@jbrowse/plugin-data-management 3.7.0 → 4.0.1

package/dist/HierarchicalTrackSelectorWidget/model.js

@@ -1,339 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = stateTreeFactory;
-const configuration_1 = require("@jbrowse/core/configuration");
-const util_1 = require("@jbrowse/core/util");
-const mst_1 = require("@jbrowse/core/util/types/mst");
-const mobx_1 = require("mobx");
-const mobx_state_tree_1 = require("mobx-state-tree");
-const facetedModel_1 = require("./facetedModel");
-const filterTracks_1 = require("./filterTracks");
-const generateHierarchy_1 = require("./generateHierarchy");
-const util_2 = require("./util");
-function keyConfigPostFix() {
-    return typeof window !== 'undefined'
-        ? [
-            window.location.pathname,
-            new URLSearchParams(window.location.search).get('config'),
-        ]
-            .filter(f => !!f)
-            .join('-')
-        : 'empty';
-}
-function recentlyUsedK(assemblyNames) {
-    return ['recentlyUsedTracks', keyConfigPostFix(), assemblyNames.join(',')]
-        .filter(f => !!f)
-        .join('-');
-}
-function favoritesK() {
-    return `favoriteTracks-${keyConfigPostFix()}}`;
-}
-function collapsedK(assemblyNames, viewType) {
-    return [
-        'collapsedCategories',
-        keyConfigPostFix(),
-        assemblyNames.join(','),
-        viewType,
-    ].join('-');
-}
-function sortTrackNamesK() {
-    return 'sortTrackNames';
-}
-function sortCategoriesK() {
-    return 'sortCategories';
-}
-function localStorageGetJSON(key, defaultValue) {
-    const val = (0, util_1.localStorageGetItem)(key);
-    return val !== undefined && val !== null && val
-        ? JSON.parse(val)
-        : defaultValue;
-}
-function localStorageSetJSON(key, val) {
-    if (val !== undefined && val !== null) {
-        (0, util_1.localStorageSetItem)(key, JSON.stringify(val));
-    }
-}
-const MAX_RECENTLY_USED = 10;
-function stateTreeFactory(pluginManager) {
-    return mobx_state_tree_1.types
-        .model('HierarchicalTrackSelectorWidget', {
-        id: mst_1.ElementId,
-        type: mobx_state_tree_1.types.literal('HierarchicalTrackSelectorWidget'),
-        view: mobx_state_tree_1.types.safeReference(pluginManager.pluggableMstType('view', 'stateModel')),
-        faceted: mobx_state_tree_1.types.optional((0, facetedModel_1.facetedStateTreeF)(), {}),
-    })
-        .volatile(() => ({
-        favorites: localStorageGetJSON(favoritesK(), []),
-        recentlyUsed: [],
-        selection: [],
-        sortTrackNames: localStorageGetJSON(sortTrackNamesK(), undefined),
-        sortCategories: localStorageGetJSON(sortCategoriesK(), undefined),
-        collapsed: mobx_1.observable.map(),
-        filterText: '',
-        recentlyUsedCounter: 0,
-        favoritesCounter: 0,
-    }))
-        .views(self => ({
-        get shownTrackIds() {
-            var _a, _b;
-            return new Set((_b = (_a = self.view) === null || _a === void 0 ? void 0 : _a.tracks) === null || _b === void 0 ? void 0 : _b.map((t) => t.configuration.trackId));
-        },
-        get selectionSet() {
-            return new Set(self.selection);
-        },
-        get favoritesSet() {
-            return new Set(self.favorites);
-        },
-        get recentlyUsedSet() {
-            return new Set(self.recentlyUsed);
-        },
-        get assemblyNames() {
-            var _a;
-            return ((_a = self.view) === null || _a === void 0 ? void 0 : _a.assemblyNames) || [];
-        },
-    }))
-        .actions(self => ({
-        setSortTrackNames(val) {
-            self.sortTrackNames = val;
-        },
-        setSortCategories(val) {
-            self.sortCategories = val;
-        },
-        setSelection(elt) {
-            self.selection = elt;
-        },
-        addToSelection(elt) {
-            self.selection = (0, util_1.dedupe)([...self.selection, ...elt], e => e.trackId);
-        },
-        removeFromSelection(elt) {
-            const s = new Set(elt);
-            self.selection = self.selection.filter(f => !s.has(f));
-        },
-        clearSelection() {
-            self.selection = [];
-        },
-        addToFavorites(trackId) {
-            self.favoritesCounter += 1;
-            self.favorites = [...self.favorites, trackId];
-        },
-        removeFromFavorites(trackId) {
-            self.favorites = self.favorites.filter(f => f !== trackId);
-        },
-        clearFavorites() {
-            self.favorites = [];
-        },
-        setRecentlyUsedCounter(val) {
-            self.recentlyUsedCounter = val;
-        },
-        setRecentlyUsed(str) {
-            self.recentlyUsed = str;
-        },
-        setFavorites(str) {
-            self.favorites = str;
-        },
-        setFavoritesCounter(val) {
-            self.favoritesCounter = val;
-        },
-        addToRecentlyUsed(id) {
-            if (!self.recentlyUsed.includes(id)) {
-                self.recentlyUsedCounter = Math.min(self.recentlyUsedCounter + 1, MAX_RECENTLY_USED);
-                self.recentlyUsed =
-                    self.recentlyUsed.length >= MAX_RECENTLY_USED
-                        ? [...self.recentlyUsed.slice(1), id]
-                        : [...self.recentlyUsed, id];
-            }
-        },
-        clearRecentlyUsed() {
-            self.recentlyUsed = [];
-        },
-        setView(view) {
-            self.view = view;
-        },
-        toggleCategory(pathName) {
-            self.collapsed.set(pathName, !self.collapsed.get(pathName));
-        },
-        setCategoryCollapsed(pathName, status) {
-            self.collapsed.set(pathName, status);
-        },
-        expandAllCategories() {
-            self.collapsed.clear();
-        },
-        setCollapsedCategories(str) {
-            self.collapsed.replace(str);
-        },
-        clearFilterText() {
-            self.filterText = '';
-        },
-        setFilterText(newText) {
-            self.filterText = newText;
-        },
-    }))
-        .views(self => ({
-        isSelected(track) {
-            return self.selectionSet.has(track);
-        },
-        isFavorite(trackId) {
-            return self.favoritesSet.has(trackId);
-        },
-        isRecentlyUsed(trackId) {
-            return self.recentlyUsedSet.has(trackId);
-        },
-        getRefSeqTrackConf(assemblyName) {
-            const { assemblyManager } = (0, util_1.getSession)(self);
-            const assembly = assemblyManager.get(assemblyName);
-            const trackConf = assembly === null || assembly === void 0 ? void 0 : assembly.configuration.sequence;
-            const viewType = pluginManager.getViewType(self.view.type);
-            if (trackConf) {
-                for (const display of trackConf.displays) {
-                    if (viewType.displayTypes.some(d => d.name === display.type)) {
-                        return trackConf;
-                    }
-                }
-            }
-            return undefined;
-        },
-    }))
-        .views(self => ({
-        get activeSortTrackNames() {
-            var _a;
-            return ((_a = self.sortTrackNames) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)((0, util_1.getSession)(self), ['hierarchical', 'sort', 'trackNames']));
-        },
-        get activeSortCategories() {
-            var _a;
-            return ((_a = self.sortCategories) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)((0, util_1.getSession)(self), ['hierarchical', 'sort', 'categories']));
-        },
-        get configAndSessionTrackConfigurations() {
-            return [
-                ...self.assemblyNames.map(a => self.getRefSeqTrackConf(a)),
-                ...(0, filterTracks_1.filterTracks)((0, util_1.getSession)(self).tracks, self),
-            ].filter(util_1.notEmpty);
-        },
-        get allTrackConfigurations() {
-            const { connectionInstances = [] } = (0, util_1.getSession)(self);
-            return [
-                ...this.configAndSessionTrackConfigurations,
-                ...connectionInstances.flatMap(c => c.tracks),
-            ];
-        },
-        get allTrackConfigurationTrackIdSet() {
-            return new Map(this.allTrackConfigurations.map(t => [t.trackId, t]));
-        },
-    }))
-        .views(self => ({
-        get favoriteTracks() {
-            return self.favorites
-                .filter(t => self.allTrackConfigurationTrackIdSet.has(t))
-                .map(t => self.allTrackConfigurationTrackIdSet.get(t));
-        },
-        get recentlyUsedTracks() {
-            return self.recentlyUsed
-                .filter(t => self.allTrackConfigurationTrackIdSet.has(t))
-                .map(t => self.allTrackConfigurationTrackIdSet.get(t));
-        },
-    }))
-        .views(self => ({
-        get allTracks() {
-            const { connectionInstances = [] } = (0, util_1.getSession)(self);
-            return [
-                {
-                    group: 'Tracks',
-                    tracks: self.configAndSessionTrackConfigurations,
-                    noCategories: false,
-                    menuItems: [],
-                },
-                ...connectionInstances.flatMap(c => ({
-                    group: (0, configuration_1.getConf)(c, 'name'),
-                    tracks: (0, filterTracks_1.filterTracks)(c.tracks, self),
-                    noCategories: false,
-                    menuItems: [],
-                })),
-            ];
-        },
-    }))
-        .views(self => ({
-        get hierarchy() {
-            return {
-                name: 'Root',
-                id: 'Root',
-                isOpenByDefault: true,
-                type: 'category',
-                children: self.allTracks.map(s => ({
-                    name: s.group,
-                    id: s.group,
-                    type: 'category',
-                    isOpenByDefault: !self.collapsed.get(s.group),
-                    menuItems: s.menuItems,
-                    children: (0, generateHierarchy_1.generateHierarchy)({
-                        model: self,
-                        trackConfs: s.tracks,
-                        extra: s.group,
-                        noCategories: s.noCategories,
-                    }),
-                })),
-            };
-        },
-    }))
-        .actions(self => ({
-        collapseSubCategories() {
-            const paths = [];
-            (0, util_2.findSubCategories)(self.hierarchy.children, paths);
-            for (const path of paths) {
-                self.setCategoryCollapsed(path, true);
-            }
-        },
-        collapseTopLevelCategories() {
-            const paths = [];
-            for (const trackGroups of self.hierarchy.children) {
-                if (trackGroups.children.length) {
-                    (0, util_2.findTopLevelCategories)(trackGroups.children, paths);
-                }
-            }
-            for (const path of paths) {
-                self.setCategoryCollapsed(path, true);
-            }
-        },
-    }))
-        .views(self => ({
-        get hasAnySubcategories() {
-            return self.allTracks.some(group => group.tracks.some(t => { var _a; return ((_a = (0, configuration_1.readConfObject)(t, 'category')) === null || _a === void 0 ? void 0 : _a.length) > 1; }));
-        },
-    }))
-        .actions(self => ({
-        afterAttach() {
-            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
-                const { assemblyNames, view } = self;
-                self.setRecentlyUsed(localStorageGetJSON(recentlyUsedK(assemblyNames), []));
-                if (view) {
-                    const lc = localStorageGetJSON(collapsedK(assemblyNames, view.type), undefined);
-                    const r = ['hierarchical', 'defaultCollapsed'];
-                    const session = (0, util_1.getSession)(self);
-                    if (!lc) {
-                        self.expandAllCategories();
-                        if ((0, configuration_1.getConf)(session, [...r, 'topLevelCategories'])) {
-                            self.collapseTopLevelCategories();
-                        }
-                        if ((0, configuration_1.getConf)(session, [...r, 'subCategories'])) {
-                            self.collapseSubCategories();
-                        }
-                        for (const elt of (0, configuration_1.getConf)(session, [...r, 'categoryNames'])) {
-                            self.setCategoryCollapsed(`Tracks-${elt}`, true);
-                        }
-                    }
-                    else {
-                        self.setCollapsedCategories(lc);
-                    }
-                }
-            }));
-            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
-                const { sortTrackNames, sortCategories, favorites, recentlyUsed, assemblyNames, collapsed, view, } = self;
-                localStorageSetJSON(recentlyUsedK(assemblyNames), recentlyUsed);
-                localStorageSetJSON(favoritesK(), favorites);
-                localStorageSetJSON(sortTrackNamesK(), sortTrackNames);
-                localStorageSetJSON(sortCategoriesK(), sortCategories);
-                if (view) {
-                    localStorageSetJSON(collapsedK(assemblyNames, view.type), collapsed);
-                }
-            }));
-        },
-    }));
-}

package/dist/HierarchicalTrackSelectorWidget/util.d.ts

@@ -1,12 +0,0 @@
-import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import type { AbstractSessionModel } from '@jbrowse/core/util';
-export declare function hasAnyOverlap<T>(a1?: T[], a2?: T[]): boolean;
-export declare function hasAllOverlap<T>(a1?: T[], a2?: T[]): boolean;
-export declare function matches(query: string, conf: AnyConfigurationModel, session: AbstractSessionModel): boolean;
-interface Node {
-    children: Node[];
-    id: string;
-}
-export declare function findSubCategories(obj: Node[], paths: string[], depth?: number): boolean;
-export declare function findTopLevelCategories(obj: Node[], paths: string[]): void;
-export {};

package/dist/HierarchicalTrackSelectorWidget/util.js

@@ -1,50 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.hasAnyOverlap = hasAnyOverlap;
-exports.hasAllOverlap = hasAllOverlap;
-exports.matches = matches;
-exports.findSubCategories = findSubCategories;
-exports.findTopLevelCategories = findTopLevelCategories;
-const configuration_1 = require("@jbrowse/core/configuration");
-const tracks_1 = require("@jbrowse/core/util/tracks");
-function hasAnyOverlap(a1 = [], a2 = []) {
-    if (a1[0] === a2[0]) {
-        return true;
-    }
-    else {
-        const s1 = new Set(a1);
-        return a2.some(a => s1.has(a));
-    }
-}
-function hasAllOverlap(a1 = [], a2 = []) {
-    const s1 = new Set(a1);
-    return a2.every(a => s1.has(a));
-}
-function matches(query, conf, session) {
-    const categories = ((0, configuration_1.readConfObject)(conf, 'category') || []);
-    const queryLower = query.toLowerCase();
-    return ((0, tracks_1.getTrackName)(conf, session).toLowerCase().includes(queryLower) ||
-        !!categories.filter(c => c.toLowerCase().includes(queryLower)).length);
-}
-function findSubCategories(obj, paths, depth = 0) {
-    let hasSubs = false;
-    for (const elt of obj) {
-        if (elt.children.length) {
-            const hasSubCategories = findSubCategories(elt.children, paths, depth + 1);
-            if (hasSubCategories && depth > 0) {
-                paths.push(elt.id);
-            }
-        }
-        else {
-            hasSubs = true;
-        }
-    }
-    return hasSubs;
-}
-function findTopLevelCategories(obj, paths) {
-    for (const elt of obj) {
-        if (elt.children.length) {
-            paths.push(elt.id);
-        }
-    }
-}

package/dist/JB2TrackHubConnection/addRelativeUris.d.ts

@@ -1 +0,0 @@
-export declare function addRelativeUris(config: Record<string, unknown> | null, base: URL): void;

package/dist/JB2TrackHubConnection/addRelativeUris.js

@@ -1,15 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addRelativeUris = addRelativeUris;
-function addRelativeUris(config, base) {
-    if (typeof config === 'object' && config !== null) {
-        for (const key of Object.keys(config)) {
-            if (typeof config[key] === 'object' && config[key] !== null) {
-                addRelativeUris(config[key], base);
-            }
-            else if (key === 'uri') {
-                config.baseUri = base.href;
-            }
-        }
-    }
-}

package/dist/JB2TrackHubConnection/configSchema.d.ts

@@ -1,27 +0,0 @@
-declare const JB2TrackHubConnection: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    configJsonLocation: {
-        type: string;
-        defaultValue: {
-            uri: string;
-            locationType: string;
-        };
-        description: string;
-    };
-    assemblyNames: {
-        type: string;
-        defaultValue: never[];
-        description: string;
-    };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    name: {
-        type: string;
-        defaultValue: string;
-        description: string;
-    };
-    assemblyNames: {
-        type: string;
-        defaultValue: never[];
-        description: string;
-    };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>, undefined>>;
-export default JB2TrackHubConnection;

package/dist/JB2TrackHubConnection/configSchema.js

@@ -1,34 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
-function x() { }
-const JB2TrackHubConnection = (0, configuration_1.ConfigurationSchema)('JB2TrackHubConnection', {
-    configJsonLocation: {
-        type: 'fileLocation',
-        defaultValue: {
-            uri: 'http://mysite.com/path/to/config.json',
-            locationType: 'UriLocation',
-        },
-        description: 'location of the jb2 config file (usually called config.json)',
-    },
-    assemblyNames: {
-        type: 'stringArray',
-        defaultValue: [],
-        description: 'optional list of genomes to import from this config.json, if empty all genomes will be imported',
-    },
-}, {
-    baseConfiguration: models_1.baseConnectionConfig,
-    preProcessSnapshot: snap => {
-        return snap.uri
-            ? {
-                ...snap,
-                configJsonLocation: {
-                    uri: snap.uri,
-                    baseUri: snap.baseUri,
-                },
-            }
-            : snap;
-    },
-});
-exports.default = JB2TrackHubConnection;

package/dist/JB2TrackHubConnection/doConnect.d.ts

@@ -1,5 +0,0 @@
-import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
-export declare function doConnect(self: {
-    configuration: AnyConfigurationModel;
-    addTrackConfs: (arg: Record<string, unknown>[]) => void;
-}): Promise<void>;

package/dist/JB2TrackHubConnection/doConnect.js

@@ -1,34 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.doConnect = doConnect;
-const configuration_1 = require("@jbrowse/core/configuration");
-const util_1 = require("@jbrowse/core/util");
-const io_1 = require("@jbrowse/core/util/io");
-const addRelativeUris_1 = require("./addRelativeUris");
-const util_2 = require("./util");
-async function doConnect(self) {
-    var _a;
-    const session = (0, util_1.getSession)(self);
-    try {
-        const configJsonLocation = (0, configuration_1.getConf)(self, 'configJsonLocation');
-        const configJson = JSON.parse(await (0, io_1.openLocation)(configJsonLocation).readFile('utf8'));
-        const configUri = (0, util_2.resolve)(configJsonLocation.uri, configJsonLocation.baseUri);
-        (0, addRelativeUris_1.addRelativeUris)(configJson, new URL(configUri));
-        if (configJson.assemblies) {
-            for (const assembly of configJson.assemblies) {
-                if (!session.assemblyManager.get(assembly.name)) {
-                    session.addSessionAssembly(assembly);
-                }
-            }
-        }
-        if (configJson.tracks) {
-            self.addTrackConfs(configJson.tracks);
-        }
-        session.notify('Successfully loaded', 'success');
-    }
-    catch (e) {
-        console.error(e);
-        session.notifyError(`${(0, configuration_1.getConf)(self, 'name')}: "${e}"`, e);
-        (_a = session.breakConnection) === null || _a === void 0 ? void 0 : _a.call(session, self.configuration);
-    }
-}

package/dist/JB2TrackHubConnection/index.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function JB2TrackHubConnectionF(pluginManager: PluginManager): void;

package/dist/JB2TrackHubConnection/index.js

@@ -1,21 +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 = JB2TrackHubConnectionF;
-const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
-const configSchema_1 = __importDefault(require("./configSchema"));
-const model_1 = __importDefault(require("./model"));
-function JB2TrackHubConnectionF(pluginManager) {
-    pluginManager.addConnectionType(() => {
-        return new pluggableElementTypes_1.ConnectionType({
-            name: 'JB2TrackHubConnection',
-            configSchema: configSchema_1.default,
-            stateModel: (0, model_1.default)(pluginManager),
-            displayName: 'JB2 Track Hub',
-            description: 'A JBrowse 2 config file based trackhub',
-            url: 'https://jbrowse.org/jb2/',
-        });
-    });
-}

package/dist/JB2TrackHubConnection/model.d.ts

@@ -1,75 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function JB2TrackHubConnection(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
-    name: import("mobx-state-tree").ISimpleType<string>;
-    tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-    configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        name: {
-            type: string;
-            defaultValue: string;
-            description: string;
-        };
-        assemblyNames: {
-            type: string;
-            defaultValue: never[];
-            description: string;
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
-} & {
-    configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        configJsonLocation: {
-            type: string;
-            defaultValue: {
-                uri: string;
-                locationType: string;
-            };
-            description: string;
-        };
-        assemblyNames: {
-            type: string;
-            defaultValue: never[];
-            description: string;
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        name: {
-            type: string;
-            defaultValue: string;
-            description: string;
-        };
-        assemblyNames: {
-            type: string;
-            defaultValue: never[];
-            description: string;
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>, undefined>>;
-    type: import("mobx-state-tree").ISimpleType<"JB2TrackHubConnection">;
-}, {
-    connect(_arg: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
-} & {
-    afterAttach(): void;
-    addTrackConf(trackConf: ({
-        [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<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
-        } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
-    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
-    addTrackConfs(trackConfs: (({
-        [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<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
-        } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
-    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
-    setTrackConfs(trackConfs: import("@jbrowse/core/configuration").AnyConfigurationModel[]): void;
-    clear(): void;
-} & {
-    connect(): Promise<void>;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;