@jbrowse/plugin-sequence 3.7.0 → 4.0.1

package/dist/LinearReferenceSequenceDisplay/index.d.ts

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

package/dist/LinearReferenceSequenceDisplay/index.js

@@ -1,21 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = LinearReferenceSequenceDisplayF;
-const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
-const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-const configSchema_1 = require("./configSchema");
-const model_1 = require("./model");
-function LinearReferenceSequenceDisplayF(pluginManager) {
-    pluginManager.addDisplayType(() => {
-        const stateModel = (0, model_1.modelFactory)(configSchema_1.configSchema);
-        return new pluggableElementTypes_1.DisplayType({
-            name: 'LinearReferenceSequenceDisplay',
-            configSchema: configSchema_1.configSchema,
-            stateModel,
-            displayName: 'Reference sequence display',
-            trackType: 'ReferenceSequenceTrack',
-            viewType: 'LinearGenomeView',
-            ReactComponent: plugin_linear_genome_view_1.BaseLinearDisplayComponent,
-        });
-    });
-}

package/dist/LinearReferenceSequenceDisplay/model.d.ts

@@ -1,338 +0,0 @@
-import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
-export declare function modelFactory(configSchema: 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, import("@jbrowse/core/util").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">>;
-} & {
-    type: import("mobx-state-tree").ISimpleType<"LinearReferenceSequenceDisplay">;
-    configuration: AnyConfigurationSchemaType;
-    showForward: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    showReverse: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    showTranslation: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-}, {
-    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 | import("@jbrowse/core/util").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: import("@jbrowse/core/util").Feature): void;
-} & {
-    readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
-    readonly featureUnderMouse: import("@jbrowse/core/util").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: import("@jbrowse/core/util").Feature): void;
-    navToFeature(feature: import("@jbrowse/core/util").Feature): void;
-    clearFeatureSelection(): void;
-    setFeatureIdUnderMouse(feature?: string): void;
-    setContextMenuFeature(feature?: import("@jbrowse/core/util").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;
-} & {
-    rowHeight: number;
-} & {
-    readonly sequenceType: any;
-    readonly showForwardActual: boolean;
-    readonly showReverseActual: boolean;
-    readonly showTranslationActual: boolean;
-} & {
-    readonly sequenceHeight: number;
-} & {
-    renderProps(): any;
-} & {
-    regionCannotBeRendered(): "Zoom in to see sequence" | undefined;
-    readonly rendererTypeName: any;
-} & {
-    toggleShowForward(): void;
-    toggleShowReverse(): void;
-    toggleShowTranslation(): void;
-    afterAttach(): void;
-} & {
-    trackMenuItems(): {
-        label: string;
-        type: string;
-        checked: boolean;
-        onClick: () => 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, import("@jbrowse/core/util").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">>;
-}>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, {
-    type: string;
-    id: string;
-    configuration: import("mobx-state-tree").ModelSnapshotType<Record<string, any>>;
-    rpcDriverName: string | undefined;
-    heightPreConfig: number | undefined;
-    userBpPerPxLimit: number | undefined;
-    userByteSizeLimit: number | undefined;
-} & import("mobx-state-tree")._NotCustomized>;

package/dist/LinearReferenceSequenceDisplay/model.js

@@ -1,132 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.modelFactory = modelFactory;
-const configuration_1 = require("@jbrowse/core/configuration");
-const util_1 = require("@jbrowse/core/util");
-const tracks_1 = require("@jbrowse/core/util/tracks");
-const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-const mobx_1 = require("mobx");
-const mobx_state_tree_1 = require("mobx-state-tree");
-function modelFactory(configSchema) {
-    return mobx_state_tree_1.types
-        .compose('LinearReferenceSequenceDisplay', plugin_linear_genome_view_1.BaseLinearDisplay, mobx_state_tree_1.types.model({
-        type: mobx_state_tree_1.types.literal('LinearReferenceSequenceDisplay'),
-        configuration: (0, configuration_1.ConfigurationReference)(configSchema),
-        showForward: true,
-        showReverse: true,
-        showTranslation: true,
-    }))
-        .volatile(() => ({
-        rowHeight: 15,
-    }))
-        .views(self => ({
-        get sequenceType() {
-            return (0, configuration_1.getConf)((0, util_1.getContainingTrack)(self), 'sequenceType');
-        },
-        get showForwardActual() {
-            return self.showForward;
-        },
-        get showReverseActual() {
-            return this.sequenceType === 'dna' ? self.showReverse : false;
-        },
-        get showTranslationActual() {
-            return this.sequenceType === 'dna' ? self.showTranslation : false;
-        },
-    }))
-        .views(self => ({
-        get sequenceHeight() {
-            const { rowHeight, showTranslationActual, showReverseActual, showForwardActual, } = self;
-            const r1 = showReverseActual && showTranslationActual ? rowHeight * 3 : 0;
-            const r2 = showForwardActual && showTranslationActual ? rowHeight * 3 : 0;
-            const t = r1 + r2;
-            const r = showReverseActual ? rowHeight : 0;
-            const s = showForwardActual ? rowHeight : 0;
-            return t + r + s;
-        },
-    }))
-        .views(self => {
-        const { renderProps: superRenderProps } = self;
-        return {
-            renderProps() {
-                const { rpcDriverName, showForwardActual, showReverseActual, showTranslationActual, rowHeight, sequenceHeight, sequenceType, } = self;
-                return {
-                    ...superRenderProps(),
-                    ...(0, tracks_1.getParentRenderProps)(self),
-                    config: self.configuration.renderer,
-                    rpcDriverName,
-                    showForward: showForwardActual,
-                    showReverse: showReverseActual,
-                    showTranslation: showTranslationActual,
-                    sequenceType,
-                    rowHeight,
-                    sequenceHeight,
-                };
-            },
-        };
-    })
-        .views(self => ({
-        regionCannotBeRendered() {
-            const view = (0, util_1.getContainingView)(self);
-            return view.bpPerPx > 3 ? 'Zoom in to see sequence' : undefined;
-        },
-        get rendererTypeName() {
-            return self.configuration.renderer.type;
-        },
-    }))
-        .actions(self => ({
-        toggleShowForward() {
-            self.showForward = !self.showForward;
-        },
-        toggleShowReverse() {
-            self.showReverse = !self.showReverse;
-        },
-        toggleShowTranslation() {
-            self.showTranslation = !self.showTranslation;
-        },
-        afterAttach() {
-            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
-                const view = (0, util_1.getContainingView)(self);
-                if (view.bpPerPx > 3) {
-                    self.setHeight(50);
-                }
-                else {
-                    self.setHeight(self.sequenceHeight);
-                }
-            }));
-        },
-    }))
-        .views(self => ({
-        trackMenuItems() {
-            return [
-                ...(self.sequenceType === 'dna'
-                    ? [
-                        {
-                            label: 'Show forward',
-                            type: 'checkbox',
-                            checked: self.showForward,
-                            onClick: () => {
-                                self.toggleShowForward();
-                            },
-                        },
-                        {
-                            label: 'Show reverse',
-                            type: 'checkbox',
-                            checked: self.showReverse,
-                            onClick: () => {
-                                self.toggleShowReverse();
-                            },
-                        },
-                        {
-                            label: 'Show translation',
-                            type: 'checkbox',
-                            checked: self.showTranslation,
-                            onClick: () => {
-                                self.toggleShowTranslation();
-                            },
-                        },
-                    ]
-                    : []),
-            ];
-        },
-    }));
-}

package/dist/ReferenceSequenceTrack/configSchema.d.ts

@@ -1,37 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export declare function createReferenceSeqTrackConfig(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    adapter: import("mobx-state-tree").IAnyModelType;
-    displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-    name: {
-        type: string;
-        description: string;
-        defaultValue: string;
-    };
-    sequenceType: {
-        type: string;
-        description: string;
-        defaultValue: string;
-    };
-    description: {
-        description: string;
-        type: string;
-        defaultValue: string;
-    };
-    metadata: {
-        type: string;
-        description: string;
-        defaultValue: {};
-    };
-    formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        config: {
-            type: string;
-            description: string;
-            defaultValue: {};
-            contextVariable: string[];
-        };
-        hideUris: {
-            type: string;
-            defaultValue: boolean;
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>;

package/dist/ReferenceSequenceTrack/configSchema.js

@@ -1,83 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.createReferenceSeqTrackConfig = createReferenceSeqTrackConfig;
-const configuration_1 = require("@jbrowse/core/configuration");
-const mobx_state_tree_1 = require("mobx-state-tree");
-function x() { }
-function createReferenceSeqTrackConfig(pluginManager) {
-    return (0, configuration_1.ConfigurationSchema)('ReferenceSequenceTrack', {
-        adapter: pluginManager.pluggableConfigSchemaType('adapter'),
-        displays: mobx_state_tree_1.types.array(pluginManager.pluggableConfigSchemaType('display')),
-        name: {
-            type: 'string',
-            description: 'optional track name, otherwise uses the "Reference sequence (assemblyName)"',
-            defaultValue: '',
-        },
-        sequenceType: {
-            type: 'string',
-            description: 'either dna or pep',
-            defaultValue: 'dna',
-        },
-        description: {
-            description: 'a description of the track',
-            type: 'string',
-            defaultValue: '',
-        },
-        metadata: {
-            type: 'frozen',
-            description: 'anything to add about this track',
-            defaultValue: {},
-        },
-        formatAbout: (0, configuration_1.ConfigurationSchema)('FormatAbout', {
-            config: {
-                type: 'frozen',
-                description: 'formats configuration in about dialog',
-                defaultValue: {},
-                contextVariable: ['config'],
-            },
-            hideUris: {
-                type: 'boolean',
-                defaultValue: false,
-            },
-        }),
-    }, {
-        preProcessSnapshot: s => {
-            const snap = JSON.parse(JSON.stringify(s));
-            const displayTypes = new Set();
-            const { displays = [] } = snap;
-            if (snap.trackId !== 'placeholderId') {
-                for (const d of displays) {
-                    if (d) {
-                        displayTypes.add(d.type);
-                    }
-                }
-                const trackType = pluginManager.getTrackType(snap.type);
-                for (const displayType of (trackType === null || trackType === void 0 ? void 0 : trackType.displayTypes) || []) {
-                    if (!displayTypes.has(displayType.name)) {
-                        displays.push({
-                            displayId: `${snap.trackId}-${displayType.name}`,
-                            type: displayType.name,
-                        });
-                    }
-                }
-            }
-            return { ...snap, displays };
-        },
-        explicitIdentifier: 'trackId',
-        explicitlyTyped: true,
-        actions: (self) => ({
-            addDisplayConf(displayConf) {
-                const { type } = displayConf;
-                if (!type) {
-                    throw new Error(`unknown display type ${type}`);
-                }
-                const display = self.displays.find((d) => d && d.displayId === displayConf.displayId);
-                if (display) {
-                    return display;
-                }
-                const length = self.displays.push(displayConf);
-                return self.displays[length - 1];
-            },
-        }),
-    });
-}

package/dist/ReferenceSequenceTrack/index.d.ts

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

package/dist/ReferenceSequenceTrack/index.js

@@ -1,20 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = ReferenceSequenceTrackF;
-const TrackType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/TrackType"));
-const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
-const configSchema_1 = require("./configSchema");
-function ReferenceSequenceTrackF(pluginManager) {
-    pluginManager.addTrackType(() => {
-        const configSchema = (0, configSchema_1.createReferenceSeqTrackConfig)(pluginManager);
-        return new TrackType_1.default({
-            name: 'ReferenceSequenceTrack',
-            displayName: 'Reference sequence track',
-            configSchema,
-            stateModel: (0, models_1.createBaseTrackModel)(pluginManager, 'ReferenceSequenceTrack', configSchema),
-        });
-    });
-}

package/dist/SequenceSearchAdapter/SequenceSearchAdapter.d.ts

@@ -1,8 +0,0 @@
-import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
-import type { BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import type { Feature, Region } from '@jbrowse/core/util';
-export default class SequenceSearchAdapter extends BaseFeatureDataAdapter {
-    configure(): Promise<BaseFeatureDataAdapter>;
-    getRefNames(): Promise<string[]>;
-    getFeatures(query: Region, opts: BaseOptions): import("rxjs").Observable<Feature>;
-}