@jbrowse/plugin-data-management 2.0.0 → 2.1.2

package/dist/SetDefaultSession/SetDefaultSession.js

@@ -3,14 +3,13 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var react_1 = __importDefault(require("react"));
-var mobx_react_1 = require("mobx-react");
-var material_1 = require("@mui/material");
+const react_1 = __importDefault(require("react"));
+const mobx_react_1 = require("mobx-react");
+const material_1 = require("@mui/material");
 function canSetDefaultSession(obj) {
     return typeof obj === 'object' && !!obj && 'jbrowse' in obj;
 }
-var SetDefaultSession = (0, mobx_react_1.observer)(function (_a) {
-    var rootModel = _a.rootModel, onClose = _a.onClose;
+const SetDefaultSession = (0, mobx_react_1.observer)(({ rootModel, onClose }) => {
     if (!rootModel) {
         return null;
     }
@@ -18,20 +17,20 @@ var SetDefaultSession = (0, mobx_react_1.observer)(function (_a) {
         console.error('Incorrect rootmodel');
         return null;
     }
-    var jbrowse = rootModel.jbrowse, session = rootModel.session;
+    const { jbrowse, session } = rootModel;
     return (react_1.default.createElement(material_1.Dialog, { open: true, onClose: onClose },
         react_1.default.createElement(material_1.DialogTitle, null, "Set default session"),
         react_1.default.createElement(material_1.DialogContent, null,
             react_1.default.createElement(material_1.Typography, null, "Select \"Set current session as default\" to make your current session saved to the config file. You can also hit \"Clear default session\", which would remove the default session from the config.")),
         react_1.default.createElement(material_1.DialogActions, null,
-            react_1.default.createElement(material_1.Button, { variant: "contained", onClick: function () {
+            react_1.default.createElement(material_1.Button, { variant: "contained", onClick: () => {
                     jbrowse.setDefaultSessionConf({
-                        name: "New session",
+                        name: `New session`,
                     });
                     onClose();
                 } }, "Clear default session"),
-            react_1.default.createElement(material_1.Button, { color: "secondary", variant: "contained", onClick: function () { return onClose(); } }, "Cancel"),
-            react_1.default.createElement(material_1.Button, { color: "primary", variant: "contained", onClick: function () {
+            react_1.default.createElement(material_1.Button, { color: "secondary", variant: "contained", onClick: () => onClose() }, "Cancel"),
+            react_1.default.createElement(material_1.Button, { color: "primary", variant: "contained", onClick: () => {
                     jbrowse.setDefaultSessionConf(session);
                     onClose();
                 } }, "Set current session as default"))));

package/dist/SetDefaultSession/SetDefaultSession.js.map

@@ -1 +1 @@
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+{"version":3,"file":"SetDefaultSession.js","sourceRoot":"","sources":["../../src/SetDefaultSession/SetDefaultSession.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AACrC,4CAOsB;AAEtB,SAAS,oBAAoB,CAAC,GAAY;IAIxC,OAAO,OAAO,GAAG,KAAK,QAAQ,IAAI,CAAC,CAAC,GAAG,IAAI,SAAS,IAAI,GAAG,CAAA;AAC7D,CAAC;AAED,MAAM,iBAAiB,GAAG,IAAA,qBAAQ,EAChC,CAAC,EAAE,SAAS,EAAE,OAAO,EAAgD,EAAE,EAAE;IACvE,IAAI,CAAC,SAAS,EAAE;QACd,OAAO,IAAI,CAAA;KACZ;IACD,IAAI,CAAC,oBAAoB,CAAC,SAAS,CAAC,EAAE;QACpC,OAAO,CAAC,KAAK,CAAC,qBAAqB,CAAC,CAAA;QACpC,OAAO,IAAI,CAAA;KACZ;IACD,MAAM,EAAE,OAAO,EAAE,OAAO,EAAE,GAAG,SAAS,CAAA;IAEtC,OAAO,CACL,8BAAC,iBAAM,IAAC,IAAI,QAAC,OAAO,EAAE,OAAO;QAC3B,8BAAC,sBAAW,8BAAkC;QAC9C,8BAAC,wBAAa;YACZ,8BAAC,qBAAU,+MAKE,CACC;QAChB,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,OAAO,EAAE,GAAG,EAAE;oBACZ,OAAO,CAAC,qBAAqB,CAAC;wBAC5B,IAAI,EAAE,aAAa;qBACpB,CAAC,CAAA;oBACF,OAAO,EAAE,CAAA;gBACX,CAAC,4BAGM;YACT,8BAAC,iBAAM,IACL,KAAK,EAAC,WAAW,EACjB,OAAO,EAAC,WAAW,EACnB,OAAO,EAAE,GAAG,EAAE,CAAC,OAAO,EAAE,aAGjB;YACT,8BAAC,iBAAM,IACL,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,EACnB,OAAO,EAAE,GAAG,EAAE;oBACZ,OAAO,CAAC,qBAAqB,CAAC,OAAO,CAAC,CAAA;oBACtC,OAAO,EAAE,CAAA;gBACX,CAAC,qCAGM,CACK,CACT,CACV,CAAA;AACH,CAAC,CACF,CAAA;AAED,kBAAe,iBAAiB,CAAA"}

package/dist/index.d.ts

@@ -1,6 +1,8 @@
 /// <reference types="react" />
 import Plugin from '@jbrowse/core/Plugin';
 import PluginManager from '@jbrowse/core/PluginManager';
+import { AddTrackModel } from './AddTrackWidget/model';
+import { HierarchicalTrackSelectorModel } from './HierarchicalTrackSelectorWidget';
 declare const SetDefaultSession: import("react").LazyExoticComponent<({ rootModel, onClose }: {
     rootModel?: unknown;
     onClose: () => void;
@@ -22,6 +24,7 @@ export default class extends Plugin {
         }) => JSX.Element | null>;
     };
     install(pluginManager: PluginManager): void;
-    configure(pluginManager: PluginManager): void;
+    configure(_pluginManager: PluginManager): void;
 }
 export { AssemblyManager, SetDefaultSession };
+export type { HierarchicalTrackSelectorModel, AddTrackModel };

package/dist/index.js

@@ -1,19 +1,4 @@
 "use strict";
-var __extends = (this && this.__extends) || (function () {
-    var extendStatics = function (d, b) {
-        extendStatics = Object.setPrototypeOf ||
-            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
-            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
-        return extendStatics(d, b);
-    };
-    return function (d, b) {
-        if (typeof b !== "function" && b !== null)
-            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
-        extendStatics(d, b);
-        function __() { this.constructor = d; }
-        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
-    };
-})();
 var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
     if (k2 === undefined) k2 = k;
     var desc = Object.getOwnPropertyDescriptor(m, k);
@@ -42,82 +27,75 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.SetDefaultSession = exports.AssemblyManager = void 0;
-var react_1 = require("react");
-var ConnectionType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/ConnectionType"));
-var WidgetType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/WidgetType"));
-var Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
-var ucsc_trackhub_1 = require("./ucsc-trackhub");
-var AddTrackWidget_1 = require("./AddTrackWidget");
-var AddConnectionWidget_1 = require("./AddConnectionWidget");
-var HierarchicalTrackSelectorWidget_1 = require("./HierarchicalTrackSelectorWidget");
-var PluginStoreWidget_1 = require("./PluginStoreWidget");
-var SetDefaultSession = (0, react_1.lazy)(function () { return Promise.resolve().then(function () { return __importStar(require('./SetDefaultSession')); }); });
+const react_1 = require("react");
+const ConnectionType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/ConnectionType"));
+const WidgetType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/WidgetType"));
+const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
+const ucsc_trackhub_1 = require("./ucsc-trackhub");
+const AddTrackWidget_1 = require("./AddTrackWidget");
+const AddConnectionWidget_1 = require("./AddConnectionWidget");
+const HierarchicalTrackSelectorWidget_1 = require("./HierarchicalTrackSelectorWidget");
+const PluginStoreWidget_1 = require("./PluginStoreWidget");
+const SetDefaultSession = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./SetDefaultSession'))));
 exports.SetDefaultSession = SetDefaultSession;
-var AssemblyManager = (0, react_1.lazy)(function () { return Promise.resolve().then(function () { return __importStar(require('./AssemblyManager')); }); });
+const AssemblyManager = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AssemblyManager'))));
 exports.AssemblyManager = AssemblyManager;
-var default_1 = /** @class */ (function (_super) {
-    __extends(default_1, _super);
-    function default_1() {
-        var _this = _super !== null && _super.apply(this, arguments) || this;
-        _this.name = 'DataManagementPlugin';
-        _this.exports = {
-            AssemblyManager: AssemblyManager,
-            SetDefaultSession: SetDefaultSession,
+class default_1 extends Plugin_1.default {
+    constructor() {
+        super(...arguments);
+        this.name = 'DataManagementPlugin';
+        this.exports = {
+            AssemblyManager,
+            SetDefaultSession,
         };
-        return _this;
     }
-    default_1.prototype.install = function (pluginManager) {
-        pluginManager.addConnectionType(function () {
-            return new ConnectionType_1.default({
-                name: 'UCSCTrackHubConnection',
-                configSchema: ucsc_trackhub_1.configSchema,
-                stateModel: (0, ucsc_trackhub_1.modelFactory)(pluginManager),
-                displayName: 'UCSC Track Hub',
-                description: 'A track or assembly hub in the Track Hub format',
-                url: '//genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html#Intro',
-            });
-        });
-        pluginManager.addWidgetType(function () {
+    install(pluginManager) {
+        pluginManager.addConnectionType(() => new ConnectionType_1.default({
+            name: 'UCSCTrackHubConnection',
+            configSchema: ucsc_trackhub_1.configSchema,
+            stateModel: (0, ucsc_trackhub_1.modelFactory)(pluginManager),
+            displayName: 'UCSC Track Hub',
+            description: 'A track or assembly hub in the Track Hub format',
+            url: '//genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html#Intro',
+        }));
+        pluginManager.addWidgetType(() => {
             return new WidgetType_1.default({
                 name: 'HierarchicalTrackSelectorWidget',
                 heading: 'Available tracks',
                 configSchema: HierarchicalTrackSelectorWidget_1.configSchema,
                 stateModel: (0, HierarchicalTrackSelectorWidget_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(function () {
-                    return Promise.resolve().then(function () { return __importStar(require('./HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector')); });
-                }),
+                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector')))),
             });
         });
-        pluginManager.addWidgetType(function () {
+        pluginManager.addWidgetType(() => {
             return new WidgetType_1.default({
                 name: 'AddTrackWidget',
                 heading: 'Add a track',
                 configSchema: AddTrackWidget_1.configSchema,
                 stateModel: (0, AddTrackWidget_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(function () { return Promise.resolve().then(function () { return __importStar(require('./AddTrackWidget/components/AddTrackWidget')); }); }),
+                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AddTrackWidget/components/AddTrackWidget')))),
             });
         });
-        pluginManager.addWidgetType(function () {
+        pluginManager.addWidgetType(() => {
             return new WidgetType_1.default({
                 name: 'AddConnectionWidget',
                 heading: 'Add a connection',
                 configSchema: AddConnectionWidget_1.configSchema,
                 stateModel: AddConnectionWidget_1.stateModel,
-                ReactComponent: (0, react_1.lazy)(function () { return Promise.resolve().then(function () { return __importStar(require('./AddConnectionWidget/components/AddConnectionWidget')); }); }),
+                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AddConnectionWidget/components/AddConnectionWidget')))),
             });
         });
-        pluginManager.addWidgetType(function () {
+        pluginManager.addWidgetType(() => {
             return new WidgetType_1.default({
                 name: 'PluginStoreWidget',
                 heading: 'Plugin store',
                 configSchema: PluginStoreWidget_1.configSchema,
                 stateModel: (0, PluginStoreWidget_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(function () { return Promise.resolve().then(function () { return __importStar(require('./PluginStoreWidget/components/PluginStoreWidget')); }); }),
+                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./PluginStoreWidget/components/PluginStoreWidget')))),
             });
         });
-    };
-    default_1.prototype.configure = function (pluginManager) { };
-    return default_1;
-}(Plugin_1.default));
+    }
+    configure(_pluginManager) { }
+}
 exports.default = default_1;
 //# sourceMappingURL=index.js.map

package/dist/index.js.map

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package/dist/ucsc-trackhub/configSchema.js

@@ -1,7 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-var models_1 = require("@jbrowse/core/pluggableElementTypes/models");
-var configuration_1 = require("@jbrowse/core/configuration");
+const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
+const configuration_1 = require("@jbrowse/core/configuration");
 exports.default = (0, configuration_1.ConfigurationSchema)('UCSCTrackHubConnection', {
     hubTxtLocation: {
         type: 'fileLocation',

package/dist/ucsc-trackhub/configSchema.js.map

@@ -1 +1 @@
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+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/configSchema.js"],"names":[],"mappings":";;AAAA,uEAAiF;AACjF,+DAAiE;AAEjE,kBAAe,IAAA,mCAAmB,EAChC,wBAAwB,EACxB;IACE,cAAc,EAAE;QACd,IAAI,EAAE,cAAc;QACpB,YAAY,EAAE;YACZ,GAAG,EAAE,mCAAmC;YACxC,YAAY,EAAE,aAAa;SAC5B;QACD,WAAW,EAAE,mDAAmD;KACjE;IACD,aAAa,EAAE;QACb,IAAI,EAAE,aAAa;QACnB,YAAY,EAAE,EAAE;QAChB,WAAW,EACT,+FAA+F;KAClG;CACF,EACD,EAAE,iBAAiB,EAAE,6BAAoB,EAAE,CAC5C,CAAA"}

package/dist/ucsc-trackhub/model.js

@@ -1,64 +1,28 @@
 "use strict";
-var __read = (this && this.__read) || function (o, n) {
-    var m = typeof Symbol === "function" && o[Symbol.iterator];
-    if (!m) return o;
-    var i = m.call(o), r, ar = [], e;
-    try {
-        while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
-    }
-    catch (error) { e = { error: error }; }
-    finally {
-        try {
-            if (r && !r.done && (m = i["return"])) m.call(i);
-        }
-        finally { if (e) throw e.error; }
-    }
-    return ar;
-};
-var __values = (this && this.__values) || function(o) {
-    var s = typeof Symbol === "function" && Symbol.iterator, m = s && o[s], i = 0;
-    if (m) return m.call(o);
-    if (o && typeof o.length === "number") return {
-        next: function () {
-            if (o && i >= o.length) o = void 0;
-            return { value: o && o[i++], done: !o };
-        }
-    };
-    throw new TypeError(s ? "Object is not iterable." : "Symbol.iterator is not defined.");
-};
-var __spreadArray = (this && this.__spreadArray) || function (to, from, pack) {
-    if (pack || arguments.length === 2) for (var i = 0, l = from.length, ar; i < l; i++) {
-        if (ar || !(i in from)) {
-            if (!ar) ar = Array.prototype.slice.call(from, 0, i);
-            ar[i] = from[i];
-        }
-    }
-    return to.concat(ar || Array.prototype.slice.call(from));
-};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var models_1 = require("@jbrowse/core/pluggableElementTypes/models");
-var configuration_1 = require("@jbrowse/core/configuration");
-var util_1 = require("@jbrowse/core/util");
-var mobx_state_tree_1 = require("mobx-state-tree");
-var configSchema_1 = __importDefault(require("./configSchema"));
-var ucscTrackHub_1 = require("./ucscTrackHub");
+const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
+const configuration_1 = require("@jbrowse/core/configuration");
+const util_1 = require("@jbrowse/core/util");
+const mobx_state_tree_1 = require("mobx-state-tree");
+const configSchema_1 = __importDefault(require("./configSchema"));
+const ucscTrackHub_1 = require("./ucscTrackHub");
 function UCSCTrackHubConnection(pluginManager) {
     return mobx_state_tree_1.types.compose('UCSCTrackHubConnection', (0, models_1.BaseConnectionModelFactory)(pluginManager), mobx_state_tree_1.types
         .model({
         configuration: (0, configuration_1.ConfigurationReference)(configSchema_1.default),
         type: mobx_state_tree_1.types.literal('UCSCTrackHubConnection'),
     })
-        .actions(function (self) { return ({
-        connect: function () {
-            var connectionName = (0, configuration_1.getConf)(self, 'name');
-            var hubFileLocation = (0, configuration_1.getConf)(self, 'hubTxtLocation');
-            var session = (0, util_1.getSession)(self);
+        .actions(self => ({
+        connect() {
+            const connectionName = (0, configuration_1.getConf)(self, 'name');
+            const hubFileLocation = (0, configuration_1.getConf)(self, 'hubTxtLocation');
+            const session = (0, util_1.getSession)(self);
             (0, ucscTrackHub_1.fetchHubFile)(hubFileLocation)
-                .then(function (hubFile) {
-                var genomesFileLocation = hubFileLocation.uri
+                .then(hubFile => {
+                const genomesFileLocation = hubFileLocation.uri
                     ? {
                         uri: new URL(hubFile.get('genomesFile'), hubFileLocation.uri).href,
                         locationType: 'UriLocation',
@@ -72,21 +36,19 @@ function UCSCTrackHubConnection(pluginManager) {
                     (0, ucscTrackHub_1.fetchGenomesFile)(genomesFileLocation),
                 ]);
             })
-                .then(function (_a) {
-                var e_1, _b;
-                var _c = __read(_a, 2), hubFile = _c[0], genomesFile = _c[1];
-                var trackDbData = [];
-                var _loop_1 = function (genomeName, genome) {
-                    var assemblyNames = (0, configuration_1.getConf)(self, 'assemblyNames');
+                .then(([hubFile, genomesFile]) => {
+                const trackDbData = [];
+                for (const [genomeName, genome] of genomesFile) {
+                    const assemblyNames = (0, configuration_1.getConf)(self, 'assemblyNames');
                     if (assemblyNames.length > 0 &&
                         !assemblyNames.includes(genomeName)) {
-                        return "break";
+                        break;
                     }
-                    var assemblyConf = session.assemblies.find(function (assembly) { return (0, configuration_1.readConfObject)(assembly, 'name') === genomeName; });
+                    const assemblyConf = session.assemblies.find(assembly => (0, configuration_1.readConfObject)(assembly, 'name') === genomeName);
                     if (!assemblyConf) {
-                        throw new Error("Cannot find assembly for \"".concat(genomeName, "\" from the genomes file for connection \"").concat(connectionName, "\""));
+                        throw new Error(`Cannot find assembly for "${genomeName}" from the genomes file for connection "${connectionName}"`);
                     }
-                    var trackDbFileLocation = hubFileLocation.uri
+                    const trackDbFileLocation = hubFileLocation.uri
                         ? {
                             uri: new URL(genome.get('trackDb'), new URL(hubFile.get('genomesFile'), hubFileLocation.uri)).href,
                             locationType: 'UriLocation',
@@ -101,52 +63,26 @@ function UCSCTrackHubConnection(pluginManager) {
                         genomeName,
                         assemblyConf,
                     ]));
-                };
-                try {
-                    for (var genomesFile_1 = __values(genomesFile), genomesFile_1_1 = genomesFile_1.next(); !genomesFile_1_1.done; genomesFile_1_1 = genomesFile_1.next()) {
-                        var _d = __read(genomesFile_1_1.value, 2), genomeName = _d[0], genome = _d[1];
-                        var state_1 = _loop_1(genomeName, genome);
-                        if (state_1 === "break")
-                            break;
-                    }
                 }
-                catch (e_1_1) { e_1 = { error: e_1_1 }; }
-                finally {
-                    try {
-                        if (genomesFile_1_1 && !genomesFile_1_1.done && (_b = genomesFile_1.return)) _b.call(genomesFile_1);
-                    }
-                    finally { if (e_1) throw e_1.error; }
-                }
-                return Promise.all(__spreadArray([], __read(trackDbData), false));
+                return Promise.all([...trackDbData]);
             })
-                .then(function (trackDbData) {
-                var e_2, _a;
-                try {
-                    for (var trackDbData_1 = __values(trackDbData), trackDbData_1_1 = trackDbData_1.next(); !trackDbData_1_1.done; trackDbData_1_1 = trackDbData_1.next()) {
-                        var _b = __read(trackDbData_1_1.value, 4), trackDbFileLocation = _b[0], trackDbFile = _b[1], genomeName = _b[2], assemblyConf = _b[3];
-                        var sequenceAdapter = (0, configuration_1.readConfObject)(assemblyConf, [
-                            'sequence',
-                            'adapter',
-                        ]);
-                        var tracks = (0, ucscTrackHub_1.generateTracks)(trackDbFile, trackDbFileLocation, genomeName, sequenceAdapter);
-                        self.addTrackConfs(tracks);
-                    }
-                }
-                catch (e_2_1) { e_2 = { error: e_2_1 }; }
-                finally {
-                    try {
-                        if (trackDbData_1_1 && !trackDbData_1_1.done && (_a = trackDbData_1.return)) _a.call(trackDbData_1);
-                    }
-                    finally { if (e_2) throw e_2.error; }
+                .then(trackDbData => {
+                for (const [trackDbFileLocation, trackDbFile, genomeName, assemblyConf,] of trackDbData) {
+                    const sequenceAdapter = (0, configuration_1.readConfObject)(assemblyConf, [
+                        'sequence',
+                        'adapter',
+                    ]);
+                    const tracks = (0, ucscTrackHub_1.generateTracks)(trackDbFile, trackDbFileLocation, genomeName, sequenceAdapter);
+                    self.addTrackConfs(tracks);
                 }
             })
-                .catch(function (error) {
+                .catch(error => {
                 console.error(error);
-                session.notify("There was a problem connecting to the UCSC Track Hub \"".concat(self.name, "\". Please make sure you have entered a valid hub.txt file. The error that was thrown is: \"").concat(error, "\""), 'error');
+                session.notify(`There was a problem connecting to the UCSC Track Hub "${self.name}". Please make sure you have entered a valid hub.txt file. The error that was thrown is: "${error}"`, 'error');
                 session.breakConnection(self.configuration);
             });
         },
-    }); }));
+    })));
 }
 exports.default = UCSCTrackHubConnection;
 //# sourceMappingURL=model.js.map

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package/dist/ucsc-trackhub/ucscAssemblies.js

@@ -3,5 +3,201 @@
 // http://hgdownload.soe.ucsc.edu/goldenPath/${assemblyName}/bigZips/${assemblyName}.2bit
 // This list was generated by `getUcscAssemblies.js`
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = "ailMel1\nallMis1\nanoCar1\nanoCar2\nanoGam1\nanoGam3\napiMel1\napiMel2\naplCal1\naptMan1\naquChr2\nbalAcu1\nbisBis1\nbosTau2\nbosTau3\nbosTau4\nbosTau6\nbosTau7\nbosTau8\nbraFlo1\ncaeJap1\ncaePb1\ncaePb2\ncaeRem2\ncaeRem3\ncalJac1\ncalJac3\ncalMil1\ncanFam1\ncanFam3\ncavPor3\ncb3\nce10\nce11\nce2\nce4\nce6\ncerSim1\nchlSab2\nchoHof1\nchrPic1\nci1\nci2\nci3\ncriGri1\ncriGriChoV1\ndanRer10\ndanRer11\ndanRer3\ndanRer4\ndanRer5\ndanRer6\ndanRer7\ndasNov3\ndipOrd1\ndm1\ndm2\ndm3\ndm6\ndp2\ndp3\ndroAna1\ndroAna2\ndroEre1\ndroGri1\ndroMoj1\ndroMoj2\ndroPer1\ndroSec1\ndroSim1\ndroVir1\ndroVir2\ndroYak1\ndroYak2\neboVir3\nechTel1\nechTel2\nequCab1\nequCab2\neriEur1\neriEur2\nfelCat3\nfelCat4\nfelCat5\nfelCat8\nfr1\nfr2\nfr3\ngadMor1\ngalGal2\ngalGal3\ngalGal4\ngalGal5\ngalGal6\ngalVar1\ngasAcu1\ngeoFor1\ngorGor3\ngorGor4\ngorGor5\nhetGla1\nhetGla2\nhg16\nhg18\nhg19\nhg38\nlatCha1\nloxAfr3\nmacEug2\nmacFas5\nmanPen1\nmelGal1\nmelGal5\nmelUnd1\nmicMur1\nmicMur2\nmm10\nmm7\nmm8\nmm9\nmonDom2\nmonDom4\nmonDom5\nmusFur1\nmyoLuc2\nnanPar1\nnasLar1\nnomLeu1\nnomLeu2\nnomLeu3\nochPri2\nochPri3\noreNil2\nornAna1\nornAna2\noryCun2\noryLat2\notoGar3\noviAri1\noviAri3\noviAri4\npanPan1\npanPan2\npanTro1\npanTro2\npanTro3\npanTro4\npanTro5\npanTro6\npapAnu2\npapHam1\npetMar1\npetMar2\nponAbe2\nponAbe3\npriPac1\nproCap1\npteVam1\nrheMac2\nrheMac3\nrheMac8\nrhiRox1\nrn4\nrn5\nrn6\nsacCer1\nsacCer2\nsacCer3\nsaiBol1\nsarHar1\nsorAra1\nsorAra2\nspeTri2\nstrPur1\nstrPur2\nsusScr11\nsusScr2\nsusScr3\ntaeGut1\ntaeGut2\ntarSyr1\ntarSyr2\ntetNig1\ntetNig2\nthaSir1\ntriMan1\ntupBel1\nturTru2\nventer1\nvicPac1\nvicPac2\nxenLae2\nxenTro1\nxenTro2\nxenTro3\nxenTro7\nxenTro9".split(/\r?\n/);
+exports.default = `ailMel1
+allMis1
+anoCar1
+anoCar2
+anoGam1
+anoGam3
+apiMel1
+apiMel2
+aplCal1
+aptMan1
+aquChr2
+balAcu1
+bisBis1
+bosTau2
+bosTau3
+bosTau4
+bosTau6
+bosTau7
+bosTau8
+braFlo1
+caeJap1
+caePb1
+caePb2
+caeRem2
+caeRem3
+calJac1
+calJac3
+calMil1
+canFam1
+canFam3
+cavPor3
+cb3
+ce10
+ce11
+ce2
+ce4
+ce6
+cerSim1
+chlSab2
+choHof1
+chrPic1
+ci1
+ci2
+ci3
+criGri1
+criGriChoV1
+danRer10
+danRer11
+danRer3
+danRer4
+danRer5
+danRer6
+danRer7
+dasNov3
+dipOrd1
+dm1
+dm2
+dm3
+dm6
+dp2
+dp3
+droAna1
+droAna2
+droEre1
+droGri1
+droMoj1
+droMoj2
+droPer1
+droSec1
+droSim1
+droVir1
+droVir2
+droYak1
+droYak2
+eboVir3
+echTel1
+echTel2
+equCab1
+equCab2
+eriEur1
+eriEur2
+felCat3
+felCat4
+felCat5
+felCat8
+fr1
+fr2
+fr3
+gadMor1
+galGal2
+galGal3
+galGal4
+galGal5
+galGal6
+galVar1
+gasAcu1
+geoFor1
+gorGor3
+gorGor4
+gorGor5
+hetGla1
+hetGla2
+hg16
+hg18
+hg19
+hg38
+latCha1
+loxAfr3
+macEug2
+macFas5
+manPen1
+melGal1
+melGal5
+melUnd1
+micMur1
+micMur2
+mm10
+mm7
+mm8
+mm9
+monDom2
+monDom4
+monDom5
+musFur1
+myoLuc2
+nanPar1
+nasLar1
+nomLeu1
+nomLeu2
+nomLeu3
+ochPri2
+ochPri3
+oreNil2
+ornAna1
+ornAna2
+oryCun2
+oryLat2
+otoGar3
+oviAri1
+oviAri3
+oviAri4
+panPan1
+panPan2
+panTro1
+panTro2
+panTro3
+panTro4
+panTro5
+panTro6
+papAnu2
+papHam1
+petMar1
+petMar2
+ponAbe2
+ponAbe3
+priPac1
+proCap1
+pteVam1
+rheMac2
+rheMac3
+rheMac8
+rhiRox1
+rn4
+rn5
+rn6
+sacCer1
+sacCer2
+sacCer3
+saiBol1
+sarHar1
+sorAra1
+sorAra2
+speTri2
+strPur1
+strPur2
+susScr11
+susScr2
+susScr3
+taeGut1
+taeGut2
+tarSyr1
+tarSyr2
+tetNig1
+tetNig2
+thaSir1
+triMan1
+tupBel1
+turTru2
+venter1
+vicPac1
+vicPac2
+xenLae2
+xenTro1
+xenTro2
+xenTro3
+xenTro7
+xenTro9`.split(/\r?\n/);
 //# sourceMappingURL=ucscAssemblies.js.map

package/dist/ucsc-trackhub/ucscAssemblies.js.map

@@ -1 +1 @@
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+{"version":3,"file":"ucscAssemblies.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/ucscAssemblies.js"],"names":[],"mappings":";AAAA,yEAAyE;AACzE,yFAAyF;AACzF,oDAAoD;;AAEpD,kBAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;QAoMP,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA"}