@jbrowse/plugin-linear-genome-view 3.6.5 → 4.0.0

package/esm/LinearGenomeView/model.d.ts

@@ -1,5 +1,5 @@
 import type React from 'react';
-import type { BpOffset, ExportSvgOptions, HighlightType, InitState, NavLocation } from './types';
+import type { BpOffset, ExportSvgOptions, HighlightType, InitState, NavLocation } from './types.ts';
 import type PluginManager from '@jbrowse/core/PluginManager';
 import type BaseResult from '@jbrowse/core/TextSearch/BaseResults';
 import type { Assembly } from '@jbrowse/core/assemblyManager/assembly';
@@ -7,30 +7,30 @@ import type { MenuItem } from '@jbrowse/core/ui';
 import type { ParsedLocString } from '@jbrowse/core/util';
 import type { BaseBlock, BlockSet } from '@jbrowse/core/util/blockTypes';
 import type { Region } from '@jbrowse/core/util/types';
-import type { Instance } from 'mobx-state-tree';
-export 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>;
+import type { Instance } from '@jbrowse/mobx-state-tree';
+export declare function stateModelFactory(pluginManager: PluginManager): import("@jbrowse/mobx-state-tree").IModelType<{
+    id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
+    minimized: import("@jbrowse/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").IOptionalIType<import("mobx-state-tree").IType<Region[], Region[], Region[]>, [undefined]>;
-    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>;
-    hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    trackSelectorType: 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]>;
-    trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-    showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
-    colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-    showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-    init: import("mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
+    id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+    offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+    bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+    displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<Region[], Region[], Region[]>, [undefined]>;
+    tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+    hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
+    colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    init: import("@jbrowse/mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
 }, {
     width: number;
 } & {
@@ -43,8 +43,8 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     volatileWidth: number | undefined;
     minimumBlockWidth: number;
     draggingTrackId: undefined | string;
+    lastTrackDragY: undefined | number;
     volatileError: unknown;
-    afterDisplayedRegionsSetCallbacks: (() => void)[];
     scaleFactor: number;
     trackRefs: Record<string, HTMLDivElement>;
     coarseDynamicBlocks: BaseBlock[];
@@ -64,7 +64,7 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     readonly rubberbandTop: number;
     readonly pinnedTracksTop: number;
 } & {
-    scaleBarDisplayPrefix(): string | undefined;
+    scalebarDisplayPrefix(): string | undefined;
     MiniControlsComponent(): React.FC<any>;
     HeaderComponent(): React.FC<any>;
     readonly assembliesNotFound: string | undefined;
@@ -72,7 +72,11 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     readonly assembliesInitialized: boolean;
     readonly initialized: boolean;
     readonly hasDisplayedRegions: boolean;
-    readonly scaleBarHeight: number;
+    readonly loadingMessage: "Loading" | undefined;
+    readonly hasSomethingToShow: boolean;
+    readonly showLoading: boolean;
+    readonly showImportForm: boolean;
+    readonly scalebarHeight: number;
     readonly headerHeight: number;
     readonly trackHeights: number;
     readonly trackHeightsWithResizeHandles: number;
@@ -88,11 +92,11 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     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>>;
+        tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
     };
+    readonly trackMap: Map<any, any>;
     getTrack(id: string): any;
     rankSearchResults(results: BaseResult[]): BaseResult[];
-    rewriteOnClicks(trackType: string, viewMenuActions: MenuItem[]): void;
     readonly trackTypeActions: Map<string, MenuItem[]>;
 } & {
     setShowTrackOutlines(arg: boolean): void;
@@ -114,38 +118,30 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     setNewView(bpPerPx: number, offsetPx: number): void;
     horizontallyFlip(): void;
     showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
-    hideTrack(trackId: string): number;
+    hideTrack(trackId: string): 0 | 1;
 } & {
     moveTrackDown(id: string): void;
     moveTrackUp(id: string): void;
     moveTrackToTop(id: string): void;
     moveTrackToBottom(id: string): void;
     moveTrack(movingId: string, targetId: string): void;
-    toggleTrack(trackId: string): boolean;
+    toggleTrack(trackId: string): void;
     setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
     setShowCenterLine(b: boolean): void;
     setDisplayedRegions(regions: Region[]): void;
     activateTrackSelector(): import("@jbrowse/core/util").Widget;
     getSelectedRegions(leftOffset?: BpOffset, rightOffset?: BpOffset): {
+        assemblyName: string;
+        refName: string;
         start: number;
         end: number;
-        type: string;
-        regionNumber?: number;
-        reversed?: boolean;
-        refName: string;
-        assemblyName: string;
-        key: string;
-        offsetPx: number;
-        widthPx: number;
-        variant?: string;
-        isLeftEndOfDisplayedRegion?: boolean;
     }[];
-    afterDisplayedRegionsSet(cb: () => void): void;
     horizontalScroll(distance: number): number;
     center(): void;
     showAllRegions(): void;
     showAllRegionsInAssembly(assemblyName?: string): void;
     setDraggingTrackId(idx?: string): void;
+    setLastTrackDragY(y: number): void;
     setScaleFactor(factor: number): void;
     clearView(): void;
     setInit(arg?: InitState): void;
@@ -167,6 +163,7 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     readonly roundedDynamicBlocks: BaseBlock[];
     readonly visibleLocStrings: string;
     readonly coarseVisibleLocStrings: string;
+    readonly coarseTotalBpDisplayStr: string;
 } & {
     setCoarseDynamicBlocks(blocks: BlockSet): void;
 } & {
@@ -213,56 +210,62 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
         end: number;
         reversed?: boolean;
     } | undefined;
+    readonly visibleRegions: BaseBlock[];
+} & {
+    rubberbandClickMenuItems(clickOffset: BpOffset): MenuItem[];
 } & {
     afterCreate(): void;
     afterAttach(): void;
-}, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
-    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>;
+}, import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
+    id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
+    minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+} & {
+    id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+    offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+    bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+    displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<Region[], Region[], Region[]>, [undefined]>;
+    tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+    hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
+    colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    init: import("@jbrowse/mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
+}>>, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+    id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
+    minimized: import("@jbrowse/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").IOptionalIType<import("mobx-state-tree").IType<Region[], Region[], Region[]>, [undefined]>;
-    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>;
-    hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    trackSelectorType: 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]>;
-    trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-    showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
-    colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-    showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-    init: import("mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
-}>>, {
-    type: string;
-    id: string;
-    displayName: string | undefined;
-    tracks: any[];
-    minimized: boolean;
-    offsetPx: number;
-    bpPerPx: number;
-    displayedRegions: Region[];
-    hideHeader: boolean;
-    hideHeaderOverview: boolean;
-    hideNoTracksActive: boolean;
-    trackSelectorType: string;
-    showCenterLine: boolean;
-    showCytobandsSetting: boolean;
-    trackLabels: string;
-    showGridlines: boolean;
-    highlight: HighlightType[];
-    colorByCDS: boolean;
-    showTrackOutlines: boolean;
-}>;
+    id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+    offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+    bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+    displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<Region[], Region[], Region[]>, [undefined]>;
+    tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+    hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
+    showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
+    colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    init: import("@jbrowse/mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
+}>>;
 export type LinearGenomeViewStateModel = ReturnType<typeof stateModelFactory>;
 export type LinearGenomeViewModel = Instance<LinearGenomeViewStateModel>;
-export { default as LinearGenomeView, default as ReactComponent, } from './components/LinearGenomeView';
-export { default as RefNameAutocomplete } from './components/RefNameAutocomplete';
-export { default as SearchBox } from './components/SearchBox';
-export { renderToSvg } from './svgcomponents/SVGLinearGenomeView';
+export { default as LinearGenomeView, default as ReactComponent, } from './components/LinearGenomeView.tsx';
+export { default as RefNameAutocomplete } from './components/RefNameAutocomplete/index.tsx';
+export { default as SearchBox } from './components/SearchBox.tsx';
+export { renderToSvg } from './svgcomponents/SVGLinearGenomeView.tsx';