@jbrowse/plugin-data-management 2.17.0 → 3.0.0

package/esm/PluginStoreWidget/components/InstalledPluginsList.d.ts

@@ -1,8 +1,7 @@
-import React from 'react';
-import PluginManager from '@jbrowse/core/PluginManager';
-import { PluginStoreModel } from '../model';
+import type { PluginStoreModel } from '../model';
+import type PluginManager from '@jbrowse/core/PluginManager';
 declare const InstalledPluginsList: ({ pluginManager, model, }: {
     pluginManager: PluginManager;
     model: PluginStoreModel;
-}) => React.JSX.Element;
+}) => import("react/jsx-runtime").JSX.Element;
 export default InstalledPluginsList;

package/esm/PluginStoreWidget/components/InstalledPluginsList.js

@@ -1,13 +1,13 @@
-import React from 'react';
-import { observer } from 'mobx-react';
+import { jsx as _jsx } from "react/jsx-runtime";
 import { List, Typography } from '@mui/material';
+import { observer } from 'mobx-react';
 import InstalledPlugin from './InstalledPlugin';
 const InstalledPluginsList = observer(function InstalledPluginsList({ pluginManager, model, }) {
     const { plugins } = pluginManager;
     const { filterText } = model;
     const externalPlugins = plugins.filter(p => { var _a; return !((_a = pluginManager.pluginMetadata[p.name]) === null || _a === void 0 ? void 0 : _a.isCore); });
-    return (React.createElement(List, null, externalPlugins.length > 0 ? (externalPlugins
-        .filter(p => p.name.toLowerCase().includes(filterText.toLowerCase()))
-        .map(p => React.createElement(InstalledPlugin, { key: p.name, plugin: p, model: model }))) : (React.createElement(Typography, null, "No plugins currently installed"))));
+    return (_jsx(List, { children: externalPlugins.length > 0 ? (externalPlugins
+            .filter(p => p.name.toLowerCase().includes(filterText.toLowerCase()))
+            .map(p => _jsx(InstalledPlugin, { plugin: p, model: model }, p.name))) : (_jsx(Typography, { children: "No plugins currently installed" })) }));
 });
 export default InstalledPluginsList;

package/esm/PluginStoreWidget/components/PluginCard.d.ts

@@ -1,9 +1,7 @@
-import React from 'react';
-import { JBrowsePlugin } from '@jbrowse/core/util/types';
-import { PluginStoreModel } from '../model';
-declare const PluginCard: ({ plugin, model, adminMode, }: {
+import type { PluginStoreModel } from '../model';
+import type { JBrowsePlugin } from '@jbrowse/core/util/types';
+declare const PluginCard: ({ plugin, model, }: {
     plugin: JBrowsePlugin;
     model: PluginStoreModel;
-    adminMode: boolean;
-}) => React.JSX.Element;
+}) => import("react/jsx-runtime").JSX.Element;
 export default PluginCard;

package/esm/PluginStoreWidget/components/PluginCard.js

@@ -1,14 +1,13 @@
-import React, { useState } from 'react';
-import { observer } from 'mobx-react';
-import { getParent } from 'mobx-state-tree';
-import { getSession, getEnv } from '@jbrowse/core/util';
-import { isSessionWithSessionPlugins, } from '@jbrowse/core/util/types';
-import { Card, CardActions, CardContent, Button, Link, Typography, } from '@mui/material';
-import { makeStyles } from 'tss-react/mui';
-// icons
-import PersonIcon from '@mui/icons-material/Person';
+import { jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
+import { useState } from 'react';
+import { getEnv, getSession } from '@jbrowse/core/util';
+import { isSessionWithSessionPlugins } from '@jbrowse/core/util/types';
 import AddIcon from '@mui/icons-material/Add';
 import CheckIcon from '@mui/icons-material/Check';
+import PersonIcon from '@mui/icons-material/Person';
+import { Button, Card, CardActions, CardContent, Link, Typography, } from '@mui/material';
+import { observer } from 'mobx-react';
+import { makeStyles } from 'tss-react/mui';
 const useStyles = makeStyles()({
     card: {
         margin: '0.5em',
@@ -24,36 +23,30 @@ const useStyles = makeStyles()({
         display: 'flex',
         alignItems: 'center',
     },
+    mr: {
+        marginRight: '0.5em',
+    },
 });
-const PluginCard = observer(function PluginCard({ plugin, model, adminMode, }) {
+const PluginCard = observer(function PluginCard({ plugin, model, }) {
     const { classes } = useStyles();
     const session = getSession(model);
     const { pluginManager } = getEnv(model);
     const { runtimePluginDefinitions } = pluginManager;
-    // @ts-expect-error
-    const isInstalled = runtimePluginDefinitions.some(d => d.url === plugin.url);
+    const isInstalled = runtimePluginDefinitions.some(d => 'url' in d && d.url === plugin.url);
     const [tempDisabled, setTempDisabled] = useState(false);
-    const disableButton = isInstalled || tempDisabled;
-    const rootModel = getParent(model, 3);
-    const { jbrowse } = rootModel;
-    return (React.createElement(Card, { variant: "outlined", key: plugin.name, className: classes.card },
-        React.createElement(CardContent, null,
-            React.createElement(Typography, { variant: "h5" },
-                React.createElement(Link, { href: `${plugin.location}#readme`, target: "_blank", rel: "noopener" }, plugin.name)),
-            React.createElement("div", { className: classes.dataField },
-                React.createElement(PersonIcon, { style: { marginRight: '0.5em' } }),
-                React.createElement(Typography, null, plugin.authors.join(', '))),
-            React.createElement(Typography, { className: classes.bold }, "Description:"),
-            React.createElement(Typography, null, plugin.description)),
-        React.createElement(CardActions, null,
-            React.createElement(Button, { variant: "contained", disabled: disableButton, startIcon: isInstalled ? React.createElement(CheckIcon, null) : React.createElement(AddIcon, null), onClick: () => {
-                    if (adminMode) {
-                        jbrowse.addPlugin({ name: plugin.name, url: plugin.url });
-                    }
-                    else if (isSessionWithSessionPlugins(session)) {
-                        session.addSessionPlugin(plugin);
-                    }
-                    setTempDisabled(true);
-                } }, isInstalled ? 'Installed' : 'Install'))));
+    const { adminMode, jbrowse } = session;
+    const { name, authors, description } = plugin;
+    return (_jsxs(Card, { variant: "outlined", className: classes.card, children: [_jsxs(CardContent, { children: [_jsx(Typography, { variant: "h5", children: _jsx(Link, { href: `${plugin.location}#readme`, target: "_blank", rel: "noopener", children: plugin.name }) }), _jsxs("div", { className: classes.dataField, children: [_jsx(PersonIcon, { className: classes.mr }), _jsx(Typography, { children: authors.join(', ') })] }), _jsx(Typography, { className: classes.bold, children: "Description:" }), _jsx(Typography, { children: description })] }), _jsx(CardActions, { children: _jsx(Button, { variant: "contained", disabled: isInstalled || tempDisabled, startIcon: isInstalled ? _jsx(CheckIcon, {}) : _jsx(AddIcon, {}), onClick: () => {
+                        if (adminMode) {
+                            jbrowse.addPlugin(plugin);
+                        }
+                        else if (isSessionWithSessionPlugins(session)) {
+                            session.addSessionPlugin(plugin);
+                        }
+                        else {
+                            session.notify('No way to install plugin');
+                        }
+                        setTempDisabled(true);
+                    }, children: isInstalled ? 'Installed' : 'Install' }) })] }, name));
 });
 export default PluginCard;

package/esm/PluginStoreWidget/components/PluginStoreWidget.d.ts

@@ -1,6 +1,5 @@
-import React from 'react';
-import { PluginStoreModel } from '../model';
+import type { PluginStoreModel } from '../model';
 declare const PluginStoreWidget: ({ model, }: {
     model: PluginStoreModel;
-}) => React.JSX.Element;
+}) => import("react/jsx-runtime").JSX.Element;
 export default PluginStoreWidget;

package/esm/PluginStoreWidget/components/PluginStoreWidget.js

@@ -1,19 +1,17 @@
-import React, { useState, lazy, Suspense } from 'react';
-import { Accordion, AccordionSummary, Button, IconButton, InputAdornment, TextField, Typography, } from '@mui/material';
-import { makeStyles } from 'tss-react/mui';
-import { observer } from 'mobx-react';
-import { getEnv } from 'mobx-state-tree';
+import { jsx as _jsx, jsxs as _jsxs, Fragment as _Fragment } from "react/jsx-runtime";
+import { lazy } from 'react';
 import { LoadingEllipses } from '@jbrowse/core/ui';
 import { getSession, isElectron } from '@jbrowse/core/util';
-// icons
-import ExpandMoreIcon from '@mui/icons-material/ExpandMore';
 import ClearIcon from '@mui/icons-material/Clear';
+import ExpandMoreIcon from '@mui/icons-material/ExpandMore';
 import InfoOutlinedIcon from '@mui/icons-material/InfoOutlined';
-// locals
+import { Accordion, AccordionSummary, Button, IconButton, InputAdornment, TextField, Typography, } from '@mui/material';
+import { observer } from 'mobx-react';
+import { getEnv } from 'mobx-state-tree';
+import { makeStyles } from 'tss-react/mui';
 import InstalledPluginsList from './InstalledPluginsList';
 import PluginCard from './PluginCard';
 import { useFetchPlugins } from './util';
-// lazies
 const AddCustomPluginDialog = lazy(() => import('./AddCustomPluginDialog'));
 const useStyles = makeStyles()(theme => ({
     expandIcon: {
@@ -30,55 +28,39 @@ const useStyles = makeStyles()(theme => ({
         margin: '1em auto',
         display: 'flex',
     },
+    mr: {
+        marginRight: '0.3em',
+    },
+    m: {
+        margin: '1em',
+    },
 }));
 const PluginStoreWidget = observer(function ({ model, }) {
     const { classes } = useStyles();
     const { plugins, error } = useFetchPlugins();
-    const [open, setOpen] = useState(false);
-    const { adminMode } = getSession(model);
+    const { filterText } = model;
+    const session = getSession(model);
+    const { adminMode } = session;
     const { pluginManager } = getEnv(model);
-    return (React.createElement("div", null,
-        adminMode && (React.createElement(React.Fragment, null,
-            !isElectron && (React.createElement("div", { className: classes.adminBadge },
-                React.createElement(InfoOutlinedIcon, { style: { marginRight: '0.3em' } }),
-                React.createElement(Typography, null,
-                    "You are using the ",
-                    React.createElement("code", null, "admin-server"),
-                    ". Any changes you make will be saved to your configuration file. You also have the ability to add custom plugins that are not in the store."))),
-            React.createElement(Button, { className: classes.customPluginButton, variant: "contained", onClick: () => {
-                    setOpen(true);
-                } }, "Add custom plugin"),
-            open ? (React.createElement(Suspense, { fallback: null },
-                React.createElement(AddCustomPluginDialog, { onClose: () => {
-                        setOpen(false);
-                    }, model: model }))) : null)),
-        React.createElement(TextField, { label: "Filter plugins", value: model.filterText, onChange: event => {
-                model.setFilterText(event.target.value);
-            }, fullWidth: true, slotProps: {
-                input: {
-                    endAdornment: (React.createElement(InputAdornment, { position: "end" },
-                        React.createElement(IconButton, { onClick: () => {
-                                model.clearFilterText();
-                            } },
-                            React.createElement(ClearIcon, null)))),
-                },
-            } }),
-        React.createElement(Accordion, { defaultExpanded: true },
-            React.createElement(AccordionSummary, { expandIcon: React.createElement(ExpandMoreIcon, { className: classes.expandIcon }) },
-                React.createElement(Typography, { variant: "h5" }, "Installed plugins")),
-            React.createElement("div", { style: { margin: '1em' } },
-                React.createElement(InstalledPluginsList, { pluginManager: pluginManager, model: model }))),
-        React.createElement(Accordion, { defaultExpanded: true },
-            React.createElement(AccordionSummary, { expandIcon: React.createElement(ExpandMoreIcon, { className: classes.expandIcon }) },
-                React.createElement(Typography, { variant: "h5" }, "Available plugins")),
-            error ? (React.createElement(Typography, { color: "error" }, `${error}`)) : plugins ? (plugins
-                .filter(plugin => {
-                // If plugin only has cjsUrl, don't display outside desktop
-                return (!(isElectron && plugin.cjsUrl) &&
-                    plugin.name
-                        .toLowerCase()
-                        .includes(model.filterText.toLowerCase()));
-            })
-                .map(plugin => (React.createElement(PluginCard, { key: plugin.name, plugin: plugin, model: model, adminMode: !!adminMode })))) : (React.createElement(LoadingEllipses, null)))));
+    return (_jsxs("div", { children: [adminMode && (_jsxs(_Fragment, { children: [!isElectron && (_jsxs("div", { className: classes.adminBadge, children: [_jsx(InfoOutlinedIcon, { className: classes.mr }), _jsxs(Typography, { children: ["You are using the ", _jsx("code", { children: "admin-server" }), ". Any changes you make will be saved to your configuration file. You also have the ability to add custom plugins that are not in the store."] })] })), _jsx(Button, { className: classes.customPluginButton, variant: "contained", onClick: () => {
+                            session.queueDialog(onClose => [
+                                AddCustomPluginDialog,
+                                {
+                                    model,
+                                    onClose,
+                                },
+                            ]);
+                        }, children: "Add custom plugin" })] })), _jsx(TextField, { label: "Filter plugins", value: filterText, onChange: event => {
+                    model.setFilterText(event.target.value);
+                }, fullWidth: true, slotProps: {
+                    input: {
+                        endAdornment: (_jsx(InputAdornment, { position: "end", children: _jsx(IconButton, { onClick: () => {
+                                    model.clearFilterText();
+                                }, children: _jsx(ClearIcon, {}) }) })),
+                    },
+                } }), _jsxs(Accordion, { defaultExpanded: true, children: [_jsx(AccordionSummary, { expandIcon: _jsx(ExpandMoreIcon, { className: classes.expandIcon }), children: _jsx(Typography, { variant: "h5", children: "Installed plugins" }) }), _jsx("div", { className: classes.m, children: _jsx(InstalledPluginsList, { pluginManager: pluginManager, model: model }) })] }), _jsxs(Accordion, { defaultExpanded: true, children: [_jsx(AccordionSummary, { expandIcon: _jsx(ExpandMoreIcon, { className: classes.expandIcon }), children: _jsx(Typography, { variant: "h5", children: "Available plugins" }) }), error ? (_jsx(Typography, { color: "error", children: `${error}` })) : plugins ? (plugins
+                        .filter(plugin => !(isElectron && plugin.cjsUrl) &&
+                        plugin.name.toLowerCase().includes(filterText.toLowerCase()))
+                        .map(plugin => (_jsx(PluginCard, { plugin: plugin, model: model }, plugin.name)))) : (_jsx(LoadingEllipses, {}))] })] }));
 });
 export default PluginStoreWidget;

package/esm/PluginStoreWidget/components/util.d.ts

@@ -1,4 +1,4 @@
-import { JBrowsePlugin } from '@jbrowse/core/util/types';
+import type { JBrowsePlugin } from '@jbrowse/core/util/types';
 export declare function useFetchPlugins(): {
     plugins: JBrowsePlugin[] | undefined;
     error: unknown;

package/esm/PluginStoreWidget/components/util.js

@@ -1,9 +1,8 @@
-import { useState, useEffect } from 'react';
+import { useEffect, useState } from 'react';
 export function useFetchPlugins() {
     const [plugins, setPlugins] = useState();
     const [error, setError] = useState();
     useEffect(() => {
-        // eslint-disable-next-line @typescript-eslint/no-floating-promises
         ;
         (async () => {
             try {

package/esm/PluginStoreWidget/index.d.ts

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

package/esm/PluginStoreWidget/index.js

@@ -1,6 +1,6 @@
+import { lazy } from 'react';
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
 import { WidgetType } from '@jbrowse/core/pluggableElementTypes';
-import { lazy } from 'react';
 import stateModelFactory from './model';
 const configSchema = ConfigurationSchema('PluginStoreWidget', {});
 export default function PluginStoreWidgetF(pluginManager) {

package/esm/PluginStoreWidget/model.d.ts

@@ -1,18 +1,12 @@
-import { Instance } from 'mobx-state-tree';
-import PluginManager from '@jbrowse/core/PluginManager';
+import type PluginManager from '@jbrowse/core/PluginManager';
+import type { Instance } from 'mobx-state-tree';
 export default function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     type: import("mobx-state-tree").ISimpleType<"PluginStoreWidget">;
     filterText: import("mobx-state-tree").IType<string | undefined, string, string>;
     view: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
 }, {
-    /**
-     * #action
-     */
     clearFilterText(): void;
-    /**
-     * #action
-     */
     setFilterText(newText: string): void;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
 export type PluginStoreStateModel = ReturnType<typeof stateModelFactory>;

package/esm/PluginStoreWidget/model.js

@@ -1,35 +1,17 @@
-import { types } from 'mobx-state-tree';
 import { ElementId } from '@jbrowse/core/util/types/mst';
+import { types } from 'mobx-state-tree';
 export default function stateModelFactory(pluginManager) {
     return types
         .model('PluginStoreModel', {
-        /**
-         * #property
-         */
         id: ElementId,
-        /**
-         * #property
-         */
         type: types.literal('PluginStoreWidget'),
-        /**
-         * #property
-         */
         filterText: '',
-        /**
-         * #property
-         */
         view: types.safeReference(pluginManager.pluggableMstType('view', 'stateModel')),
     })
         .actions(self => ({
-        /**
-         * #action
-         */
         clearFilterText() {
             self.filterText = '';
         },
-        /**
-         * #action
-         */
         setFilterText(newText) {
             self.filterText = newText;
         },

package/esm/{ucsc-trackhub → UCSCTrackHub}/configSchema.d.ts

@@ -1,7 +1,4 @@
 declare const UCSCTrackHubConnection: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    /**
-     * #slot
-     */
     hubTxtLocation: {
         type: string;
         defaultValue: {
@@ -10,9 +7,6 @@ declare const UCSCTrackHubConnection: import("@jbrowse/core/configuration/config
         };
         description: string;
     };
-    /**
-     * #slot
-     */
     assemblyNames: {
         type: string;
         defaultValue: never[];

package/esm/{ucsc-trackhub → UCSCTrackHub}/configSchema.js

@@ -1,13 +1,7 @@
-import { baseConnectionConfig } from '@jbrowse/core/pluggableElementTypes/models';
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
-/**
- * #config UCSCTrackHubConnection
- */
-function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
+import { baseConnectionConfig } from '@jbrowse/core/pluggableElementTypes/models';
+function x() { }
 const UCSCTrackHubConnection = ConfigurationSchema('UCSCTrackHubConnection', {
-    /**
-     * #slot
-     */
     hubTxtLocation: {
         type: 'fileLocation',
         defaultValue: {
@@ -16,18 +10,12 @@ const UCSCTrackHubConnection = ConfigurationSchema('UCSCTrackHubConnection', {
         },
         description: 'location of the hub file (usually called hub.txt)',
     },
-    /**
-     * #slot
-     */
     assemblyNames: {
         type: 'stringArray',
         defaultValue: [],
         description: 'optional list of genomes to import from this track hub, if empty all genomes will be imported',
     },
 }, {
-    /**
-     * #baseConfiguration
-     */
     baseConfiguration: baseConnectionConfig,
 });
 export default UCSCTrackHubConnection;

package/{dist/ucsc-trackhub → esm/UCSCTrackHub}/doConnect.d.ts

@@ -1,4 +1,4 @@
-import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
 export declare function doConnect(self: {
     configuration: AnyConfigurationModel;
     addTrackConfs: (arg: Record<string, unknown>[]) => void;

package/esm/{ucsc-trackhub → UCSCTrackHub}/doConnect.js

@@ -1,12 +1,10 @@
 import { HubFile, SingleFileHub } from '@gmod/ucsc-hub';
-import { generateTracks, fetchGenomesFile, fetchTrackDbFile, } from './ucscTrackHub';
 import { getConf } from '@jbrowse/core/configuration';
 import { getSession } from '@jbrowse/core/util';
 import { openLocation } from '@jbrowse/core/util/io';
 import { nanoid } from '@jbrowse/core/util/nanoid';
-function resolve(uri, baseUri) {
-    return new URL(uri, baseUri).href;
-}
+import { generateTracks } from './ucscTrackHub';
+import { fetchGenomesFile, fetchTrackDbFile, resolve } from './util';
 export async function doConnect(self) {
     var _a;
     const session = getSession(self);
@@ -14,7 +12,6 @@ export async function doConnect(self) {
     try {
         const hubFileLocation = getConf(self, 'hubTxtLocation');
         const hubFileText = await openLocation(hubFileLocation).readFile('utf8');
-        // @ts-expect-error
         const hubUri = resolve(hubFileLocation.uri, hubFileLocation.baseUri);
         const { assemblyManager } = session;
         if (hubFileText.includes('useOneFile on')) {
@@ -23,11 +20,18 @@ export async function doConnect(self) {
             const genomeName = genome.name;
             const asm = assemblyManager.get(genomeName);
             if (!asm) {
-                // @ts-expect-error
                 session.addSessionAssembly({
                     name: genomeName,
                     sequence: {
                         type: 'ReferenceSequenceTrack',
+                        metadata: {
+                            ...genome,
+                            ...(genome.data.htmlPath
+                                ? {
+                                    htmlPath: `<a href="${resolve(genome.data.htmlPath, hubUri)}">${genome.data.htmlPath}</a>`,
+                                }
+                                : {}),
+                        },
                         trackId: `${genomeName}-${nanoid()}`,
                         adapter: {
                             type: 'TwoBitAdapter',
@@ -48,6 +52,7 @@ export async function doConnect(self) {
                 trackDbLoc: hubFileLocation,
                 assemblyName: genomeName,
                 sequenceAdapter,
+                baseUrl: hubUri,
             });
             self.addTrackConfs(tracksNew);
         }
@@ -57,7 +62,6 @@ export async function doConnect(self) {
             if (!genomeFile) {
                 throw new Error('genomesFile not found on hub');
             }
-            // @ts-expect-error
             const hubUri = resolve(hubFileLocation.uri, hubFileLocation.baseUri);
             const genomesFileLocation = hubUri
                 ? {
@@ -80,7 +84,6 @@ export async function doConnect(self) {
                     notLoadedAssemblies.push(genomeName);
                     continue;
                 }
-                // @ts-expect-error
                 const db = genome.data.trackDb;
                 if (!db) {
                     throw new Error('genomesFile not found on hub');
@@ -102,6 +105,7 @@ export async function doConnect(self) {
                     trackDbLoc: loc,
                     assemblyName: genomeName,
                     sequenceAdapter,
+                    baseUrl: hubUri,
                 });
                 self.addTrackConfs(tracks);
                 map[genomeName] = tracks.length;

package/esm/{ucsc-trackhub → UCSCTrackHub}/index.d.ts

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

package/esm/UCSCTrackHub/index.js

@@ -0,0 +1,15 @@
+import { ConnectionType } from '@jbrowse/core/pluggableElementTypes';
+import configSchema from './configSchema';
+import stateModelFactory from './model';
+export default function UCSCTrackHubConnectionF(pluginManager) {
+    pluginManager.addConnectionType(() => {
+        return new ConnectionType({
+            name: 'UCSCTrackHubConnection',
+            configSchema,
+            stateModel: stateModelFactory(pluginManager),
+            displayName: 'UCSC Track Hub',
+            description: 'A track or assembly hub in the Track Hub format',
+            url: 'https://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html#Intro',
+        });
+    });
+}

package/esm/{ucsc-trackhub → UCSCTrackHub}/model.d.ts

@@ -1,8 +1,4 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-/**
- * #stateModel UCSCTrackHubConnection
- * extends BaseConnectionModel
- */
+import type PluginManager from '@jbrowse/core/PluginManager';
 export default function UCSCTrackHubConnection(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>;
@@ -19,9 +15,6 @@ export default function UCSCTrackHubConnection(pluginManager: PluginManager): im
         };
     }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
 } & {
-    /**
-     * #property
-     */
     configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
         hubTxtLocation: {
             type: string;
@@ -48,9 +41,6 @@ export default function UCSCTrackHubConnection(pluginManager: PluginManager): im
             description: string;
         };
     }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>, undefined>>;
-    /**
-     * #property
-     */
     type: import("mobx-state-tree").ISimpleType<"UCSCTrackHubConnection">;
 }, {
     connect(_arg: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
@@ -81,8 +71,5 @@ export default function UCSCTrackHubConnection(pluginManager: PluginManager): im
     setTrackConfs(trackConfs: import("@jbrowse/core/configuration").AnyConfigurationModel[]): void;
     clear(): void;
 } & {
-    /**
-     * #action
-     */
     connect(): Promise<void>;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;

package/esm/{ucsc-trackhub → UCSCTrackHub}/model.js

@@ -1,31 +1,16 @@
-import { BaseConnectionModelFactory } from '@jbrowse/core/pluggableElementTypes/models';
 import { ConfigurationReference } from '@jbrowse/core/configuration';
+import { BaseConnectionModelFactory } from '@jbrowse/core/pluggableElementTypes/models';
 import { types } from 'mobx-state-tree';
-// locals
 import configSchema from './configSchema';
-/**
- * #stateModel UCSCTrackHubConnection
- * extends BaseConnectionModel
- */
 export default function UCSCTrackHubConnection(pluginManager) {
     return types
         .compose('UCSCTrackHubConnection', BaseConnectionModelFactory(pluginManager), types.model({
-        /**
-         * #property
-         */
         configuration: ConfigurationReference(configSchema),
-        /**
-         * #property
-         */
         type: types.literal('UCSCTrackHubConnection'),
     }))
         .actions(self => ({
-        /**
-         * #action
-         */
         async connect() {
             const { doConnect } = await import('./doConnect');
-            // eslint-disable-next-line @typescript-eslint/no-floating-promises
             doConnect(self);
         },
     }));

package/esm/{ucsc-trackhub → UCSCTrackHub}/ucscAssemblies.js

@@ -1,6 +1,3 @@
-// These are the assemblies for which there is a sequence file located at
-// http://hgdownload.soe.ucsc.edu/goldenPath/${assemblyName}/bigZips/${assemblyName}.2bit
-// This list was generated by `getUcscAssemblies.js`
 export default `ailMel1
 allMis1
 anoCar1