@jbrowse/plugin-alignments 1.7.0 → 1.7.1

package/dist/LinearAlignmentsDisplay/models/model.d.ts

@@ -1,105 +1,105 @@
-import React from 'react';
-import { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import PluginManager from '@jbrowse/core/PluginManager';
-import { MenuItem } from '@jbrowse/core/ui';
-import { Instance } from 'mobx-state-tree';
-import { AlignmentsConfigModel } from './configSchema';
-declare const stateModelFactory: (pluginManager: PluginManager, configSchema: AlignmentsConfigModel) => 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>>;
-} & {
-    PileupDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
-    SNPCoverageDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
-    snpCovHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
-    type: import("mobx-state-tree").ISimpleType<"LinearAlignmentsDisplay">;
-    configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
-    height: import("mobx-state-tree").IType<number | undefined, number, number>;
-    showCoverage: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    showPileup: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    userFeatureScreenDensity: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-}, {
-    rendererTypeName: string;
-    error: unknown;
-} & {
-    readonly RenderingComponent: React.FC<{
-        model: import("mobx-state-tree").ModelInstanceTypeProps<{
-            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>>;
-        }> & {
-            rendererTypeName: string;
-            error: unknown;
-        } & 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>>;
-        }, {
-            rendererTypeName: string;
-            error: unknown;
-        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        onHorizontalScroll?: Function | undefined;
-        blockState?: Record<string, any> | undefined;
-    }>;
-    readonly DisplayBlurb: React.FC<{
-        model: import("mobx-state-tree").ModelInstanceTypeProps<{
-            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>>;
-        }> & {
-            rendererTypeName: string;
-            error: unknown;
-        } & 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>>;
-        }, {
-            rendererTypeName: string;
-            error: unknown;
-        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    }> | null;
-    readonly adapterConfig: any;
-    readonly parentTrack: any;
-    renderProps(): any;
-    readonly rendererType: any;
-    readonly DisplayMessageComponent: React.FC<any> | undefined;
-    trackMenuItems(): MenuItem[];
-    readonly viewMenuActions: MenuItem[];
-    regionCannotBeRendered(): undefined;
-} & {
-    setError(error?: unknown): void;
-    setRpcDriverName(rpcDriverName: string): void;
-    reload(): void;
-} & {
-    scrollTop: number;
-} & {
-    toggleCoverage(): void;
-    togglePileup(): void;
-    setScrollTop(scrollTop: number): void;
-    setSNPCoverageHeight(n: number): void;
-} & {
-    readonly pileupDisplayConfig: any;
-    getFeatureByID(blockKey: string, id: string): any;
-    searchFeatureByID(id: string): any;
-    readonly features: any;
-    readonly DisplayBlurb: any;
-    readonly sortedBy: any;
-    readonly sortedByPosition: any;
-    readonly sortedByRefName: any;
-    readonly snpCoverageDisplayConfig: any;
-    trackMenuItems(): MenuItem[];
-} & {
-    setSNPCoverageDisplay(displayConfig: AnyConfigurationModel): void;
-    setUserFeatureScreenDensity(limit: number): void;
-    setPileupDisplay(displayConfig: AnyConfigurationModel): void;
-    setHeight(displayHeight: number): number;
-    resizeHeight(distance: number): number;
-} & {
-    afterAttach(): void;
-    renderSvg(opts: {
-        rasterizeLayers?: boolean;
-    }): Promise<JSX.Element>;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export default stateModelFactory;
-export declare type AlignmentsDisplayStateModel = ReturnType<typeof stateModelFactory>;
-export declare type AlignmentsDisplayModel = Instance<AlignmentsDisplayStateModel>;
+import React from 'react';
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import PluginManager from '@jbrowse/core/PluginManager';
+import { MenuItem } from '@jbrowse/core/ui';
+import { Instance } from 'mobx-state-tree';
+import { AlignmentsConfigModel } from './configSchema';
+declare const stateModelFactory: (pluginManager: PluginManager, configSchema: AlignmentsConfigModel) => 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>>;
+} & {
+    PileupDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
+    SNPCoverageDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
+    snpCovHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
+    type: import("mobx-state-tree").ISimpleType<"LinearAlignmentsDisplay">;
+    configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
+    height: import("mobx-state-tree").IType<number | undefined, number, number>;
+    showCoverage: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    showPileup: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    userFeatureScreenDensity: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+}, {
+    rendererTypeName: string;
+    error: unknown;
+} & {
+    readonly RenderingComponent: React.FC<{
+        model: import("mobx-state-tree").ModelInstanceTypeProps<{
+            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>>;
+        }> & {
+            rendererTypeName: string;
+            error: unknown;
+        } & 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>>;
+        }, {
+            rendererTypeName: string;
+            error: unknown;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        onHorizontalScroll?: Function | undefined;
+        blockState?: Record<string, any> | undefined;
+    }>;
+    readonly DisplayBlurb: React.FC<{
+        model: import("mobx-state-tree").ModelInstanceTypeProps<{
+            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>>;
+        }> & {
+            rendererTypeName: string;
+            error: unknown;
+        } & 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>>;
+        }, {
+            rendererTypeName: string;
+            error: unknown;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+    }> | null;
+    readonly adapterConfig: any;
+    readonly parentTrack: any;
+    renderProps(): any;
+    readonly rendererType: any;
+    readonly DisplayMessageComponent: React.FC<any> | undefined;
+    trackMenuItems(): MenuItem[];
+    readonly viewMenuActions: MenuItem[];
+    regionCannotBeRendered(): undefined;
+} & {
+    setError(error?: unknown): void;
+    setRpcDriverName(rpcDriverName: string): void;
+    reload(): void;
+} & {
+    scrollTop: number;
+} & {
+    toggleCoverage(): void;
+    togglePileup(): void;
+    setScrollTop(scrollTop: number): void;
+    setSNPCoverageHeight(n: number): void;
+} & {
+    readonly pileupDisplayConfig: any;
+    getFeatureByID(blockKey: string, id: string): any;
+    searchFeatureByID(id: string): any;
+    readonly features: any;
+    readonly DisplayBlurb: any;
+    readonly sortedBy: any;
+    readonly sortedByPosition: any;
+    readonly sortedByRefName: any;
+    readonly snpCoverageDisplayConfig: any;
+    trackMenuItems(): MenuItem[];
+} & {
+    setSNPCoverageDisplay(displayConfig: AnyConfigurationModel): void;
+    setUserFeatureScreenDensity(limit: number): void;
+    setPileupDisplay(displayConfig: AnyConfigurationModel): void;
+    setHeight(displayHeight: number): number;
+    resizeHeight(distance: number): number;
+} & {
+    afterAttach(): void;
+    renderSvg(opts: {
+        rasterizeLayers?: boolean;
+    }): Promise<JSX.Element>;
+}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+export default stateModelFactory;
+export declare type AlignmentsDisplayStateModel = ReturnType<typeof stateModelFactory>;
+export declare type AlignmentsDisplayModel = Instance<AlignmentsDisplayStateModel>;

package/dist/LinearPileupDisplay/components/ColorByModifications.d.ts

@@ -1,14 +1,14 @@
-/// <reference types="react" />
-import { ObservableMap } from 'mobx';
-declare function ColorByTagDlg(props: {
-    model: {
-        setColorScheme: Function;
-        modificationTagMap: ObservableMap<string, string>;
-        colorBy?: {
-            type: string;
-        };
-    };
-    handleClose: () => void;
-}): JSX.Element;
-declare const _default: typeof ColorByTagDlg;
-export default _default;
+/// <reference types="react" />
+import { ObservableMap } from 'mobx';
+declare function ColorByTagDlg(props: {
+    model: {
+        setColorScheme: Function;
+        modificationTagMap: ObservableMap<string, string>;
+        colorBy?: {
+            type: string;
+        };
+    };
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof ColorByTagDlg;
+export default _default;

package/dist/LinearPileupDisplay/components/ColorByTag.d.ts

@@ -1,9 +1,9 @@
-/// <reference types="react" />
-declare function ColorByTagDlg(props: {
-    model: {
-        setColorScheme: Function;
-    };
-    handleClose: () => void;
-}): JSX.Element;
-declare const _default: typeof ColorByTagDlg;
-export default _default;
+/// <reference types="react" />
+declare function ColorByTagDlg(props: {
+    model: {
+        setColorScheme: Function;
+    };
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof ColorByTagDlg;
+export default _default;

package/dist/LinearPileupDisplay/components/FilterByTag.d.ts

@@ -1,18 +1,18 @@
-/// <reference types="react" />
-declare function FilterByTagDlg(props: {
-    model: {
-        filterBy?: {
-            flagExclude: number;
-            flagInclude: number;
-            readName?: string;
-            tagFilter?: {
-                tag: string;
-                value: string;
-            };
-        };
-        setFilterBy: Function;
-    };
-    handleClose: () => void;
-}): JSX.Element;
-declare const _default: typeof FilterByTagDlg;
-export default _default;
+/// <reference types="react" />
+declare function FilterByTagDlg(props: {
+    model: {
+        filterBy?: {
+            flagExclude: number;
+            flagInclude: number;
+            readName?: string;
+            tagFilter?: {
+                tag: string;
+                value: string;
+            };
+        };
+        setFilterBy: Function;
+    };
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof FilterByTagDlg;
+export default _default;

package/dist/LinearPileupDisplay/components/LinearPileupDisplayBlurb.d.ts

@@ -1,13 +1,13 @@
-/// <reference types="react" />
-export interface LinearPileupDisplayBlurbProps {
-    model: {
-        sortedBy?: {
-            pos: number;
-            refName: number;
-            type: string;
-        };
-    };
-}
-declare function LinearPileupDisplayBlurb(props: LinearPileupDisplayBlurbProps): JSX.Element | null;
-declare const _default: typeof LinearPileupDisplayBlurb;
-export default _default;
+/// <reference types="react" />
+export interface LinearPileupDisplayBlurbProps {
+    model: {
+        sortedBy?: {
+            pos: number;
+            refName: number;
+            type: string;
+        };
+    };
+}
+declare function LinearPileupDisplayBlurb(props: LinearPileupDisplayBlurbProps): JSX.Element | null;
+declare const _default: typeof LinearPileupDisplayBlurb;
+export default _default;

package/dist/LinearPileupDisplay/components/SetFeatureHeight.d.ts

@@ -1,16 +1,16 @@
-/// <reference types="react" />
-declare function SetFeatureHeightDlg(props: {
-    model: {
-        minScore: number;
-        maxScore: number;
-        setMinScore: Function;
-        setMaxScore: Function;
-        setFeatureHeight: Function;
-        setNoSpacing: Function;
-        featureHeightSetting: number;
-        noSpacing: boolean;
-    };
-    handleClose: () => void;
-}): JSX.Element;
-declare const _default: typeof SetFeatureHeightDlg;
-export default _default;
+/// <reference types="react" />
+declare function SetFeatureHeightDlg(props: {
+    model: {
+        minScore: number;
+        maxScore: number;
+        setMinScore: Function;
+        setMaxScore: Function;
+        setFeatureHeight: Function;
+        setNoSpacing: Function;
+        featureHeightSetting: number;
+        noSpacing: boolean;
+    };
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof SetFeatureHeightDlg;
+export default _default;

package/dist/LinearPileupDisplay/components/SetMaxHeight.d.ts

@@ -1,10 +1,10 @@
-/// <reference types="react" />
-declare function SetMaxHeightDlg(props: {
-    model: {
-        maxHeight?: number;
-        setMaxHeight: Function;
-    };
-    handleClose: () => void;
-}): JSX.Element;
-declare const _default: typeof SetMaxHeightDlg;
-export default _default;
+/// <reference types="react" />
+declare function SetMaxHeightDlg(props: {
+    model: {
+        maxHeight?: number;
+        setMaxHeight: Function;
+    };
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof SetMaxHeightDlg;
+export default _default;

package/dist/LinearPileupDisplay/components/SortByTag.d.ts

@@ -1,9 +1,9 @@
-/// <reference types="react" />
-declare function SortByTagDlg(props: {
-    model: {
-        setSortedBy: Function;
-    };
-    handleClose: () => void;
-}): JSX.Element;
-declare const _default: typeof SortByTagDlg;
-export default _default;
+/// <reference types="react" />
+declare function SortByTagDlg(props: {
+    model: {
+        setSortedBy: Function;
+    };
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof SortByTagDlg;
+export default _default;

package/dist/LinearPileupDisplay/configSchema.d.ts

@@ -1,6 +1,6 @@
-import { Instance } from 'mobx-state-tree';
-import PluginManager from '@jbrowse/core/PluginManager';
-declare function PileupConfigFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-export declare type LinearPileupDisplayConfigModel = ReturnType<typeof PileupConfigFactory>;
-export declare type LinearPileupDisplayConfig = Instance<LinearPileupDisplayConfigModel>;
-export default PileupConfigFactory;
+import { Instance } from 'mobx-state-tree';
+import PluginManager from '@jbrowse/core/PluginManager';
+declare function PileupConfigFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export declare type LinearPileupDisplayConfigModel = ReturnType<typeof PileupConfigFactory>;
+export declare type LinearPileupDisplayConfig = Instance<LinearPileupDisplayConfigModel>;
+export default PileupConfigFactory;

package/dist/LinearPileupDisplay/index.d.ts

@@ -1,2 +1,2 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-export default function register(pluginManager: PluginManager): void;
+import PluginManager from '@jbrowse/core/PluginManager';
+export default function register(pluginManager: PluginManager): void;