@jbrowse/plugin-wiggle 2.4.2 → 2.6.1

package/dist/index.d.ts

@@ -15,6 +15,8 @@ export default class WigglePlugin extends Plugin {
                 type: "LinearWiggleDisplay";
                 rpcDriverName: string | undefined;
                 heightPreConfig: number | undefined;
+                userBpPerPxLimit: number | undefined;
+                userByteSizeLimit: number | undefined;
                 blockState: import("mobx-state-tree").IMSTMap<import("mobx-state-tree").IModelType<{
                     key: import("mobx-state-tree").ISimpleType<string>;
                     region: import("mobx-state-tree").IModelType<{
@@ -106,9 +108,33 @@ export default class WigglePlugin extends Plugin {
                     reload(): void;
                     beforeDestroy(): void;
                 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
-                userBpPerPxLimit: number | undefined;
-                userByteSizeLimit: number | undefined;
-                configuration: any;
+                configuration: {
+                    [x: string]: any;
+                } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+                    setSubschema(slotName: string, data: unknown): any;
+                } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    maxFeatureScreenDensity: {
+                        type: string;
+                        description: string;
+                        defaultValue: number;
+                    };
+                    fetchSizeLimit: {
+                        type: string;
+                        defaultValue: number;
+                        description: string;
+                    };
+                    height: {
+                        type: string;
+                        defaultValue: number;
+                        description: string;
+                    };
+                    mouseover: {
+                        type: string;
+                        description: string;
+                        defaultValue: string;
+                        contextVariable: string[];
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">> & import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
                 selectedRendering: string;
                 resolution: number;
                 fill: boolean | undefined;
@@ -131,6 +157,7 @@ export default class WigglePlugin extends Plugin {
             } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                 rendererTypeName: string;
                 error: unknown;
+                message: string | undefined;
             } & {
                 readonly RenderingComponent: import("react").FC<{
                     model: {
@@ -140,6 +167,7 @@ export default class WigglePlugin extends Plugin {
                     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
                         id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
                         type: import("mobx-state-tree").ISimpleType<string>;
@@ -147,6 +175,7 @@ export default class WigglePlugin extends Plugin {
                     }, {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
                     onHorizontalScroll?: Function | undefined;
                     blockState?: Record<string, any> | undefined;
@@ -159,6 +188,7 @@ export default class WigglePlugin extends Plugin {
                     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
                         id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
                         type: import("mobx-state-tree").ISimpleType<string>;
@@ -166,6 +196,7 @@ export default class WigglePlugin extends Plugin {
                     }, {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
                 }> | null;
                 readonly adapterConfig: any;
@@ -175,21 +206,49 @@ export default class WigglePlugin extends Plugin {
                 readonly DisplayMessageComponent: import("react").FC<any> | undefined;
                 trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
                 readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
-                regionCannotBeRendered(): undefined;
+                regionCannotBeRendered(): null;
             } & {
+                setMessage(arg?: string | undefined): void;
                 setError(error?: unknown): void;
                 setRpcDriverName(rpcDriverName: string): void;
                 reload(): void;
             } & {
-                currBpPerPx: number;
                 scrollTop: number;
-                message: string;
+            } & {
+                readonly height: number;
+            } & {
+                setScrollTop(scrollTop: number): void;
+                setHeight(displayHeight: number): number;
+                resizeHeight(distance: number): number;
+            } & {
+                featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
+                featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
+                currStatsBpPerPx: number;
+            } & {
+                readonly currentBytesRequested: number;
+                readonly currentFeatureScreenDensity: number;
+                readonly maxFeatureScreenDensity: any;
+                readonly featureDensityStatsReady: boolean;
+                readonly maxAllowableBytes: number;
+            } & {
+                afterAttach(): void;
+            } & {
+                setCurrStatsBpPerPx(n: number): void;
+                setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+                getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
+                setFeatureDensityStatsP(arg: any): void;
+                setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+                clearFeatureDensityStats(): void;
+            } & {
+                readonly regionTooLarge: boolean;
+                readonly regionTooLargeReason: string;
+            } & {
+                regionCannotBeRenderedText(_region: import("@jbrowse/core/util/types").Region): "" | "Force load to see features";
+                regionCannotBeRendered(_region: import("@jbrowse/core/util/types").Region): import("react").JSX.Element | null;
+            } & {
                 featureIdUnderMouse: string | undefined;
                 contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
-                estimatedRegionsStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
-                estimatedRegionsStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
             } & {
-                readonly height: number;
                 readonly blockType: "dynamicBlocks" | "staticBlocks";
                 readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
             } & {
@@ -203,49 +262,22 @@ export default class WigglePlugin extends Plugin {
                 getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
                 getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
                 searchFeatureByID(id: string): [number, number, number, number] | undefined;
-                readonly currentBytesRequested: number;
-                readonly currentFeatureScreenDensity: number;
-                readonly maxFeatureScreenDensity: any;
-                readonly estimatedStatsReady: boolean;
-                readonly maxAllowableBytes: number;
             } & {
-                setMessage(message: string): void;
-            } & {
-                afterAttach(): void;
-                estimateRegionsStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats>;
-                setRegionsStatsP(arg: any): void;
-                setRegionsStats(estimatedRegionsStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
-                clearRegionsStats(): void;
-                setHeight(displayHeight: number): number;
-                resizeHeight(distance: number): number;
-                setScrollTop(scrollTop: number): void;
-                updateStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
                 addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
-                setCurrBpPerPx(n: number): void;
                 deleteBlock(key: string): void;
                 selectFeature(feature: import("@jbrowse/core/util").Feature): void;
                 clearFeatureSelection(): void;
-                setFeatureIdUnderMouse(feature: string | undefined): void;
-                reload(): void;
+                setFeatureIdUnderMouse(feature?: string | undefined): void;
                 setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
-            } & {
-                readonly regionTooLarge: boolean;
-                readonly regionTooLargeReason: string;
             } & {
                 reload(): Promise<void>;
             } & {
-                afterAttach(): void;
-            } & {
-                regionCannotBeRenderedText(_region: import("@jbrowse/core/util/types").Region): "" | "Force load to see features";
-                regionCannotBeRendered(_region: import("@jbrowse/core/util/types").Region): JSX.Element | null;
                 trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
                 contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
                 renderProps(): any;
             } & {
-                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
-                    overrideHeight: number;
-                    theme: import("@mui/material").ThemeOptions;
-                }): Promise<JSX.Element>;
+                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
+                afterAttach(): void;
             } & {
                 message: string | undefined;
                 stats: {
@@ -254,7 +286,7 @@ export default class WigglePlugin extends Plugin {
                 } | undefined;
                 statsFetchInProgress: AbortController | undefined;
             } & {
-                updateStats(stats: {
+                updateQuantitativeStats(stats: {
                     scoreMin: number;
                     scoreMax: number;
                 }): void;
@@ -275,25 +307,25 @@ export default class WigglePlugin extends Plugin {
                 toggleCrossHatches(): void;
                 setCrossHatches(cross: boolean): void;
             } & {
-                readonly TooltipComponent: import("react").FC<{}>;
                 readonly adapterTypeName: any;
                 readonly rendererTypeNameSimple: any;
-                readonly rendererTypeName: string;
                 readonly filters: undefined;
                 readonly scaleType: any;
                 readonly maxScore: any;
                 readonly minScore: any;
             } & {
+                readonly adapterCapabilities: string[];
                 readonly rendererConfig: {
                     [x: string]: any;
                 } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                     setSubschema(slotName: string, data: unknown): any;
                 } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
+                readonly autoscaleType: any;
             } & {
-                readonly filled: any;
-                readonly summaryScoreModeSetting: any;
                 readonly domain: number[] | undefined;
-                readonly needsScalebar: boolean;
+            } & {
+                readonly filled: boolean;
+                readonly summaryScoreModeSetting: string;
                 readonly scaleOpts: {
                     domain: number[] | undefined;
                     stats: {
@@ -305,8 +337,36 @@ export default class WigglePlugin extends Plugin {
                     inverted: any;
                 };
                 readonly canHaveFill: boolean;
-                readonly autoscaleType: any;
-                readonly displayCrossHatchesSetting: any;
+                readonly displayCrossHatchesSetting: boolean;
+                readonly hasResolution: boolean;
+                readonly hasGlobalStats: boolean;
+            } & {
+                scoreTrackMenuItems(): ({
+                    label: string;
+                    subMenu: {
+                        label: string;
+                        onClick: () => void;
+                    }[];
+                    onClick?: undefined;
+                } | {
+                    label: string;
+                    subMenu: {
+                        label: string;
+                        type: string;
+                        checked: boolean;
+                        onClick: () => void;
+                    }[];
+                    onClick?: undefined;
+                } | {
+                    label: string;
+                    onClick: () => void;
+                    subMenu?: undefined;
+                })[];
+            } & {
+                reload(): Promise<void>;
+            } & {
+                readonly TooltipComponent: import("react").FC<{}>;
+                readonly rendererTypeName: string;
             } & {
                 readonly ticks: {
                     range: number[];
@@ -314,14 +374,38 @@ export default class WigglePlugin extends Plugin {
                     format: (d: import("d3-scale").NumberValue) => string;
                     position: import("d3-scale").ScaleLinear<number, number, never> | import("d3-scale").ScaleQuantize<number, never>;
                 } | undefined;
-                readonly adapterCapabilities: string[];
             } & {
                 renderProps(): any;
-                readonly hasResolution: boolean;
-                readonly hasGlobalStats: boolean;
+                readonly needsScalebar: boolean;
                 readonly fillSetting: 2 | 0 | 1;
             } & {
                 trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
+                    label: string;
+                    subMenu: ({
+                        label: string;
+                        subMenu: {
+                            label: string;
+                            onClick: () => void;
+                        }[];
+                        onClick?: undefined;
+                    } | {
+                        label: string;
+                        subMenu: {
+                            label: string;
+                            type: string;
+                            checked: boolean;
+                            onClick: () => void;
+                        }[];
+                        onClick?: undefined;
+                    } | {
+                        label: string;
+                        onClick: () => void;
+                        subMenu?: undefined;
+                    })[];
+                    type?: undefined;
+                    checked?: undefined;
+                    onClick?: undefined;
+                } | {
                     label: string;
                     subMenu: {
                         label: string;
@@ -335,23 +419,23 @@ export default class WigglePlugin extends Plugin {
                 } | {
                     type: string;
                     label: string;
-                    checked: any;
+                    checked: boolean;
                     onClick: () => void;
                     subMenu?: undefined;
                 })[];
             } & {
-                reload(): Promise<void>;
                 afterAttach(): void;
-                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
-                    overrideHeight: number;
-                    theme: import("@mui/material").ThemeOptions;
-                }): Promise<JSX.Element>;
+                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
             } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
                 id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
                 type: import("mobx-state-tree").ISimpleType<string>;
                 rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
             } & {
                 heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+            } & {
+                userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+                userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+            } & {
                 blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
                     key: import("mobx-state-tree").ISimpleType<string>;
                     region: import("mobx-state-tree").IModelType<{
@@ -398,11 +482,30 @@ export default class WigglePlugin extends Plugin {
                     reload(): void;
                     beforeDestroy(): void;
                 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-                userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-                userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+                configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    maxFeatureScreenDensity: {
+                        type: string;
+                        description: string;
+                        defaultValue: number;
+                    };
+                    fetchSizeLimit: {
+                        type: string;
+                        defaultValue: number;
+                        description: string;
+                    };
+                    height: {
+                        type: string;
+                        defaultValue: number;
+                        description: string;
+                    };
+                    mouseover: {
+                        type: string;
+                        description: string;
+                        defaultValue: string;
+                        contextVariable: string[];
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
             } & {
-                type: import("mobx-state-tree").ISimpleType<"LinearWiggleDisplay">;
-                configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
                 selectedRendering: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
                 resolution: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
                 fill: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
@@ -419,9 +522,13 @@ export default class WigglePlugin extends Plugin {
                     max: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
                     min: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
                 }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
+                configuration: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+            } & {
+                type: import("mobx-state-tree").ISimpleType<"LinearWiggleDisplay">;
             }, {
                 rendererTypeName: string;
                 error: unknown;
+                message: string | undefined;
             } & {
                 readonly RenderingComponent: import("react").FC<{
                     model: {
@@ -431,6 +538,7 @@ export default class WigglePlugin extends Plugin {
                     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
                         id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
                         type: import("mobx-state-tree").ISimpleType<string>;
@@ -438,6 +546,7 @@ export default class WigglePlugin extends Plugin {
                     }, {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
                     onHorizontalScroll?: Function | undefined;
                     blockState?: Record<string, any> | undefined;
@@ -450,6 +559,7 @@ export default class WigglePlugin extends Plugin {
                     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
                         id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
                         type: import("mobx-state-tree").ISimpleType<string>;
@@ -457,6 +567,7 @@ export default class WigglePlugin extends Plugin {
                     }, {
                         rendererTypeName: string;
                         error: unknown;
+                        message: string | undefined;
                     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
                 }> | null;
                 readonly adapterConfig: any;
@@ -466,21 +577,49 @@ export default class WigglePlugin extends Plugin {
                 readonly DisplayMessageComponent: import("react").FC<any> | undefined;
                 trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
                 readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
-                regionCannotBeRendered(): undefined;
+                regionCannotBeRendered(): null;
             } & {
+                setMessage(arg?: string | undefined): void;
                 setError(error?: unknown): void;
                 setRpcDriverName(rpcDriverName: string): void;
                 reload(): void;
             } & {
-                currBpPerPx: number;
                 scrollTop: number;
-                message: string;
+            } & {
+                readonly height: number;
+            } & {
+                setScrollTop(scrollTop: number): void;
+                setHeight(displayHeight: number): number;
+                resizeHeight(distance: number): number;
+            } & {
+                featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
+                featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
+                currStatsBpPerPx: number;
+            } & {
+                readonly currentBytesRequested: number;
+                readonly currentFeatureScreenDensity: number;
+                readonly maxFeatureScreenDensity: any;
+                readonly featureDensityStatsReady: boolean;
+                readonly maxAllowableBytes: number;
+            } & {
+                afterAttach(): void;
+            } & {
+                setCurrStatsBpPerPx(n: number): void;
+                setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+                getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
+                setFeatureDensityStatsP(arg: any): void;
+                setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+                clearFeatureDensityStats(): void;
+            } & {
+                readonly regionTooLarge: boolean;
+                readonly regionTooLargeReason: string;
+            } & {
+                regionCannotBeRenderedText(_region: import("@jbrowse/core/util/types").Region): "" | "Force load to see features";
+                regionCannotBeRendered(_region: import("@jbrowse/core/util/types").Region): import("react").JSX.Element | null;
+            } & {
                 featureIdUnderMouse: string | undefined;
                 contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
-                estimatedRegionsStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
-                estimatedRegionsStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
             } & {
-                readonly height: number;
                 readonly blockType: "dynamicBlocks" | "staticBlocks";
                 readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
             } & {
@@ -494,49 +633,22 @@ export default class WigglePlugin extends Plugin {
                 getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
                 getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
                 searchFeatureByID(id: string): [number, number, number, number] | undefined;
-                readonly currentBytesRequested: number;
-                readonly currentFeatureScreenDensity: number;
-                readonly maxFeatureScreenDensity: any;
-                readonly estimatedStatsReady: boolean;
-                readonly maxAllowableBytes: number;
             } & {
-                setMessage(message: string): void;
-            } & {
-                afterAttach(): void;
-                estimateRegionsStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats>;
-                setRegionsStatsP(arg: any): void;
-                setRegionsStats(estimatedRegionsStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
-                clearRegionsStats(): void;
-                setHeight(displayHeight: number): number;
-                resizeHeight(distance: number): number;
-                setScrollTop(scrollTop: number): void;
-                updateStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
                 addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
-                setCurrBpPerPx(n: number): void;
                 deleteBlock(key: string): void;
                 selectFeature(feature: import("@jbrowse/core/util").Feature): void;
                 clearFeatureSelection(): void;
-                setFeatureIdUnderMouse(feature: string | undefined): void;
-                reload(): void;
+                setFeatureIdUnderMouse(feature?: string | undefined): void;
                 setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
-            } & {
-                readonly regionTooLarge: boolean;
-                readonly regionTooLargeReason: string;
             } & {
                 reload(): Promise<void>;
             } & {
-                afterAttach(): void;
-            } & {
-                regionCannotBeRenderedText(_region: import("@jbrowse/core/util/types").Region): "" | "Force load to see features";
-                regionCannotBeRendered(_region: import("@jbrowse/core/util/types").Region): JSX.Element | null;
                 trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
                 contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
                 renderProps(): any;
             } & {
-                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
-                    overrideHeight: number;
-                    theme: import("@mui/material").ThemeOptions;
-                }): Promise<JSX.Element>;
+                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
+                afterAttach(): void;
             } & {
                 message: string | undefined;
                 stats: {
@@ -545,7 +657,7 @@ export default class WigglePlugin extends Plugin {
                 } | undefined;
                 statsFetchInProgress: AbortController | undefined;
             } & {
-                updateStats(stats: {
+                updateQuantitativeStats(stats: {
                     scoreMin: number;
                     scoreMax: number;
                 }): void;
@@ -566,25 +678,25 @@ export default class WigglePlugin extends Plugin {
                 toggleCrossHatches(): void;
                 setCrossHatches(cross: boolean): void;
             } & {
-                readonly TooltipComponent: import("react").FC<{}>;
                 readonly adapterTypeName: any;
                 readonly rendererTypeNameSimple: any;
-                readonly rendererTypeName: string;
                 readonly filters: undefined;
                 readonly scaleType: any;
                 readonly maxScore: any;
                 readonly minScore: any;
             } & {
+                readonly adapterCapabilities: string[];
                 readonly rendererConfig: {
                     [x: string]: any;
                 } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
                     setSubschema(slotName: string, data: unknown): any;
                 } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
+                readonly autoscaleType: any;
             } & {
-                readonly filled: any;
-                readonly summaryScoreModeSetting: any;
                 readonly domain: number[] | undefined;
-                readonly needsScalebar: boolean;
+            } & {
+                readonly filled: boolean;
+                readonly summaryScoreModeSetting: string;
                 readonly scaleOpts: {
                     domain: number[] | undefined;
                     stats: {
@@ -596,8 +708,36 @@ export default class WigglePlugin extends Plugin {
                     inverted: any;
                 };
                 readonly canHaveFill: boolean;
-                readonly autoscaleType: any;
-                readonly displayCrossHatchesSetting: any;
+                readonly displayCrossHatchesSetting: boolean;
+                readonly hasResolution: boolean;
+                readonly hasGlobalStats: boolean;
+            } & {
+                scoreTrackMenuItems(): ({
+                    label: string;
+                    subMenu: {
+                        label: string;
+                        onClick: () => void;
+                    }[];
+                    onClick?: undefined;
+                } | {
+                    label: string;
+                    subMenu: {
+                        label: string;
+                        type: string;
+                        checked: boolean;
+                        onClick: () => void;
+                    }[];
+                    onClick?: undefined;
+                } | {
+                    label: string;
+                    onClick: () => void;
+                    subMenu?: undefined;
+                })[];
+            } & {
+                reload(): Promise<void>;
+            } & {
+                readonly TooltipComponent: import("react").FC<{}>;
+                readonly rendererTypeName: string;
             } & {
                 readonly ticks: {
                     range: number[];
@@ -605,14 +745,38 @@ export default class WigglePlugin extends Plugin {
                     format: (d: import("d3-scale").NumberValue) => string;
                     position: import("d3-scale").ScaleLinear<number, number, never> | import("d3-scale").ScaleQuantize<number, never>;
                 } | undefined;
-                readonly adapterCapabilities: string[];
             } & {
                 renderProps(): any;
-                readonly hasResolution: boolean;
-                readonly hasGlobalStats: boolean;
+                readonly needsScalebar: boolean;
                 readonly fillSetting: 2 | 0 | 1;
             } & {
                 trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
+                    label: string;
+                    subMenu: ({
+                        label: string;
+                        subMenu: {
+                            label: string;
+                            onClick: () => void;
+                        }[];
+                        onClick?: undefined;
+                    } | {
+                        label: string;
+                        subMenu: {
+                            label: string;
+                            type: string;
+                            checked: boolean;
+                            onClick: () => void;
+                        }[];
+                        onClick?: undefined;
+                    } | {
+                        label: string;
+                        onClick: () => void;
+                        subMenu?: undefined;
+                    })[];
+                    type?: undefined;
+                    checked?: undefined;
+                    onClick?: undefined;
+                } | {
                     label: string;
                     subMenu: {
                         label: string;
@@ -626,82 +790,15 @@ export default class WigglePlugin extends Plugin {
                 } | {
                     type: string;
                     label: string;
-                    checked: any;
+                    checked: boolean;
                     onClick: () => void;
                     subMenu?: undefined;
                 })[];
             } & {
-                reload(): Promise<void>;
                 afterAttach(): void;
-                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
-                    overrideHeight: number;
-                    theme: import("@mui/material").ThemeOptions;
-                }): Promise<JSX.Element>;
-            }, {
-                type: string;
-            } & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
-                id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-                type: import("mobx-state-tree").ISimpleType<string>;
-                rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-            } & {
-                heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-                blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
-                    key: import("mobx-state-tree").ISimpleType<string>;
-                    region: 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]>;
-                    } & {
-                        assemblyName: import("mobx-state-tree").ISimpleType<string>;
-                    }, {
-                        setRefName(newRefName: string): void;
-                    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-                    reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
-                    isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-                    isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-                }, {
-                    renderInProgress: AbortController | undefined;
-                    filled: boolean;
-                    reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
-                    features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
-                    layout: any;
-                    status: string;
-                    error: unknown;
-                    message: string | undefined;
-                    maxHeightReached: boolean;
-                    ReactComponent: ({ model, }: {
-                        model: any;
-                    }) => any;
-                    renderProps: any;
-                } & {
-                    doReload(): void;
-                    afterAttach(): void;
-                    setStatus(message: string): void;
-                    setLoading(abortController: AbortController): void;
-                    setMessage(messageText: string): void;
-                    setRendered(props: {
-                        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
-                        features: Map<string, import("@jbrowse/core/util").Feature>;
-                        layout: any;
-                        maxHeightReached: boolean;
-                        renderProps: any;
-                    } | undefined): void;
-                    setError(error: unknown): void;
-                    reload(): void;
-                    beforeDestroy(): void;
-                }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-                userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-                userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-            }>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, {
-                type: string;
-                id: string;
-                rpcDriverName: string | undefined;
-                heightPreConfig: number | undefined;
-                userBpPerPxLimit: number | undefined;
-                userByteSizeLimit: number | undefined;
-            } & import("mobx-state-tree")._NotCustomized>>;
-        }) => JSX.Element;
+                renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
+            }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        }) => import("react").JSX.Element;
         XYPlotRendererReactComponent: (props: {
             regions: import("@jbrowse/core/util/types").Region[];
             features: Map<string, import("@jbrowse/core/util").Feature>;
@@ -712,11 +809,63 @@ export default class WigglePlugin extends Plugin {
             onMouseMove: Function;
             onFeatureClick: Function;
             blockKey: string;
-        }) => JSX.Element;
+        }) => import("react").JSX.Element;
         XYPlotRenderer: typeof XYPlotRenderer;
         WiggleBaseRenderer: typeof WiggleBaseRenderer;
         linearWiggleDisplayModelFactory: typeof linearWiggleDisplayModelFactory;
-        xyPlotRendererConfigSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+        xyPlotRendererConfigSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+            filled: {
+                type: string;
+                defaultValue: boolean;
+            };
+            displayCrossHatches: {
+                type: string;
+                description: string;
+                defaultValue: boolean;
+            };
+            summaryScoreMode: {
+                type: string;
+                model: import("mobx-state-tree").ISimpleType<string>;
+                description: string;
+                defaultValue: string;
+            };
+            minSize: {
+                type: string;
+                defaultValue: number;
+            };
+        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+            color: {
+                type: string;
+                description: string;
+                defaultValue: string;
+            };
+            posColor: {
+                type: string;
+                description: string;
+                defaultValue: string;
+            };
+            negColor: {
+                type: string;
+                description: string;
+                defaultValue: string;
+            };
+            clipColor: {
+                type: string;
+                description: string;
+                defaultValue: string;
+            };
+            bicolorPivot: {
+                type: string;
+                model: import("mobx-state-tree").ISimpleType<string>;
+                description: string;
+                defaultValue: string;
+            };
+            bicolorPivotValue: {
+                type: string;
+                defaultValue: number;
+                description: string;
+            };
+        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>, undefined>>;
         utils: typeof utils;
     };
 }