|
|
564
|
+
declare const _default: typeof TrackRenderer;
|
|
565
|
+
export default _default;
|
|
566
|
+
export type Scale = import("./types").Scale;
|
|
567
|
+
export type TrackConfig = import("./types").TrackConfig;
|
|
568
|
+
export type TrackObject = import("./types").TrackObject;
|
|
569
|
+
export type TilesetInfo = import("./types").TilesetInfo;
|
|
570
|
+
export type SetCentersFunction = TrackRenderer["setCenter"];
|
|
571
|
+
export type ProjectorFunction = (x: Scale, y: Scale) => [Scale, Scale];
|
|
572
|
+
export type TrackDefinition = {
|
|
573
|
+
track: TrackConfig;
|
|
574
|
+
width: number;
|
|
575
|
+
height: number;
|
|
576
|
+
top: number;
|
|
577
|
+
left: number;
|
|
578
|
+
};
|
|
579
|
+
export type MetaPluginTrackContext = {
|
|
580
|
+
getTrackObject: (trackId: string) => TrackObject | undefined;
|
|
581
|
+
onNewTilesLoaded: () => void;
|
|
582
|
+
definition: TrackConfig;
|
|
583
|
+
};
|
|
584
|
+
export type PluginTrackContext = {
|
|
585
|
+
id: string;
|
|
586
|
+
trackUid: string;
|
|
587
|
+
trackType: string;
|
|
588
|
+
viewUid: string;
|
|
589
|
+
pubSub: import("pub-sub-es").PubSub;
|
|
590
|
+
scene: import("pixi.js").Graphics;
|
|
591
|
+
dataConfig: Record<string, unknown>;
|
|
592
|
+
dataFetcher: unknown;
|
|
593
|
+
getLockGroupExtrema: () => unknown;
|
|
594
|
+
handleTilesetInfoReceived: (tilesetInfo: TilesetInfo) => void;
|
|
595
|
+
animate: () => void;
|
|
596
|
+
svgElement: HTMLElement;
|
|
597
|
+
isValueScaleLocked: () => boolean;
|
|
598
|
+
onValueScaleChanged: () => void;
|
|
599
|
+
onTrackOptionsChanged: (newOption: Record<string, unknown>) => void;
|
|
600
|
+
onMouseMoveZoom: () => void;
|
|
601
|
+
chromInfoPath?: string | undefined;
|
|
602
|
+
isShowGlobalMousePosition: () => boolean;
|
|
603
|
+
getTheme: () => import("./types").Theme;
|
|
604
|
+
AVAILABLE_FOR_PLUGINS?: unknown | undefined;
|
|
605
|
+
baseEl?: (HTMLDivElement | null) | undefined;
|
|
606
|
+
definition?: TrackConfig | undefined;
|
|
607
|
+
x?: number | undefined;
|
|
608
|
+
y?: number | undefined;
|
|
609
|
+
xPosition?: number | undefined;
|
|
610
|
+
yPosition?: number | undefined;
|
|
611
|
+
projectionXDomain?: [number, number] | undefined;
|
|
612
|
+
projectionYDomain?: [number, number] | undefined;
|
|
613
|
+
registerViewportChanged?: unknown | undefined;
|
|
614
|
+
removeViewportChanged?: unknown | undefined;
|
|
615
|
+
setDomainsCallback?: unknown | undefined;
|
|
616
|
+
tracks?: TrackConfig[] | undefined;
|
|
617
|
+
createTrackObject?: TrackRenderer["createTrackObject"] | undefined;
|
|
618
|
+
orientation?: string | undefined;
|
|
619
|
+
isOverlay?: boolean | undefined;
|
|
620
|
+
};
|
|
621
|
+
export type PluginTrack = {
|
|
622
|
+
track: {
|
|
623
|
+
new (availableForPlugins: unknown, context: PluginTrackContext, options: Record<string, unknown>): TrackObject;
|
|
624
|
+
};
|
|
625
|
+
isMetaTrack?: false | undefined;
|
|
626
|
+
};
|
|
627
|
+
export type MetaPluginTrack = {
|
|
628
|
+
track: {
|
|
629
|
+
new (availableForPlugins: unknown, context: MetaPluginTrackContext, options: Record<string, unknown>): TrackObject;
|
|
630
|
+
};
|
|
631
|
+
isMetaTrack: true;
|
|
632
|
+
};
|
|
633
|
+
export type WithZoomTransform<T> = T & {
|
|
634
|
+
__zoom?: import("d3-zoom").ZoomTransform;
|
|
635
|
+
};
|
|
636
|
+
export type TrackRendererProps = {
|
|
637
|
+
canvasElement: HTMLElement;
|
|
638
|
+
centerHeight: number;
|
|
639
|
+
centerWidth: number;
|
|
640
|
+
children: Array<JSX.Element>;
|
|
641
|
+
galleryDim: number;
|
|
642
|
+
height: number;
|
|
643
|
+
initialXDomain: [number, number];
|
|
644
|
+
initialYDomain: [number, number];
|
|
645
|
+
isShowGlobalMousePosition: boolean;
|
|
646
|
+
isRangeSelection: boolean;
|
|
647
|
+
leftWidth: number;
|
|
648
|
+
leftWidthNoGallery: number;
|
|
649
|
+
paddingLeft: number;
|
|
650
|
+
paddingTop: number;
|
|
651
|
+
metaTracks: Array<TrackConfig>;
|
|
652
|
+
onMouseMoveZoom: () => void;
|
|
653
|
+
onNewTilesLoaded: (trackId?: string) => void;
|
|
654
|
+
onScalesChanged: (x: Scale, y: Scale) => void;
|
|
655
|
+
pixiRenderer: import("pixi.js").Renderer;
|
|
656
|
+
pixiStage: import("pixi.js").Container;
|
|
657
|
+
pluginDataFetchers: Record<string, unknown>;
|
|
658
|
+
pluginTracks: Record<string, PluginTrack | MetaPluginTrack>;
|
|
659
|
+
positionedTracks: Array<TrackDefinition>;
|
|
660
|
+
pubSub: import("pub-sub-es").PubSub;
|
|
661
|
+
setCentersFunction: (func: SetCentersFunction) => void;
|
|
662
|
+
svgElement: HTMLElement;
|
|
663
|
+
theme: import("./types").Theme;
|
|
664
|
+
topHeight: number;
|
|
665
|
+
topHeightNoGallery: number;
|
|
666
|
+
viewOptions: {
|
|
667
|
+
backgroundColor?: string;
|
|
668
|
+
};
|
|
669
|
+
width: number;
|
|
670
|
+
xDomainLimits: [number, number];
|
|
671
|
+
yDomainLimits: [number, number];
|
|
672
|
+
valueScaleZoom: boolean;
|
|
673
|
+
zoomable: boolean;
|
|
674
|
+
zoomDomain: [number, number];
|
|
675
|
+
zoomLimits: [number, number];
|
|
676
|
+
uid: string;
|
|
677
|
+
dragging: boolean;
|
|
678
|
+
registerDraggingChangedListener: (func: (draggingStatus: boolean) => void) => void;
|
|
679
|
+
disableTrackMenu: boolean;
|
|
680
|
+
removeDraggingChangedListener: (listener: (draggingStatus: boolean) => void) => void;
|
|
681
|
+
onTilesetInfoReceived: (trackId: string, tilesetInfo: TilesetInfo) => void;
|
|
682
|
+
getLockGroupExtrema: (trackId: string) => unknown;
|
|
683
|
+
isValueScaleLocked: (trackId: string) => boolean;
|
|
684
|
+
onValueScaleChanged: (trackId: string) => void;
|
|
685
|
+
onTrackOptionsChanged: (trackId: string, newOption: Record<string, unknown>) => void;
|
|
686
|
+
};
|
|
687
|
+
import React from 'react';
|
|
688
|
+
import UnknownPixiTrack from './UnknownPixiTrack';
|
|
689
|
+
import CombinedTrack from './CombinedTrack';
|
|
690
|
+
import Annotations1dTrack from './Annotations1dTrack';
|
|
691
|
+
import BedLikeTrack from './BedLikeTrack';
|
|
692
|
+
import Annotations2dTrack from './Annotations2dTrack';
|
|
693
|
+
import ArrowheadDomainsTrack from './ArrowheadDomainsTrack';
|
|
694
|
+
import HorizontalLine1DPixiTrack from './HorizontalLine1DPixiTrack';
|
|
695
|
+
import CNVIntervalTrack from './CNVIntervalTrack';
|
|
696
|
+
import Chromosome2DAnnotations from './Chromosome2DAnnotations';
|
|
697
|
+
import Chromosome2DLabels from './Chromosome2DLabels';
|
|
698
|
+
import ChromosomeGrid from './ChromosomeGrid';
|
|
699
|
+
import CrossRule from './CrossRule';
|
|
700
|
+
import HeatmapTiledPixiTrack from './HeatmapTiledPixiTrack';
|
|
701
|
+
import Horizontal2DDomainsTrack from './Horizontal2DDomainsTrack';
|
|
702
|
+
import HorizontalChromosomeLabels from './HorizontalChromosomeLabels';
|
|
703
|
+
import HorizontalGeneAnnotationsTrack from './HorizontalGeneAnnotationsTrack';
|
|
704
|
+
import HorizontalHeatmapTrack from './HorizontalHeatmapTrack';
|
|
705
|
+
import HorizontalMultivecTrack from './HorizontalMultivecTrack';
|
|
706
|
+
import HorizontalPoint1DPixiTrack from './HorizontalPoint1DPixiTrack';
|
|
707
|
+
import HorizontalRule from './HorizontalRule';
|
|
708
|
+
import Id2DTiledPixiTrack from './Id2DTiledPixiTrack';
|
|
709
|
+
import IdHorizontal1DTiledPixiTrack from './IdHorizontal1DTiledPixiTrack';
|
|
710
|
+
import IdVertical1DTiledPixiTrack from './IdVertical1DTiledPixiTrack';
|
|
711
|
+
import SVGTrack from './SVGTrack';
|
|
712
|
+
import MapboxTilesTrack from './MapboxTilesTrack';
|
|
713
|
+
import OSMTilesTrack from './OSMTilesTrack';
|
|
714
|
+
import OSMTileIdsTrack from './OSMTileIdsTrack';
|
|
715
|
+
import OverlayTrack from './OverlayTrack';
|
|
716
|
+
import RasterTilesTrack from './RasterTilesTrack';
|
|
717
|
+
import SquareMarkersTrack from './SquareMarkersTrack';
|
|
718
|
+
import VerticalRule from './VerticalRule';
|
|
719
|
+
import ViewportTracker2D from './ViewportTracker2D';
|
|
720
|
+
import ViewportTrackerHorizontal from './ViewportTrackerHorizontal';
|
|
721
|
+
import ViewportTrackerVertical from './ViewportTrackerVertical';
|
|
722
|
+
import LeftTrackModifier from './LeftTrackModifier';
|
|
723
|
+
import Track from './Track';
|
|
724
|
+
import PropTypes from 'prop-types';
|