@jbrowse/plugin-linear-comparative-view 2.6.1

package/esm/LinearComparativeView/model.d.ts

@@ -0,0 +1,326 @@
+/// <reference types="react" />
+import { Instance, SnapshotIn } from 'mobx-state-tree';
+import { MenuItem } from '@jbrowse/core/ui';
+import PluginManager from '@jbrowse/core/PluginManager';
+import { LinearGenomeViewModel } from '@jbrowse/plugin-linear-genome-view';
+/**
+ * #stateModel LinearComparativeView
+ */
+declare function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
+    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+    displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+    minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+} & {
+    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("mobx-state-tree").ISimpleType<"LinearComparativeView">;
+    trackSelectorType: import("mobx-state-tree").IType<string | undefined, string, string>;
+    showIntraviewLinks: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    linkViews: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    interactToggled: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    middleComparativeHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
+    tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
+    views: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
+        id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+        displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+        minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    } & {
+        id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+        type: import("mobx-state-tree").IType<string | undefined, string, string>;
+        offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
+        bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
+        displayedRegions: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
+            refName: import("mobx-state-tree").ISimpleType<string>;
+            start: import("mobx-state-tree").ISimpleType<number>;
+            end: import("mobx-state-tree").ISimpleType<number>;
+            reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>; /**
+             * #getter
+             */
+        } & {
+            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+        }, {
+            setRefName(newRefName: string): void;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
+        hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+        hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>; /**
+         * #getter
+         */
+        hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+        trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+        trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+        showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    }, {
+        width: number;
+    } & {
+        menuItems(): MenuItem[];
+    } & {
+        setDisplayName(name: string): void;
+        setWidth(newWidth: number): void;
+        setMinimized(flag: boolean): void;
+    } & {
+        volatileWidth: number | undefined;
+        minimumBlockWidth: number;
+        draggingTrackId: string | undefined;
+        volatileError: Error | undefined;
+        afterDisplayedRegionsSetCallbacks: Function[];
+        scaleFactor: number;
+        trackRefs: {
+            [key: string]: HTMLDivElement;
+        };
+        coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
+        coarseTotalBp: number;
+        leftOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined;
+        rightOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined; /**
+         * #action
+         */
+    } & {
+        readonly width: number;
+        readonly interRegionPaddingWidth: number;
+        readonly assemblyNames: string[];
+    } & {
+        MiniControlsComponent(): import("react").FC<any>;
+        HeaderComponent(): import("react").FC<any>;
+        readonly assemblyErrors: string;
+        readonly assembliesInitialized: boolean;
+        readonly initialized: boolean;
+        readonly hasDisplayedRegions: boolean;
+        readonly scaleBarHeight: number;
+        readonly headerHeight: number;
+        readonly trackHeights: number;
+        /**
+         * #action
+         */
+        readonly trackHeightsWithResizeHandles: number;
+        readonly height: number;
+        readonly totalBp: number;
+        readonly maxBpPerPx: number;
+        readonly minBpPerPx: number;
+        readonly error: string | Error;
+        readonly maxOffset: number;
+        readonly minOffset: number;
+        readonly displayedRegionsTotalPx: number;
+        renderProps(): any;
+        searchScope(assemblyName: string): {
+            assemblyName: string;
+            includeAggregateIndexes: boolean;
+            tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
+        };
+        getTrack(id: string): any;
+        rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
+        rewriteOnClicks(trackType: string, viewMenuActions: MenuItem[]): void;
+        readonly trackTypeActions: Map<string, MenuItem[]>;
+    } & {
+        setShowCytobands(flag: boolean): void;
+        setWidth(newWidth: number): void;
+        setError(error: Error | undefined): void;
+        toggleHeader(): void;
+        toggleHeaderOverview(): void;
+        toggleNoTracksActive(): void;
+        toggleShowGridlines(): void;
+        scrollTo(offsetPx: number): number;
+        zoomTo(bpPerPx: number, offset?: number | undefined, centerAtOffset?: boolean | undefined): number;
+        setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined): void;
+        setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string | undefined): void;
+        setNewView(bpPerPx: number, offsetPx: number): void;
+        horizontallyFlip(): void;
+        showTrack(trackId: string, initialSnapshot?: {} | undefined, displayInitialSnapshot?: {} | undefined): any;
+        hideTrack(trackId: string): number;
+    } & {
+        moveTrack(movingId: string, targetId: string): void;
+        closeView(): void;
+        toggleTrack(trackId: string): void;
+        setTrackLabels(setting: "offset" | "hidden" | "overlapping"): void;
+        toggleCenterLine(): void;
+        setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
+        activateTrackSelector(): import("@jbrowse/core/util").Widget;
+        getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined): {
+            start: number;
+            end: number;
+            regionNumber?: number | undefined;
+            reversed?: boolean | undefined;
+            refName: string;
+            assemblyName: string;
+            key: string;
+            offsetPx: number;
+            widthPx: number;
+            variant?: string | undefined;
+            isLeftEndOfDisplayedRegion?: boolean | undefined;
+        }[];
+        afterDisplayedRegionsSet(cb: Function): void;
+        horizontalScroll(distance: number): number;
+        center(): void;
+        showAllRegions(): void;
+        showAllRegionsInAssembly(assemblyName?: string | undefined): void;
+        setDraggingTrackId(idx?: string | undefined): void;
+        setScaleFactor(factor: number): void;
+        clearView(): void;
+        exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions | undefined): Promise<void>;
+    } & {
+        slide: (viewWidths: number) => void;
+    } & {
+        zoom: (targetBpPerPx: number) => void;
+    } & {
+        readonly canShowCytobands: boolean;
+        readonly showCytobands: boolean;
+        readonly anyCytobandsExist: boolean;
+        readonly cytobandOffset: number;
+    } & {
+        menuItems(): MenuItem[];
+    } & {
+        readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
+        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
+        readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
+        readonly visibleLocStrings: string;
+        readonly coarseVisibleLocStrings: string;
+    } & {
+        setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
+        afterAttach(): void;
+    } & {
+        moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined): void;
+        navToLocString(input: string, optAssemblyName?: string | undefined): Promise<void>;
+        navToLocations(parsedLocStrings: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string | undefined): Promise<void>;
+        navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").NavLocation): void;
+        navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").NavLocation[]): void;
+    } & {
+        rubberBandMenuItems(): MenuItem[];
+        bpToPx({ refName, coord, regionNumber, }: {
+            refName: string;
+            coord: number;
+            regionNumber?: number | undefined;
+        }): {
+            index: number;
+            offsetPx: number;
+        } | undefined;
+        centerAt(coord: number, refName: string, regionNumber: number): void;
+        pxToBp(px: number): {
+            coord: number;
+            index: number;
+            refName: string;
+            oob: boolean;
+            assemblyName: string;
+            offset: number;
+            start: number;
+            end: number;
+            reversed: boolean;
+        };
+        readonly centerLineInfo: {
+            coord: number;
+            index: number;
+            refName: string;
+            oob: boolean;
+            assemblyName: string;
+            offset: number;
+            start: number;
+            end: number;
+            reversed: boolean;
+        } | undefined;
+    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+    viewTrackConfigs: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
+}, {
+    width: number;
+} & {
+    menuItems(): MenuItem[];
+} & {
+    setDisplayName(name: string): void;
+    setWidth(newWidth: number): void;
+    setMinimized(flag: boolean): void;
+} & {
+    width: number | undefined;
+} & {
+    /**
+     * #getter
+     */
+    readonly highResolutionScaling: number;
+    /**
+     * #getter
+     */
+    readonly initialized: boolean;
+    /**
+     * #getter
+     */
+    readonly refNames: string[][];
+    /**
+     * #getter
+     */
+    readonly assemblyNames: string[];
+} & {
+    afterAttach(): void;
+    beforeDestroy(): void;
+    onSubviewAction(actionName: string, path: string, args?: unknown[]): void;
+    /**
+     * #action
+     */
+    setWidth(newWidth: number): void;
+    /**
+     * #action
+     */
+    setViews(views: SnapshotIn<LinearGenomeViewModel>[]): void;
+    /**
+     * #action
+     */
+    removeView(view: LinearGenomeViewModel): void;
+    /**
+     * #action
+     * removes the view itself from the state tree entirely by calling the
+     * parent removeView
+     */
+    closeView(): void;
+    /**
+     * #action
+     */
+    setMiddleComparativeHeight(n: number): number;
+    /**
+     * #action
+     */
+    toggleLinkViews(): void;
+    /**
+     * #action
+     */
+    activateTrackSelector(): import("@jbrowse/core/util").Widget | undefined;
+    /**
+     * #action
+     */
+    toggleTrack(trackId: string): void;
+    /**
+     * #action
+     */
+    showTrack(trackId: string, initialSnapshot?: {}): void;
+    /**
+     * #action
+     */
+    hideTrack(trackId: string): number;
+    /**
+     * #action
+     */
+    squareView(): void;
+    /**
+     * #action
+     */
+    clearView(): void;
+} & {
+    /**
+     * #method
+     * includes a subset of view menu options because the full list is a
+     * little overwhelming. overridden by subclasses
+     */
+    headerMenuItems(): MenuItem[];
+} & {
+    /**
+     * #method
+     */
+    menuItems(): MenuItem[];
+    /**
+     * #method
+     */
+    rubberBandMenuItems(): {
+        label: string;
+        onClick: () => void;
+    }[];
+} & {
+    afterAttach(): void;
+}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+export type LinearComparativeViewStateModel = ReturnType<typeof stateModelFactory>;
+export type LinearComparativeViewModel = Instance<LinearComparativeViewStateModel>;
+export default stateModelFactory;

package/esm/LinearComparativeView/model.js

@@ -0,0 +1,318 @@
+import { lazy } from 'react';
+import { addDisposer, cast, getParent, getPath, getRoot, onAction, resolveIdentifier, types, } from 'mobx-state-tree';
+import { autorun, transaction } from 'mobx';
+// jbrowse
+import BaseViewModel from '@jbrowse/core/pluggableElementTypes/models/BaseViewModel';
+import { getSession, isSessionModelWithWidgets, avg } from '@jbrowse/core/util';
+import { ElementId } from '@jbrowse/core/util/types/mst';
+// icons
+import { TrackSelector as TrackSelectorIcon } from '@jbrowse/core/ui/Icons';
+import FolderOpenIcon from '@mui/icons-material/FolderOpen';
+// lazies
+const ReturnToImportFormDialog = lazy(() => import('@jbrowse/core/ui/ReturnToImportFormDialog'));
+/**
+ * #stateModel LinearComparativeView
+ */
+function stateModelFactory(pluginManager) {
+    return types
+        .compose('LinearComparativeView', BaseViewModel, types.model({
+        /**
+         * #property
+         */
+        id: ElementId,
+        /**
+         * #property
+         */
+        type: types.literal('LinearComparativeView'),
+        /**
+         * #property
+         */
+        trackSelectorType: 'hierarchical',
+        /**
+         * #property
+         */
+        showIntraviewLinks: true,
+        /**
+         * #property
+         */
+        linkViews: false,
+        /**
+         * #property
+         */
+        interactToggled: false,
+        /**
+         * #property
+         */
+        middleComparativeHeight: 100,
+        /**
+         * #property
+         */
+        tracks: types.array(pluginManager.pluggableMstType('track', 'stateModel')),
+        /**
+         * #property
+         * currently this is limited to an array of two
+         */
+        views: types.array(pluginManager.getViewType('LinearGenomeView')
+            .stateModel),
+        /**
+         * #property
+         * this represents tracks specific to this view specifically used
+         * for read vs ref dotplots where this track would not really apply
+         * elsewhere
+         */
+        viewTrackConfigs: types.array(pluginManager.pluggableConfigSchemaType('track')),
+    }))
+        .volatile(() => ({
+        width: undefined,
+    }))
+        .views(self => ({
+        /**
+         * #getter
+         */
+        get highResolutionScaling() {
+            return 2;
+        },
+        /**
+         * #getter
+         */
+        get initialized() {
+            return (self.width !== undefined &&
+                self.views.length > 0 &&
+                self.views.every(view => view.initialized));
+        },
+        /**
+         * #getter
+         */
+        get refNames() {
+            return self.views.map(v => [
+                ...new Set(v.staticBlocks.map(m => m.refName)),
+            ]);
+        },
+        /**
+         * #getter
+         */
+        get assemblyNames() {
+            return [...new Set(self.views.flatMap(v => v.assemblyNames))];
+        },
+    }))
+        .actions(self => ({
+        afterAttach() {
+            addDisposer(self, onAction(self, param => {
+                if (self.linkViews) {
+                    const { name, path, args } = param;
+                    // doesn't link showTrack/hideTrack, doesn't make sense in
+                    // synteny views most time
+                    const actions = ['horizontalScroll', 'zoomTo', 'setScaleFactor'];
+                    if (actions.includes(name) && path) {
+                        this.onSubviewAction(name, path, args);
+                    }
+                }
+            }));
+        },
+        // automatically removes session assemblies associated with this view
+        // e.g. read vs ref
+        beforeDestroy() {
+            const session = getSession(self);
+            self.assemblyNames.forEach(asm => session.removeTemporaryAssembly(asm));
+        },
+        onSubviewAction(actionName, path, args) {
+            self.views.forEach(view => {
+                const ret = getPath(view);
+                if (ret.lastIndexOf(path) !== ret.length - path.length) {
+                    // @ts-expect-error
+                    view[actionName](args === null || args === void 0 ? void 0 : args[0]);
+                }
+            });
+        },
+        /**
+         * #action
+         */
+        setWidth(newWidth) {
+            self.width = newWidth;
+        },
+        /**
+         * #action
+         */
+        setViews(views) {
+            self.views = cast(views);
+        },
+        /**
+         * #action
+         */
+        removeView(view) {
+            self.views.remove(view);
+        },
+        /**
+         * #action
+         * removes the view itself from the state tree entirely by calling the
+         * parent removeView
+         */
+        closeView() {
+            // eslint-disable-next-line @typescript-eslint/no-explicit-any
+            getParent(self, 2).removeView(self);
+        },
+        /**
+         * #action
+         */
+        setMiddleComparativeHeight(n) {
+            self.middleComparativeHeight = n;
+            return self.middleComparativeHeight;
+        },
+        /**
+         * #action
+         */
+        toggleLinkViews() {
+            self.linkViews = !self.linkViews;
+        },
+        /**
+         * #action
+         */
+        activateTrackSelector() {
+            if (self.trackSelectorType === 'hierarchical') {
+                const session = getSession(self);
+                if (isSessionModelWithWidgets(session)) {
+                    const selector = session.addWidget('HierarchicalTrackSelectorWidget', 'hierarchicalTrackSelector', { view: self });
+                    session.showWidget(selector);
+                    return selector;
+                }
+                return undefined;
+            }
+            throw new Error(`invalid track selector type ${self.trackSelectorType}`);
+        },
+        /**
+         * #action
+         */
+        toggleTrack(trackId) {
+            // if we have any tracks with that configuration, turn them off
+            const hiddenCount = this.hideTrack(trackId);
+            // if none had that configuration, turn one on
+            if (!hiddenCount) {
+                this.showTrack(trackId);
+            }
+        },
+        /**
+         * #action
+         */
+        showTrack(trackId, initialSnapshot = {}) {
+            const schema = pluginManager.pluggableConfigSchemaType('track');
+            const configuration = resolveIdentifier(schema, getRoot(self), trackId);
+            if (!configuration) {
+                throw new Error(`track not found ${trackId}`);
+            }
+            const trackType = pluginManager.getTrackType(configuration.type);
+            if (!trackType) {
+                throw new Error(`unknown track type ${configuration.type}`);
+            }
+            const viewType = pluginManager.getViewType(self.type);
+            const supportedDisplays = new Set(viewType.displayTypes.map(d => d.name));
+            const displayConf = configuration.displays.find((d) => supportedDisplays.has(d.type));
+            if (!displayConf) {
+                throw new Error(`could not find a compatible display for view type ${self.type}`);
+            }
+            self.tracks.push(trackType.stateModel.create({
+                ...initialSnapshot,
+                type: configuration.type,
+                configuration,
+                displays: [{ type: displayConf.type, configuration: displayConf }],
+            }));
+        },
+        /**
+         * #action
+         */
+        hideTrack(trackId) {
+            const schema = pluginManager.pluggableConfigSchemaType('track');
+            const config = resolveIdentifier(schema, getRoot(self), trackId);
+            const shownTracks = self.tracks.filter(t => t.configuration === config);
+            transaction(() => shownTracks.forEach(t => self.tracks.remove(t)));
+            return shownTracks.length;
+        },
+        /**
+         * #action
+         */
+        squareView() {
+            const average = avg(self.views.map(v => v.bpPerPx));
+            self.views.forEach(view => {
+                const center = view.pxToBp(view.width / 2);
+                view.setNewView(average, view.offsetPx);
+                if (!center.refName) {
+                    return;
+                }
+                view.centerAt(center.coord, center.refName, center.index);
+            });
+        },
+        /**
+         * #action
+         */
+        clearView() {
+            self.views = cast([]);
+            self.tracks = cast([]);
+        },
+    }))
+        .views(() => ({
+        /**
+         * #method
+         * includes a subset of view menu options because the full list is a
+         * little overwhelming. overridden by subclasses
+         */
+        headerMenuItems() {
+            return [];
+        },
+    }))
+        .views(self => ({
+        /**
+         * #method
+         */
+        menuItems() {
+            return [
+                ...self.views
+                    .map((view, idx) => { var _a; return [idx, (_a = view.menuItems) === null || _a === void 0 ? void 0 : _a.call(view)]; })
+                    .filter(f => !!f[1])
+                    .map(f => ({ label: `View ${f[0] + 1} Menu`, subMenu: f[1] })),
+                {
+                    label: 'Return to import form',
+                    onClick: () => {
+                        getSession(self).queueDialog(handleClose => [
+                            ReturnToImportFormDialog,
+                            { model: self, handleClose },
+                        ]);
+                    },
+                    icon: FolderOpenIcon,
+                },
+                {
+                    label: 'Open track selector',
+                    onClick: self.activateTrackSelector,
+                    icon: TrackSelectorIcon,
+                },
+            ];
+        },
+        /**
+         * #method
+         */
+        rubberBandMenuItems() {
+            return [
+                {
+                    label: 'Zoom to region(s)',
+                    onClick: () => {
+                        self.views.forEach(view => {
+                            const { leftOffset, rightOffset } = view;
+                            if (leftOffset && rightOffset) {
+                                view.moveTo(leftOffset, rightOffset);
+                            }
+                        });
+                    },
+                },
+            ];
+        },
+    }))
+        .actions(self => ({
+        afterAttach() {
+            addDisposer(self, autorun(() => {
+                if (self.width) {
+                    self.views.forEach(v => v.setWidth(self.width));
+                }
+            }));
+        },
+    }));
+}
+export default stateModelFactory;
+//# sourceMappingURL=model.js.map

package/esm/LinearComparativeView/model.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/LinearComparativeView/model.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAC5B,OAAO,EACL,WAAW,EACX,IAAI,EACJ,SAAS,EACT,OAAO,EACP,OAAO,EACP,QAAQ,EACR,iBAAiB,EACjB,KAAK,GAGN,MAAM,iBAAiB,CAAA;AACxB,OAAO,EAAE,OAAO,EAAE,WAAW,EAAE,MAAM,MAAM,CAAA;AAE3C,UAAU;AACV,OAAO,aAAa,MAAM,0DAA0D,CAAA;AAEpF,OAAO,EAAE,UAAU,EAAE,yBAAyB,EAAE,GAAG,EAAE,MAAM,oBAAoB,CAAA;AAG/E,OAAO,EAAE,SAAS,EAAE,MAAM,8BAA8B,CAAA;AAMxD,QAAQ;AACR,OAAO,EAAE,aAAa,IAAI,iBAAiB,EAAE,MAAM,wBAAwB,CAAA;AAC3E,OAAO,cAAc,MAAM,gCAAgC,CAAA;AAE3D,SAAS;AACT,MAAM,wBAAwB,GAAG,IAAI,CACnC,GAAG,EAAE,CAAC,MAAM,CAAC,2CAA2C,CAAC,CAC1D,CAAA;AAED;;GAEG;AACH,SAAS,iBAAiB,CAAC,aAA4B;IACrD,OAAO,KAAK;SACT,OAAO,CACN,uBAAuB,EACvB,aAAa,EACb,KAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,EAAE,EAAE,SAAS;QACb;;WAEG;QACH,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,uBAAuB,CAAC;QAC5C;;WAEG;QACH,iBAAiB,EAAE,cAAc;QACjC;;WAEG;QACH,kBAAkB,EAAE,IAAI;QACxB;;WAEG;QACH,SAAS,EAAE,KAAK;QAChB;;WAEG;QACH,eAAe,EAAE,KAAK;QACtB;;WAEG;QACH,uBAAuB,EAAE,GAAG;QAC5B;;WAEG;QACH,MAAM,EAAE,KAAK,CAAC,KAAK,CACjB,aAAa,CAAC,gBAAgB,CAAC,OAAO,EAAE,YAAY,CAAC,CACtD;QACD;;;WAGG;QACH,KAAK,EAAE,KAAK,CAAC,KAAK,CAChB,aAAa,CAAC,WAAW,CAAC,kBAAkB,CAAC;aAC1C,UAAwC,CAC5C;QAED;;;;;WAKG;QACH,gBAAgB,EAAE,KAAK,CAAC,KAAK,CAC3B,aAAa,CAAC,yBAAyB,CAAC,OAAO,CAAC,CACjD;KACF,CAAC,CACH;SACA,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,KAAK,EAAE,SAA+B;KACvC,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,qBAAqB;YACvB,OAAO,CAAC,CAAA;QACV,CAAC;QACD;;WAEG;QACH,IAAI,WAAW;YACb,OAAO,CACL,IAAI,CAAC,KAAK,KAAK,SAAS;gBACxB,IAAI,CAAC,KAAK,CAAC,MAAM,GAAG,CAAC;gBACrB,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,WAAW,CAAC,CAC3C,CAAA;QACH,CAAC;QAED;;WAEG;QACH,IAAI,QAAQ;YACV,OAAO,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC;gBACzB,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC;aAC/C,CAAC,CAAA;QACJ,CAAC;QAED;;WAEG;QACH,IAAI,aAAa;YACf,OAAO,CAAC,GAAG,IAAI,GAAG,CAAC,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,CAAA;QAC/D,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,WAAW;YACT,WAAW,CACT,IAAI,EACJ,QAAQ,CAAC,IAAI,EAAE,KAAK,CAAC,EAAE;gBACrB,IAAI,IAAI,CAAC,SAAS,EAAE;oBAClB,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;oBAElC,0DAA0D;oBAC1D,0BAA0B;oBAC1B,MAAM,OAAO,GAAG,CAAC,kBAAkB,EAAE,QAAQ,EAAE,gBAAgB,CAAC,CAAA;oBAChE,IAAI,OAAO,CAAC,QAAQ,CAAC,IAAI,CAAC,IAAI,IAAI,EAAE;wBAClC,IAAI,CAAC,eAAe,CAAC,IAAI,EAAE,IAAI,EAAE,IAAI,CAAC,CAAA;qBACvC;iBACF;YACH,CAAC,CAAC,CACH,CAAA;QACH,CAAC;QAED,qEAAqE;QACrE,mBAAmB;QACnB,aAAa;YACX,MAAM,OAAO,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;YAChC,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,GAAG,CAAC,EAAE,CAAC,OAAO,CAAC,uBAAuB,CAAC,GAAG,CAAC,CAAC,CAAA;QACzE,CAAC;QAED,eAAe,CAAC,UAAkB,EAAE,IAAY,EAAE,IAAgB;YAChE,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;gBACxB,MAAM,GAAG,GAAG,OAAO,CAAC,IAAI,CAAC,CAAA;gBACzB,IAAI,GAAG,CAAC,WAAW,CAAC,IAAI,CAAC,KAAK,GAAG,CAAC,MAAM,GAAG,IAAI,CAAC,MAAM,EAAE;oBACtD,mBAAmB;oBACnB,IAAI,CAAC,UAAU,CAAC,CAAC,IAAI,aAAJ,IAAI,uBAAJ,IAAI,CAAG,CAAC,CAAC,CAAC,CAAA;iBAC5B;YACH,CAAC,CAAC,CAAA;QACJ,CAAC;QAED;;WAEG;QACH,QAAQ,CAAC,QAAgB;YACvB,IAAI,CAAC,KAAK,GAAG,QAAQ,CAAA;QACvB,CAAC;QAED;;WAEG;QACH,QAAQ,CAAC,KAA0C;YACjD,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,CAAA;QAC1B,CAAC;QAED;;WAEG;QACH,UAAU,CAAC,IAA2B;YACpC,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,IAAI,CAAC,CAAA;QACzB,CAAC;QAED;;;;WAIG;QACH,SAAS;YACP,8DAA8D;YAC9D,SAAS,CAAM,IAAI,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,IAAI,CAAC,CAAA;QAC1C,CAAC;QAED;;WAEG;QACH,0BAA0B,CAAC,CAAS;YAClC,IAAI,CAAC,uBAAuB,GAAG,CAAC,CAAA;YAChC,OAAO,IAAI,CAAC,uBAAuB,CAAA;QACrC,CAAC;QAED;;WAEG;QACH,eAAe;YACb,IAAI,CAAC,SAAS,GAAG,CAAC,IAAI,CAAC,SAAS,CAAA;QAClC,CAAC;QAED;;WAEG;QACH,qBAAqB;YACnB,IAAI,IAAI,CAAC,iBAAiB,KAAK,cAAc,EAAE;gBAC7C,MAAM,OAAO,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;gBAChC,IAAI,yBAAyB,CAAC,OAAO,CAAC,EAAE;oBACtC,MAAM,QAAQ,GAAG,OAAO,CAAC,SAAS,CAChC,iCAAiC,EACjC,2BAA2B,EAC3B,EAAE,IAAI,EAAE,IAAI,EAAE,CACf,CAAA;oBACD,OAAO,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAA;oBAC5B,OAAO,QAAQ,CAAA;iBAChB;gBACD,OAAO,SAAS,CAAA;aACjB;YACD,MAAM,IAAI,KAAK,CAAC,+BAA+B,IAAI,CAAC,iBAAiB,EAAE,CAAC,CAAA;QAC1E,CAAC;QAED;;WAEG;QACH,WAAW,CAAC,OAAe;YACzB,+DAA+D;YAC/D,MAAM,WAAW,GAAG,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,CAAA;YAE3C,8CAA8C;YAC9C,IAAI,CAAC,WAAW,EAAE;gBAChB,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,CAAA;aACxB;QACH,CAAC;QAED;;WAEG;QACH,SAAS,CAAC,OAAe,EAAE,eAAe,GAAG,EAAE;YAC7C,MAAM,MAAM,GAAG,aAAa,CAAC,yBAAyB,CAAC,OAAO,CAAC,CAAA;YAC/D,MAAM,aAAa,GAAG,iBAAiB,CAAC,MAAM,EAAE,OAAO,CAAC,IAAI,CAAC,EAAE,OAAO,CAAC,CAAA;YACvE,IAAI,CAAC,aAAa,EAAE;gBAClB,MAAM,IAAI,KAAK,CAAC,mBAAmB,OAAO,EAAE,CAAC,CAAA;aAC9C;YACD,MAAM,SAAS,GAAG,aAAa,CAAC,YAAY,CAAC,aAAa,CAAC,IAAI,CAAC,CAAA;YAChE,IAAI,CAAC,SAAS,EAAE;gBACd,MAAM,IAAI,KAAK,CAAC,sBAAsB,aAAa,CAAC,IAAI,EAAE,CAAC,CAAA;aAC5D;YACD,MAAM,QAAQ,GAAG,aAAa,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;YACrD,MAAM,iBAAiB,GAAG,IAAI,GAAG,CAC/B,QAAQ,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CACvC,CAAA;YACD,MAAM,WAAW,GAAG,aAAa,CAAC,QAAQ,CAAC,IAAI,CAC7C,CAAC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package/esm/LinearReadVsRef/LinearReadVsRef.d.ts

@@ -0,0 +1,7 @@
+import React from 'react';
+import { Feature } from '@jbrowse/core/util';
+export default function ReadVsRefDialog({ track, feature: preFeature, handleClose, }: {
+    feature: Feature;
+    handleClose: () => void;
+    track: any;
+}): React.JSX.Element;