@jbrowse/plugin-linear-comparative-view 3.7.0 → 4.0.1

package/dist/LGVSyntenyDisplay/model.d.ts

@@ -1,418 +0,0 @@
-import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
-import type { Feature } from '@jbrowse/core/util';
-declare function stateModelFactory(schema: AnyConfigurationSchemaType): 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").IType<import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region>;
-        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>;
-    }, {
-        stopToken: string | undefined;
-        filled: boolean;
-        reactElement: React.ReactElement | undefined;
-        features: Map<string, Feature> | undefined;
-        layout: any;
-        status: string;
-        error: unknown;
-        message: string | undefined;
-        maxHeightReached: boolean;
-        ReactComponent: ({ model, }: {
-            model: {
-                error?: unknown;
-                reload: () => void;
-                message: React.ReactNode;
-                filled?: boolean;
-                status?: string;
-                reactElement?: React.ReactElement;
-            };
-        }) => import("react/jsx-runtime").JSX.Element | undefined;
-        renderProps: any;
-    } & {
-        doReload(): void;
-        afterAttach(): void;
-        setStatus(message: string): void;
-        setLoading(newStopToken: string): void;
-        setMessage(messageText: string): void;
-        setRendered(props: import("@jbrowse/plugin-linear-genome-view/src/BaseLinearDisplay/models/serverSideRenderedBlock").RenderedProps | undefined): void;
-        setError(error: unknown): void;
-        reload(): void;
-        beforeDestroy(): void;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    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[];
-        };
-        jexlFilters: {
-            type: string;
-            description: string;
-            defaultValue: never[];
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
-} & {
-    configuration: AnyConfigurationSchemaType;
-    featureHeight: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    noSpacing: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
-    fadeLikelihood: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
-    trackMaxHeight: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    colorBySetting: import("mobx-state-tree").IType<import("@jbrowse/plugin-alignments/src/shared/types").ColorBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").ColorBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").ColorBy | undefined>;
-    filterBySetting: import("mobx-state-tree").IType<import("@jbrowse/plugin-alignments/src/shared/types").FilterBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").FilterBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").FilterBy | undefined>;
-    jexlFilters: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").ISimpleType<string>>, [undefined]>;
-    hideSmallIndelsSetting: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
-} & {
-    type: import("mobx-state-tree").ISimpleType<"LGVSyntenyDisplay">;
-    configuration: AnyConfigurationSchemaType;
-}, {
-    rendererTypeName: string;
-    error: unknown;
-    message: string | undefined;
-} & {
-    readonly RenderingComponent: React.FC<{
-        model: {
-            id: string;
-            type: string;
-            rpcDriverName: string | undefined;
-        } & 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>;
-            rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-        }, {
-            rendererTypeName: string;
-            error: unknown;
-            message: string | undefined;
-        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        onHorizontalScroll?: () => void;
-        blockState?: Record<string, any>;
-    }>;
-    readonly DisplayBlurb: React.FC<{
-        model: {
-            id: string;
-            type: string;
-            rpcDriverName: string | undefined;
-        } & 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>;
-            rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-        }, {
-            rendererTypeName: string;
-            error: unknown;
-            message: string | undefined;
-        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    }> | null;
-    readonly adapterConfig: any;
-    readonly parentTrack: any;
-    renderProps(): any;
-    readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-    readonly DisplayMessageComponent: undefined | React.FC<any>;
-    trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-    readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
-    regionCannotBeRendered(): null;
-} & {
-    setMessage(arg?: string): void;
-    setError(error?: unknown): void;
-    setRpcDriverName(rpcDriverName: string): void;
-    reload(): void;
-} & {
-    scrollTop: number;
-} & {
-    readonly height: number;
-} & {
-    setScrollTop(scrollTop: number): void;
-    setHeight(displayHeight: number): number;
-    resizeHeight(distance: number): number;
-} & {
-    featureDensityStatsP: undefined | Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
-    featureDensityStats: undefined | import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats;
-    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): void;
-    getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
-    setFeatureDensityStatsP(arg: any): void;
-    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
-    clearFeatureDensityStats(): void;
-} & {
-    readonly regionTooLarge: boolean;
-    readonly regionTooLargeReason: string;
-} & {
-    readonly statsReadyAndRegionNotTooLarge: boolean;
-    regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
-    regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react/jsx-runtime").JSX.Element | null;
-} & {
-    mouseoverExtraInformation: string | undefined;
-    featureIdUnderMouse: undefined | string;
-    contextMenuFeature: undefined | Feature;
-} & {
-    readonly DisplayMessageComponent: undefined | React.FC<any>;
-    readonly blockType: "staticBlocks" | "dynamicBlocks";
-    readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
-} & {
-    readonly renderDelay: number;
-    readonly TooltipComponent: import("@jbrowse/core/util").AnyReactComponentType;
-    readonly selectedFeatureId: string | undefined;
-    copyInfoToClipboard(feature: Feature): void;
-} & {
-    readonly features: import("@jbrowse/core/util/compositeMap").default<string, Feature>;
-    readonly featureUnderMouse: Feature | undefined;
-    readonly layoutFeatures: import("@jbrowse/core/util/compositeMap").default<string, [number, number, number, number] | [number, number, number, number, {
-        label?: string;
-        description?: string;
-        refName: string;
-    }]>;
-    getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
-    getFeatureByID(blockKey: string, id: string): ([number, number, number, number] | [number, number, number, number, {
-        label?: string;
-        description?: string;
-        refName: string;
-    }]) | undefined;
-    searchFeatureByID(id: string): ([number, number, number, number] | [number, number, number, number, {
-        label?: string;
-        description?: string;
-        refName: string;
-    }]) | undefined;
-} & {
-    addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
-    deleteBlock(key: string): void;
-    selectFeature(feature: Feature): void;
-    navToFeature(feature: Feature): void;
-    clearFeatureSelection(): void;
-    setFeatureIdUnderMouse(feature?: string): void;
-    setContextMenuFeature(feature?: Feature): void;
-    setMouseoverExtraInformation(extra?: string): void;
-} & {
-    reload(): Promise<void>;
-} & {
-    trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-    contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-    renderProps(): any;
-} & {
-    renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react/jsx-runtime").JSX.Element>;
-    afterAttach(): void;
-} & {
-    colorTagMap: import("mobx").ObservableMap<string, string>;
-    featureUnderMouseVolatile: undefined | Feature;
-    tagsReady: boolean;
-} & {
-    readonly colorBy: any;
-    readonly filterBy: any;
-} & {
-    readonly autorunReady: boolean;
-    readonly hideSmallIndels: boolean | undefined;
-} & {
-    setTagsReady(flag: boolean): void;
-    setMaxHeight(n?: number): void;
-    setFeatureHeight(n?: number): void;
-    setNoSpacing(flag?: boolean): void;
-    setColorScheme(colorScheme: import("@jbrowse/plugin-alignments/src/shared/types").ColorBy): void;
-    updateColorTagMap(uniqueTag: string[]): void;
-    setFeatureUnderMouse(feat?: Feature): void;
-    selectFeature(feature: Feature): void;
-    setConfig(conf: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
-    setFilterBy(filter: import("@jbrowse/plugin-alignments/src/shared/types").FilterBy): void;
-    setJexlFilters(filters: string[]): void;
-    setHideSmallIndels(arg: boolean): void;
-} & {
-    copyFeatureToClipboard(feature: Feature): void;
-    readonly rendererConfig: {
-        [x: string]: any;
-    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-        setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
-            [x: string]: any;
-        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
-                [x: string]: any;
-            } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
-        } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
-    } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
-} & {
-    readonly maxHeight: any;
-    readonly featureHeightSetting: any;
-    readonly featureUnderMouse: Feature | undefined;
-    renderReady(): boolean;
-    readonly filters: import("@jbrowse/core/pluggableElementTypes/renderers/util/serializableFilterChain").default;
-} & {
-    readonly rendererTypeName: string;
-    contextMenuItems(): {
-        label: string;
-        icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
-            muiName: string;
-        };
-        onClick: () => void;
-    }[];
-    readonly DisplayBlurb: ({ model, }: {
-        model: {
-            sortedBy?: import("@jbrowse/plugin-alignments/src/shared/types").SortedBy;
-        };
-    }) => import("react/jsx-runtime").JSX.Element | null;
-    renderPropsPre(): any;
-    colorSchemeSubMenuItems(): {
-        label: string;
-        onClick: () => void;
-    }[];
-    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;
-        priority: number;
-        type: string;
-        checked: boolean | undefined;
-        onClick: () => void;
-        icon?: undefined;
-    } | {
-        label: string;
-        icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
-            muiName: string;
-        };
-        onClick: () => void;
-        priority?: undefined;
-        type?: undefined;
-        checked?: undefined;
-    })[];
-} & {
-    renderProps(): any;
-} & {
-    afterAttach(): void;
-} & {
-    contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-} & {
-    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;
-            onClick: () => void;
-        }[];
-    })[];
-} & {
-    selectFeature(feature: Feature): void;
-    afterCreate(): void;
-}, {
-    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>>;
-} & {
-    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").IType<import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region>;
-        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>;
-    }, {
-        stopToken: string | undefined;
-        filled: boolean;
-        reactElement: React.ReactElement | undefined;
-        features: Map<string, Feature> | undefined;
-        layout: any;
-        status: string;
-        error: unknown;
-        message: string | undefined;
-        maxHeightReached: boolean;
-        ReactComponent: ({ model, }: {
-            model: {
-                error?: unknown;
-                reload: () => void;
-                message: React.ReactNode;
-                filled?: boolean;
-                status?: string;
-                reactElement?: React.ReactElement;
-            };
-        }) => import("react/jsx-runtime").JSX.Element | undefined;
-        renderProps: any;
-    } & {
-        doReload(): void;
-        afterAttach(): void;
-        setStatus(message: string): void;
-        setLoading(newStopToken: string): void;
-        setMessage(messageText: string): void;
-        setRendered(props: import("@jbrowse/plugin-linear-genome-view/src/BaseLinearDisplay/models/serverSideRenderedBlock").RenderedProps | undefined): void;
-        setError(error: unknown): void;
-        reload(): void;
-        beforeDestroy(): void;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    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[];
-        };
-        jexlFilters: {
-            type: string;
-            description: string;
-            defaultValue: never[];
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
-} & {
-    configuration: AnyConfigurationSchemaType;
-    featureHeight: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    noSpacing: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
-    fadeLikelihood: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
-    trackMaxHeight: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    colorBySetting: import("mobx-state-tree").IType<import("@jbrowse/plugin-alignments/src/shared/types").ColorBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").ColorBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").ColorBy | undefined>;
-    filterBySetting: import("mobx-state-tree").IType<import("@jbrowse/plugin-alignments/src/shared/types").FilterBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").FilterBy | undefined, import("@jbrowse/plugin-alignments/src/shared/types").FilterBy | undefined>;
-    jexlFilters: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").ISimpleType<string>>, [undefined]>;
-    hideSmallIndelsSetting: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
-}>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export default stateModelFactory;

package/dist/LGVSyntenyDisplay/model.js

@@ -1,118 +0,0 @@
-"use strict";
-var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    var desc = Object.getOwnPropertyDescriptor(m, k);
-    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
-      desc = { enumerable: true, get: function() { return m[k]; } };
-    }
-    Object.defineProperty(o, k2, desc);
-}) : (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    o[k2] = m[k];
-}));
-var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || (function () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __setModuleDefault(result, mod);
-        return result;
-    };
-})();
-Object.defineProperty(exports, "__esModule", { value: true });
-const react_1 = require("react");
-const configuration_1 = require("@jbrowse/core/configuration");
-const util_1 = require("@jbrowse/core/util");
-const plugin_alignments_1 = require("@jbrowse/plugin-alignments");
-const mobx_state_tree_1 = require("mobx-state-tree");
-const LaunchSyntenyViewDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./components/LaunchSyntenyViewDialog'))));
-function stateModelFactory(schema) {
-    return mobx_state_tree_1.types
-        .compose('LGVSyntenyDisplay', (0, plugin_alignments_1.SharedLinearPileupDisplayMixin)(schema), mobx_state_tree_1.types.model({
-        type: mobx_state_tree_1.types.literal('LGVSyntenyDisplay'),
-        configuration: (0, configuration_1.ConfigurationReference)(schema),
-    }))
-        .views(self => {
-        const superContextMenuItems = self.contextMenuItems;
-        return {
-            contextMenuItems() {
-                const feature = self.contextMenuFeature;
-                return [
-                    ...superContextMenuItems(),
-                    ...(feature
-                        ? [
-                            {
-                                label: 'Launch synteny view for this position',
-                                onClick: () => {
-                                    (0, util_1.getSession)(self).queueDialog(handleClose => [
-                                        LaunchSyntenyViewDialog,
-                                        {
-                                            view: (0, util_1.getContainingView)(self),
-                                            trackId: (0, configuration_1.getConf)((0, util_1.getContainingTrack)(self), 'trackId'),
-                                            handleClose,
-                                            session: (0, util_1.getSession)(self),
-                                            feature,
-                                        },
-                                    ]);
-                                },
-                            },
-                        ]
-                        : []),
-                ];
-            },
-        };
-    })
-        .views(self => {
-        const { trackMenuItems: superTrackMenuItems, colorSchemeSubMenuItems: superColorSchemeSubMenuItems, } = self;
-        return {
-            trackMenuItems() {
-                return [
-                    ...superTrackMenuItems(),
-                    {
-                        label: 'Color scheme',
-                        subMenu: [...superColorSchemeSubMenuItems()],
-                    },
-                ];
-            },
-        };
-    })
-        .actions(self => ({
-        selectFeature(feature) {
-            const session = (0, util_1.getSession)(self);
-            if ((0, util_1.isSessionModelWithWidgets)(session)) {
-                const r2 = (0, util_1.getContainingView)(self);
-                let r3 = r2;
-                try {
-                    r3 = (0, util_1.getContainingView)(r3);
-                }
-                catch (e) { }
-                const featureWidget = session.addWidget('SyntenyFeatureWidget', 'syntenyFeature', {
-                    featureData: feature.toJSON(),
-                    view: r3,
-                    track: (0, util_1.getContainingTrack)(self),
-                });
-                session.showWidget(featureWidget);
-            }
-            session.setSelection(feature);
-        },
-        afterCreate() {
-            if (!self.colorBySetting && self.colorBy.type === 'normal') {
-                self.setColorScheme({ type: 'strand' });
-            }
-        },
-    }));
-}
-exports.default = stateModelFactory;

package/dist/LaunchLinearSyntenyView.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function LaunchLinearSyntenyView(pluginManager: PluginManager): void;

package/dist/LaunchLinearSyntenyView.js

@@ -1,93 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = LaunchLinearSyntenyView;
-const util_1 = require("@jbrowse/core/util");
-const mobx_1 = require("mobx");
-function makeMultiDimArray(str) {
-    return Array.isArray(str[0]) ? str : [str];
-}
-function LaunchLinearSyntenyView(pluginManager) {
-    pluginManager.addToExtensionPoint('LaunchView-LinearSyntenyView', async ({ session, views, tracks = [], }) => {
-        try {
-            const { assemblyManager } = session;
-            const model = session.addView('LinearSyntenyView', {});
-            await (0, mobx_1.when)(() => !!model.width);
-            model.setViews(await Promise.all(views.map(async (view) => {
-                const asm = await assemblyManager.waitForAssembly(view.assembly);
-                if (!asm) {
-                    throw new Error(`Assembly ${view.assembly} failed to load`);
-                }
-                return {
-                    type: 'LinearGenomeView',
-                    bpPerPx: 1,
-                    offsetPx: 0,
-                    hideHeader: true,
-                    displayedRegions: asm.regions,
-                };
-            })));
-            await Promise.all(model.views.map(view => (0, mobx_1.when)(() => view.initialized)));
-            let idsNotFound = [];
-            await Promise.all(views.map(async (data, idx) => {
-                const view = model.views[idx];
-                const { assembly, loc, tracks = [] } = data;
-                const asm = await assemblyManager.waitForAssembly(assembly);
-                if (!asm) {
-                    throw new Error(`Assembly ${data.assembly} failed to load`);
-                }
-                await view.navToSearchString({ input: loc, assembly: asm });
-                idsNotFound = [
-                    ...idsNotFound,
-                    ...tracks.map(trackId => tryTrackLGV({
-                        model: view,
-                        trackId,
-                    })),
-                ];
-            }));
-            idsNotFound = [
-                ...idsNotFound,
-                ...makeMultiDimArray(tracks).flatMap((trackSet, level) => trackSet.map(trackId => tryTrackSynteny({
-                    model,
-                    trackId,
-                    level,
-                }))),
-            ];
-            if (idsNotFound.filter(util_1.notEmpty).length) {
-                throw new Error(`Could not resolve identifiers: ${idsNotFound.join(',')}`);
-            }
-        }
-        catch (e) {
-            session.notifyError(`${e}`, e);
-            throw e;
-        }
-    });
-}
-function tryTrackLGV({ model, trackId, }) {
-    try {
-        model.showTrack(trackId);
-    }
-    catch (e) {
-        if (/Could not resolve identifier/.exec(`${e}`) ||
-            /track not found/.exec(`${e}`)) {
-            return trackId;
-        }
-        else {
-            throw e;
-        }
-    }
-    return undefined;
-}
-function tryTrackSynteny({ model, trackId, level, }) {
-    try {
-        model.showTrack(trackId, level);
-    }
-    catch (e) {
-        if (/Could not resolve identifier/.exec(`${e}`) ||
-            /track not found/.exec(`${e}`)) {
-            return trackId;
-        }
-        else {
-            throw e;
-        }
-    }
-    return undefined;
-}

package/dist/LinearComparativeDisplay/configSchemaF.d.ts

@@ -1,2 +0,0 @@
-declare function configSchemaFactory(_pluginManager: any): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
-export default configSchemaFactory;

package/dist/LinearComparativeDisplay/configSchemaF.js

@@ -1,10 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-function configSchemaFactory(_pluginManager) {
-    return (0, configuration_1.ConfigurationSchema)('LinearComparativeDisplay', {}, {
-        explicitlyTyped: true,
-        explicitIdentifier: 'displayId',
-    });
-}
-exports.default = configSchemaFactory;

package/dist/LinearComparativeDisplay/index.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function LinearComparativeDisplayF(pluginManager: PluginManager): void;