@jbrowse/plugin-data-management 2.0.0 → 2.1.2

package/dist/AddTrackWidget/model.js

@@ -1,10 +1,9 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-var mobx_state_tree_1 = require("mobx-state-tree");
-var mst_1 = require("@jbrowse/core/util/types/mst");
-var tracks_1 = require("@jbrowse/core/util/tracks");
-function isAbsoluteUrl(url) {
-    if (url === void 0) { url = ''; }
+const mobx_state_tree_1 = require("mobx-state-tree");
+const mst_1 = require("@jbrowse/core/util/types/mst");
+const tracks_1 = require("@jbrowse/core/util/tracks");
+function isAbsoluteUrl(url = '') {
     try {
         new URL(url);
         return true;
@@ -20,7 +19,7 @@ function f(pluginManager) {
         type: mobx_state_tree_1.types.literal('AddTrackWidget'),
         view: mobx_state_tree_1.types.safeReference(pluginManager.pluggableMstType('view', 'stateModel')),
     })
-        .volatile(function () { return ({
+        .volatile(() => ({
         trackSource: 'fromFile',
         trackData: undefined,
         indexTrackData: undefined,
@@ -31,36 +30,36 @@ function f(pluginManager) {
         adapterHint: '',
         textIndexTrack: true,
         textIndexingConf: undefined,
-    }); })
-        .actions(function (self) { return ({
-        setAdapterHint: function (obj) {
+    }))
+        .actions(self => ({
+        setAdapterHint(obj) {
             self.adapterHint = obj;
         },
-        setTrackSource: function (str) {
+        setTrackSource(str) {
             self.trackSource = str;
         },
-        setTextIndexingConf: function (conf) {
+        setTextIndexingConf(conf) {
             self.textIndexingConf = conf;
         },
-        setTextIndexTrack: function (flag) {
+        setTextIndexTrack(flag) {
             self.textIndexTrack = flag;
         },
-        setTrackData: function (obj) {
+        setTrackData(obj) {
             self.trackData = obj;
         },
-        setIndexTrackData: function (obj) {
+        setIndexTrackData(obj) {
             self.indexTrackData = obj;
         },
-        setAssembly: function (str) {
+        setAssembly(str) {
             self.altAssemblyName = str;
         },
-        setTrackName: function (str) {
+        setTrackName(str) {
             self.altTrackName = str;
         },
-        setTrackType: function (str) {
+        setTrackType(str) {
             self.altTrackType = str;
         },
-        clearData: function () {
+        clearData() {
             self.trackSource = '';
             self.altTrackName = '';
             self.altTrackType = '';
@@ -71,10 +70,10 @@ function f(pluginManager) {
             self.textIndexingConf = undefined;
             self.textIndexTrack = true;
         },
-    }); })
-        .views(function (self) { return ({
+    }))
+        .views(self => ({
         get trackAdapter() {
-            var trackData = self.trackData, indexTrackData = self.indexTrackData, adapterHint = self.adapterHint;
+            const { trackData, indexTrackData, adapterHint } = self;
             return trackData
                 ? (0, tracks_1.guessAdapter)(trackData, indexTrackData, adapterHint, self)
                 : undefined;
@@ -85,7 +84,7 @@ function f(pluginManager) {
         },
         get isFtp() {
             var _a, _b;
-            var track = self.trackData, index = self.indexTrackData;
+            const { trackData: track, indexTrackData: index } = self;
             return !!(
             // @ts-ignore
             (((_a = index === null || index === void 0 ? void 0 : index.uri) === null || _a === void 0 ? void 0 : _a.startsWith('ftp://')) || ((_b = track === null || track === void 0 ? void 0 : track.uri) === null || _b === void 0 ? void 0 : _b.startsWith('ftp://'))));
@@ -93,13 +92,13 @@ function f(pluginManager) {
         get isRelativeTrackUrl() {
             var _a;
             // @ts-ignore
-            var uri = (_a = self.trackData) === null || _a === void 0 ? void 0 : _a.uri;
+            const uri = (_a = self.trackData) === null || _a === void 0 ? void 0 : _a.uri;
             return uri ? !isAbsoluteUrl(uri) : false;
         },
         get isRelativeIndexUrl() {
             var _a;
             // @ts-ignore
-            var uri = (_a = self.indexTrackData) === null || _a === void 0 ? void 0 : _a.uri;
+            const uri = (_a = self.indexTrackData) === null || _a === void 0 ? void 0 : _a.uri;
             return uri ? !isAbsoluteUrl(uri) : false;
         },
         get isRelativeUrl() {
@@ -133,21 +132,26 @@ function f(pluginManager) {
                     ? (0, tracks_1.guessTrackType)(this.trackAdapter.type, self)
                     : ''));
         },
-    }); })
-        .views(function (self) { return ({
+    }))
+        .views(self => ({
         get warningMessage() {
             if (self.isFtp) {
-                return "Warning: JBrowse cannot access files using the ftp protocol";
+                return `Warning: JBrowse cannot access files using the ftp protocol`;
             }
             else if (self.isRelativeUrl) {
-                return "Warning: one or more of your files do not provide the protocol e.g.\n          https://, please provide an absolute URL unless you are sure a\n          relative URL is intended.";
+                return `Warning: one or more of your files do not provide the protocol e.g.
+          https://, please provide an absolute URL unless you are sure a
+          relative URL is intended.`;
             }
             else if (self.wrongProtocol) {
-                return "Warning: You entered a http:// resources but we cannot access HTTP\n          resources from JBrowse when it is running on https. Please use an\n          https URL for your track, or access the JBrowse app from the http\n          protocol";
+                return `Warning: You entered a http:// resources but we cannot access HTTP
+          resources from JBrowse when it is running on https. Please use an
+          https URL for your track, or access the JBrowse app from the http
+          protocol`;
             }
             return '';
         },
-    }); });
+    }));
 }
 exports.default = f;
 //# sourceMappingURL=model.js.map

package/dist/AddTrackWidget/model.js.map

@@ -1 +1 @@
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package/dist/AssemblyManager/AssemblyAddForm.js

@@ -22,40 +22,24 @@ var __importStar = (this && this.__importStar) || function (mod) {
     __setModuleDefault(result, mod);
     return result;
 };
-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 __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var react_1 = __importStar(require("react"));
-var mobx_react_1 = require("mobx-react");
-var FileSelector_1 = __importDefault(require("@jbrowse/core/ui/FileSelector"));
-var material_1 = require("@mui/material");
-var mui_1 = require("tss-react/mui");
-var Add_1 = __importDefault(require("@mui/icons-material/Add"));
-var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
+const react_1 = __importStar(require("react"));
+const mobx_react_1 = require("mobx-react");
+const FileSelector_1 = __importDefault(require("@jbrowse/core/ui/FileSelector"));
+const material_1 = require("@mui/material");
+const mui_1 = require("tss-react/mui");
+const Add_1 = __importDefault(require("@mui/icons-material/Add"));
+const useStyles = (0, mui_1.makeStyles)()(theme => ({
     root: {
         flexGrow: 1,
         overflow: 'hidden',
         padding: theme.spacing(0, 3),
     },
     paper: {
-        margin: "".concat(theme.spacing(1), "px auto"),
+        margin: `${theme.spacing(1)}px auto`,
         padding: theme.spacing(2),
     },
     createButton: {
@@ -64,62 +48,59 @@ var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
     },
     paperContent: {
         flex: 'auto',
-        margin: "".concat(theme.spacing(1), "px auto"),
+        margin: `${theme.spacing(1)}px auto`,
         padding: theme.spacing(1),
         overflow: 'auto',
     },
-}); });
-var AdapterSelector = (0, mobx_react_1.observer)(function (_a) {
-    var adapterSelection = _a.adapterSelection, setAdapterSelection = _a.setAdapterSelection, adapterTypes = _a.adapterTypes;
-    return (react_1.default.createElement(material_1.TextField, { value: adapterSelection, label: "Type", select: true, helperText: "Type of adapter to use", fullWidth: true, onChange: function (event) {
+}));
+const AdapterSelector = (0, mobx_react_1.observer)(({ adapterSelection, setAdapterSelection, adapterTypes, }) => {
+    return (react_1.default.createElement(material_1.TextField, { value: adapterSelection, label: "Type", select: true, helperText: "Type of adapter to use", fullWidth: true, onChange: event => {
             setAdapterSelection(event.target.value);
-        } }, adapterTypes.map(function (str) { return (react_1.default.createElement(material_1.MenuItem, { key: str, value: str }, str)); })));
+        } }, adapterTypes.map(str => (react_1.default.createElement(material_1.MenuItem, { key: str, value: str }, str)))));
 });
-var AdapterInput = (0, mobx_react_1.observer)(function (_a) {
-    var adapterSelection = _a.adapterSelection, fastaLocation = _a.fastaLocation, setFastaLocation = _a.setFastaLocation, faiLocation = _a.faiLocation, setFaiLocation = _a.setFaiLocation, gziLocation = _a.gziLocation, setGziLocation = _a.setGziLocation, twoBitLocation = _a.twoBitLocation, setTwoBitLocation = _a.setTwoBitLocation, chromSizesLocation = _a.chromSizesLocation, setChromSizesLocation = _a.setChromSizesLocation;
+const AdapterInput = (0, mobx_react_1.observer)(({ adapterSelection, fastaLocation, setFastaLocation, faiLocation, setFaiLocation, gziLocation, setGziLocation, twoBitLocation, setTwoBitLocation, chromSizesLocation, setChromSizesLocation, }) => {
     if (adapterSelection === 'IndexedFastaAdapter' ||
         adapterSelection === 'BgzipFastaAdapter') {
         return (react_1.default.createElement(material_1.Grid, { container: true, spacing: 2 },
             react_1.default.createElement(material_1.Grid, { item: true },
-                react_1.default.createElement(FileSelector_1.default, { name: "fastaLocation", location: fastaLocation, setLocation: function (loc) { return setFastaLocation(loc); } })),
+                react_1.default.createElement(FileSelector_1.default, { name: "fastaLocation", location: fastaLocation, setLocation: loc => setFastaLocation(loc) })),
             react_1.default.createElement(material_1.Grid, { item: true },
-                react_1.default.createElement(FileSelector_1.default, { name: "faiLocation", location: faiLocation, setLocation: function (loc) { return setFaiLocation(loc); } })),
+                react_1.default.createElement(FileSelector_1.default, { name: "faiLocation", location: faiLocation, setLocation: loc => setFaiLocation(loc) })),
             adapterSelection === 'BgzipFastaAdapter' ? (react_1.default.createElement(material_1.Grid, { item: true },
-                react_1.default.createElement(FileSelector_1.default, { name: "gziLocation", location: gziLocation, setLocation: function (loc) { return setGziLocation(loc); } }))) : null));
+                react_1.default.createElement(FileSelector_1.default, { name: "gziLocation", location: gziLocation, setLocation: loc => setGziLocation(loc) }))) : null));
     }
     if (adapterSelection === 'TwoBitAdapter') {
         return (react_1.default.createElement(material_1.Grid, { container: true, spacing: 2 },
             react_1.default.createElement(material_1.Grid, { item: true },
-                react_1.default.createElement(FileSelector_1.default, { name: "twoBitLocation", location: twoBitLocation, setLocation: function (loc) { return setTwoBitLocation(loc); } })),
+                react_1.default.createElement(FileSelector_1.default, { name: "twoBitLocation", location: twoBitLocation, setLocation: loc => setTwoBitLocation(loc) })),
             react_1.default.createElement(material_1.Grid, { item: true },
-                react_1.default.createElement(FileSelector_1.default, { name: "chromSizesLocation (optional, can be added to speed up loading 2bit files with many contigs)", location: chromSizesLocation, setLocation: function (loc) { return setChromSizesLocation(loc); } }))));
+                react_1.default.createElement(FileSelector_1.default, { name: "chromSizesLocation (optional, can be added to speed up loading 2bit files with many contigs)", location: chromSizesLocation, setLocation: loc => setChromSizesLocation(loc) }))));
     }
     return null;
 });
-var blank = { uri: '' };
-var AssemblyAddForm = (0, mobx_react_1.observer)(function (_a) {
-    var rootModel = _a.rootModel, setFormOpen = _a.setFormOpen;
-    var classes = useStyles().classes;
-    var adapterTypes = [
+const blank = { uri: '' };
+const AssemblyAddForm = (0, mobx_react_1.observer)(({ rootModel, setFormOpen, }) => {
+    const { classes } = useStyles();
+    const adapterTypes = [
         'IndexedFastaAdapter',
         'BgzipFastaAdapter',
         'TwoBitAdapter',
     ];
-    var _b = __read((0, react_1.useState)(''), 2), assemblyName = _b[0], setAssemblyName = _b[1];
-    var _c = __read((0, react_1.useState)(''), 2), assemblyDisplayName = _c[0], setAssemblyDisplayName = _c[1];
-    var _d = __read((0, react_1.useState)(adapterTypes[0]), 2), adapterSelection = _d[0], setAdapterSelection = _d[1];
-    var _e = __read((0, react_1.useState)(blank), 2), fastaLocation = _e[0], setFastaLocation = _e[1];
-    var _f = __read((0, react_1.useState)(blank), 2), faiLocation = _f[0], setFaiLocation = _f[1];
-    var _g = __read((0, react_1.useState)(blank), 2), gziLocation = _g[0], setGziLocation = _g[1];
-    var _h = __read((0, react_1.useState)(blank), 2), twoBitLocation = _h[0], setTwoBitLocation = _h[1];
-    var _j = __read((0, react_1.useState)(blank), 2), chromSizesLocation = _j[0], setChromSizesLocation = _j[1];
+    const [assemblyName, setAssemblyName] = (0, react_1.useState)('');
+    const [assemblyDisplayName, setAssemblyDisplayName] = (0, react_1.useState)('');
+    const [adapterSelection, setAdapterSelection] = (0, react_1.useState)(adapterTypes[0]);
+    const [fastaLocation, setFastaLocation] = (0, react_1.useState)(blank);
+    const [faiLocation, setFaiLocation] = (0, react_1.useState)(blank);
+    const [gziLocation, setGziLocation] = (0, react_1.useState)(blank);
+    const [twoBitLocation, setTwoBitLocation] = (0, react_1.useState)(blank);
+    const [chromSizesLocation, setChromSizesLocation] = (0, react_1.useState)(blank);
     function createAssembly() {
         if (assemblyName === '') {
             rootModel.session.notify("Can't create an assembly without a name");
         }
         else {
             setFormOpen(false);
-            var newAssembly = void 0;
+            let newAssembly;
             if (adapterSelection === 'IndexedFastaAdapter') {
                 newAssembly = {
                     name: assemblyName,
@@ -127,8 +108,8 @@ var AssemblyAddForm = (0, mobx_react_1.observer)(function (_a) {
                     sequence: {
                         adapter: {
                             type: 'IndexedFastaAdapter',
-                            fastaLocation: fastaLocation,
-                            faiLocation: faiLocation,
+                            fastaLocation,
+                            faiLocation,
                         },
                     },
                 };
@@ -140,9 +121,9 @@ var AssemblyAddForm = (0, mobx_react_1.observer)(function (_a) {
                     sequence: {
                         adapter: {
                             type: 'BgzipFastaAdapter',
-                            fastaLocation: fastaLocation,
-                            faiLocation: faiLocation,
-                            gziLocation: gziLocation,
+                            fastaLocation,
+                            faiLocation,
+                            gziLocation,
                         },
                     },
                 };
@@ -154,20 +135,20 @@ var AssemblyAddForm = (0, mobx_react_1.observer)(function (_a) {
                     sequence: {
                         adapter: {
                             type: 'TwoBitAdapter',
-                            twoBitLocation: twoBitLocation,
-                            chromSizesLocation: chromSizesLocation,
+                            twoBitLocation,
+                            chromSizesLocation,
                         },
                     },
                 };
             }
             rootModel.jbrowse.addAssemblyConf(newAssembly);
-            rootModel.session.notify("Successfully added ".concat(assemblyName, " assembly to JBrowse 2"), 'success');
+            rootModel.session.notify(`Successfully added ${assemblyName} assembly to JBrowse 2`, 'success');
         }
     }
     return (react_1.default.createElement("div", { className: classes.root },
         react_1.default.createElement(material_1.Paper, { className: classes.paper },
-            react_1.default.createElement(material_1.TextField, { id: "assembly-name", inputProps: { 'data-testid': 'assembly-name' }, label: "Assembly name", helperText: "The assembly name e.g. hg38", variant: "outlined", value: assemblyName, onChange: function (event) { return setAssemblyName(event.target.value); } }),
-            react_1.default.createElement(material_1.TextField, { id: "assembly-name", inputProps: { 'data-testid': 'assembly-display-name' }, label: "Assembly display name", helperText: 'A human readable display name for the assembly e.g. "Homo sapiens (hg38)"', variant: "outlined", value: assemblyDisplayName, onChange: function (event) { return setAssemblyDisplayName(event.target.value); } }),
+            react_1.default.createElement(material_1.TextField, { id: "assembly-name", inputProps: { 'data-testid': 'assembly-name' }, label: "Assembly name", helperText: "The assembly name e.g. hg38", variant: "outlined", value: assemblyName, onChange: event => setAssemblyName(event.target.value) }),
+            react_1.default.createElement(material_1.TextField, { id: "assembly-name", inputProps: { 'data-testid': 'assembly-display-name' }, label: "Assembly display name", helperText: 'A human readable display name for the assembly e.g. "Homo sapiens (hg38)"', variant: "outlined", value: assemblyDisplayName, onChange: event => setAssemblyDisplayName(event.target.value) }),
             react_1.default.createElement(AdapterSelector, { adapterSelection: adapterSelection, setAdapterSelection: setAdapterSelection, adapterTypes: adapterTypes }),
             react_1.default.createElement("div", { className: classes.paperContent },
                 react_1.default.createElement(AdapterInput, { adapterSelection: adapterSelection, fastaLocation: fastaLocation, setFastaLocation: setFastaLocation, faiLocation: faiLocation, setFaiLocation: setFaiLocation, gziLocation: gziLocation, setGziLocation: setGziLocation, twoBitLocation: twoBitLocation, setTwoBitLocation: setTwoBitLocation, chromSizesLocation: chromSizesLocation, setChromSizesLocation: setChromSizesLocation }))),

package/dist/AssemblyManager/AssemblyAddForm.js.map

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package/dist/AssemblyManager/AssemblyEditor.js

@@ -3,11 +3,10 @@ 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 plugin_config_1 = require("@jbrowse/plugin-config");
-var AssemblyEditor = (0, mobx_react_1.observer)(function (_a) {
-    var assembly = _a.assembly;
+const react_1 = __importDefault(require("react"));
+const mobx_react_1 = require("mobx-react");
+const plugin_config_1 = require("@jbrowse/plugin-config");
+const AssemblyEditor = (0, mobx_react_1.observer)(({ assembly, }) => {
     return react_1.default.createElement(plugin_config_1.ConfigurationEditor, { model: { target: assembly } });
 });
 exports.default = AssemblyEditor;

package/dist/AssemblyManager/AssemblyEditor.js.map

@@ -1 +1 @@
-{"version":3,"file":"AssemblyEditor.js","sourceRoot":"","sources":["../../src/AssemblyManager/AssemblyEditor.tsx"],"names":[],"mappings":";;;;;AAAA,gDAAyB;AACzB,yCAAqC;AACrC,wDAA4D;AAE5D,IAAM,cAAc,GAAG,IAAA,qBAAQ,EAC7B,UAAC,EAKA;QAJC,QAAQ,cAAA;IAKR,OAAO,8BAAC,mCAAmB,IAAC,KAAK,EAAE,EAAE,MAAM,EAAE,QAAQ,EAAE,GAAI,CAAA;AAC7D,CAAC,CACF,CAAA;AAED,kBAAe,cAAc,CAAA"}
+{"version":3,"file":"AssemblyEditor.js","sourceRoot":"","sources":["../../src/AssemblyManager/AssemblyEditor.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AACrC,0DAA4D;AAE5D,MAAM,cAAc,GAAG,IAAA,qBAAQ,EAC7B,CAAC,EACC,QAAQ,GAIT,EAAE,EAAE;IACH,OAAO,8BAAC,mCAAmB,IAAC,KAAK,EAAE,EAAE,MAAM,EAAE,QAAQ,EAAE,GAAI,CAAA;AAC7D,CAAC,CACF,CAAA;AAED,kBAAe,cAAc,CAAA"}

package/dist/AssemblyManager/AssemblyManager.js

@@ -22,37 +22,21 @@ var __importStar = (this && this.__importStar) || function (mod) {
     __setModuleDefault(result, mod);
     return result;
 };
-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 __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var react_1 = __importStar(require("react"));
-var mobx_react_1 = require("mobx-react");
-var mui_1 = require("tss-react/mui");
-var material_1 = require("@mui/material");
-var ArrowBackIos_1 = __importDefault(require("@mui/icons-material/ArrowBackIos"));
-var Close_1 = __importDefault(require("@mui/icons-material/Close"));
-var Add_1 = __importDefault(require("@mui/icons-material/Add"));
-var AssemblyTable_1 = __importDefault(require("./AssemblyTable"));
-var AssemblyAddForm_1 = __importDefault(require("./AssemblyAddForm"));
-var AssemblyEditor_1 = __importDefault(require("./AssemblyEditor"));
-var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
+const react_1 = __importStar(require("react"));
+const mobx_react_1 = require("mobx-react");
+const mui_1 = require("tss-react/mui");
+const material_1 = require("@mui/material");
+const ArrowBackIos_1 = __importDefault(require("@mui/icons-material/ArrowBackIos"));
+const Close_1 = __importDefault(require("@mui/icons-material/Close"));
+const Add_1 = __importDefault(require("@mui/icons-material/Add"));
+const AssemblyTable_1 = __importDefault(require("./AssemblyTable"));
+const AssemblyAddForm_1 = __importDefault(require("./AssemblyAddForm"));
+const AssemblyEditor_1 = __importDefault(require("./AssemblyEditor"));
+const useStyles = (0, mui_1.makeStyles)()(theme => ({
     titleBox: {
         color: '#fff',
         backgroundColor: theme.palette.primary.main,
@@ -73,26 +57,25 @@ var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
         top: theme.spacing(1),
         color: theme.palette.grey[500],
     },
-}); });
-var AssemblyManager = (0, mobx_react_1.observer)(function (_a) {
-    var rootModel = _a.rootModel, onClose = _a.onClose;
-    var classes = useStyles().classes;
-    var _b = __read((0, react_1.useState)(false), 2), isFormOpen = _b[0], setFormOpen = _b[1];
-    var _c = __read((0, react_1.useState)(false), 2), isAssemblyBeingEdited = _c[0], setIsAssemblyBeingEdited = _c[1];
-    var _d = __read((0, react_1.useState)(), 2), assemblyBeingEdited = _d[0], setAssemblyBeingEdited = _d[1];
-    var showAssemblyTable = !isFormOpen && !isAssemblyBeingEdited;
-    return (react_1.default.createElement(material_1.Dialog, { open: true, onClose: function () { return onClose(false); } },
+}));
+const AssemblyManager = (0, mobx_react_1.observer)(({ rootModel, onClose, }) => {
+    const { classes } = useStyles();
+    const [isFormOpen, setFormOpen] = (0, react_1.useState)(false);
+    const [isAssemblyBeingEdited, setIsAssemblyBeingEdited] = (0, react_1.useState)(false);
+    const [assemblyBeingEdited, setAssemblyBeingEdited] = (0, react_1.useState)();
+    const showAssemblyTable = !isFormOpen && !isAssemblyBeingEdited;
+    return (react_1.default.createElement(material_1.Dialog, { open: true, onClose: () => onClose(false) },
         react_1.default.createElement(material_1.DialogTitle, { className: classes.titleBox },
             showAssemblyTable ? 'Assembly manager' : null,
             isFormOpen ? (react_1.default.createElement(react_1.default.Fragment, null,
-                react_1.default.createElement(material_1.IconButton, { "aria-label": "back", className: classes.backButton, onClick: function () { return setFormOpen(false); } },
+                react_1.default.createElement(material_1.IconButton, { "aria-label": "back", className: classes.backButton, onClick: () => setFormOpen(false) },
                     react_1.default.createElement(ArrowBackIos_1.default, null)),
                 "Add new assembly")) : null,
             isAssemblyBeingEdited ? (react_1.default.createElement(react_1.default.Fragment, null,
-                react_1.default.createElement(material_1.IconButton, { "aria-label": "back", className: classes.backButton, onClick: function () { return setIsAssemblyBeingEdited(false); } },
+                react_1.default.createElement(material_1.IconButton, { "aria-label": "back", className: classes.backButton, onClick: () => setIsAssemblyBeingEdited(false) },
                     react_1.default.createElement(ArrowBackIos_1.default, null)),
                 returnAssemblyName(assemblyBeingEdited))) : null,
-            react_1.default.createElement(material_1.IconButton, { "aria-label": "close", className: classes.closeButton, onClick: function () { return onClose(false); } },
+            react_1.default.createElement(material_1.IconButton, { "aria-label": "close", className: classes.closeButton, onClick: () => onClose(false) },
                 react_1.default.createElement(Close_1.default, null))),
         react_1.default.createElement(material_1.DialogContent, null,
             react_1.default.createElement("div", { className: classes.dialogContent },
@@ -100,8 +83,8 @@ var AssemblyManager = (0, mobx_react_1.observer)(function (_a) {
                 isAssemblyBeingEdited ? (react_1.default.createElement(AssemblyEditor_1.default, { assembly: assemblyBeingEdited })) : null,
                 isFormOpen ? (react_1.default.createElement(AssemblyAddForm_1.default, { rootModel: rootModel, setFormOpen: setFormOpen })) : null)),
         react_1.default.createElement(material_1.DialogActions, null, showAssemblyTable ? (react_1.default.createElement(react_1.default.Fragment, null,
-            react_1.default.createElement(material_1.Button, { color: "secondary", variant: "contained", onClick: function () { return onClose(false); } }, "Close"),
-            react_1.default.createElement(material_1.Button, { variant: "contained", color: "secondary", startIcon: react_1.default.createElement(Add_1.default, null), onClick: function () { return setFormOpen(true); } }, "Add new assembly"))) : null)));
+            react_1.default.createElement(material_1.Button, { color: "secondary", variant: "contained", onClick: () => onClose(false) }, "Close"),
+            react_1.default.createElement(material_1.Button, { variant: "contained", color: "secondary", startIcon: react_1.default.createElement(Add_1.default, null), onClick: () => setFormOpen(true) }, "Add new assembly"))) : null)));
 });
 // eslint-disable-next-line @typescript-eslint/no-explicit-any
 function returnAssemblyName(assembly) {

package/dist/AssemblyManager/AssemblyManager.js.map

@@ -1 +1 @@
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+{"version":3,"file":"AssemblyManager.js","sourceRoot":"","sources":["../../src/AssemblyManager/AssemblyManager.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AACvC,2CAAqC;AACrC,uCAA0C;AAE1C,4CAOsB;AACtB,oFAA+D;AAC/D,sEAAiD;AACjD,kEAA6C;AAE7C,oEAA2C;AAC3C,wEAA+C;AAC/C,sEAA6C;AAE7C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,QAAQ,EAAE;QACR,KAAK,EAAE,MAAM;QACb,eAAe,EAAE,KAAK,CAAC,OAAO,CAAC,OAAO,CAAC,IAAI;QAC3C,SAAS,EAAE,QAAQ;KACpB;IACD,aAAa,EAAE;QACb,KAAK,EAAE,MAAM;KACd;IACD,UAAU,EAAE;QACV,KAAK,EAAE,MAAM;QACb,QAAQ,EAAE,UAAU;QACpB,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACtB,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KACtB;IACD,WAAW,EAAE;QACX,QAAQ,EAAE,UAAU;QACpB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACvB,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACrB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,GAAG,CAAC;KAC/B;CACF,CAAC,CAAC,CAAA;AAEH,MAAM,eAAe,GAAG,IAAA,qBAAQ,EAC9B,CAAC,EACC,SAAS,EACT,OAAO,GAKR,EAAE,EAAE;IACH,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,CAAC,UAAU,EAAE,WAAW,CAAC,GAAG,IAAA,gBAAQ,EAAC,KAAK,CAAC,CAAA;IACjD,MAAM,CAAC,qBAAqB,EAAE,wBAAwB,CAAC,GAAG,IAAA,gBAAQ,EAAC,KAAK,CAAC,CAAA;IACzE,MAAM,CAAC,mBAAmB,EAAE,sBAAsB,CAAC,GACjD,IAAA,gBAAQ,GAAyB,CAAA;IAEnC,MAAM,iBAAiB,GAAG,CAAC,UAAU,IAAI,CAAC,qBAAqB,CAAA;IAE/D,OAAO,CACL,8BAAC,iBAAM,IAAC,IAAI,QAAC,OAAO,EAAE,GAAG,EAAE,CAAC,OAAO,CAAC,KAAK,CAAC;QACxC,8BAAC,sBAAW,IAAC,SAAS,EAAE,OAAO,CAAC,QAAQ;YACrC,iBAAiB,CAAC,CAAC,CAAC,kBAAkB,CAAC,CAAC,CAAC,IAAI;YAC7C,UAAU,CAAC,CAAC,CAAC,CACZ;gBACE,8BAAC,qBAAU,kBACE,MAAM,EACjB,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,CAAC,KAAK,CAAC;oBAEjC,8BAAC,sBAAgB,OAAG,CACT;mCAEZ,CACJ,CAAC,CAAC,CAAC,IAAI;YACP,qBAAqB,CAAC,CAAC,CAAC,CACvB;gBACE,8BAAC,qBAAU,kBACE,MAAM,EACjB,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,OAAO,EAAE,GAAG,EAAE,CAAC,wBAAwB,CAAC,KAAK,CAAC;oBAE9C,8BAAC,sBAAgB,OAAG,CACT;gBACZ,kBAAkB,CAAC,mBAAmB,CAAC,CACvC,CACJ,CAAC,CAAC,CAAC,IAAI;YACR,8BAAC,qBAAU,kBACE,OAAO,EAClB,SAAS,EAAE,OAAO,CAAC,WAAW,EAC9B,OAAO,EAAE,GAAG,EAAE,CAAC,OAAO,CAAC,KAAK,CAAC;gBAE7B,8BAAC,eAAS,OAAG,CACF,CACD;QACd,8BAAC,wBAAa;YACZ,uCAAK,SAAS,EAAE,OAAO,CAAC,aAAa;gBAClC,iBAAiB,CAAC,CAAC,CAAC,CACnB,8BAAC,uBAAa,IACZ,SAAS,EAAE,SAAS,EACpB,wBAAwB,EAAE,wBAAwB,EAClD,sBAAsB,EAAE,sBAAsB,GAC9C,CACH,CAAC,CAAC,CAAC,IAAI;gBACP,qBAAqB,CAAC,CAAC,CAAC,CACvB,8BAAC,wBAAc,IAAC,QAAQ,EAAE,mBAAmB,GAAI,CAClD,CAAC,CAAC,CAAC,IAAI;gBACP,UAAU,CAAC,CAAC,CAAC,CACZ,8BAAC,yBAAe,IACd,SAAS,EAAE,SAAS,EACpB,WAAW,EAAE,WAAW,GACxB,CACH,CAAC,CAAC,CAAC,IAAI,CACJ,CACQ;QAChB,8BAAC,wBAAa,QACX,iBAAiB,CAAC,CAAC,CAAC,CACnB;YACE,8BAAC,iBAAM,IACL,KAAK,EAAC,WAAW,EACjB,OAAO,EAAC,WAAW,EACnB,OAAO,EAAE,GAAG,EAAE,CAAC,OAAO,CAAC,KAAK,CAAC,YAGtB;YACT,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,WAAW,EACjB,SAAS,EAAE,8BAAC,aAAO,OAAG,EACtB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,CAAC,IAAI,CAAC,uBAGzB,CACR,CACJ,CAAC,CAAC,CAAC,IAAI,CACM,CACT,CACV,CAAA;AACH,CAAC,CACF,CAAA;AAED,8DAA8D;AAC9D,SAAS,kBAAkB,CAAC,QAAa;IACvC,IAAI,QAAQ,KAAK,SAAS,EAAE;QAC1B,OAAO,QAAQ,CAAC,IAAI,CAAA;KACrB;IACD,OAAO,IAAI,CAAA;AACb,CAAC;AAED,kBAAe,eAAe,CAAA"}

package/dist/AssemblyManager/AssemblyTable.js

@@ -3,14 +3,14 @@ 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");
-var mui_1 = require("tss-react/mui");
-var Create_1 = __importDefault(require("@mui/icons-material/Create"));
-var Delete_1 = __importDefault(require("@mui/icons-material/Delete"));
-var configuration_1 = require("@jbrowse/core/configuration");
-var useStyles = (0, mui_1.makeStyles)()(function () { return ({
+const react_1 = __importDefault(require("react"));
+const mobx_react_1 = require("mobx-react");
+const material_1 = require("@mui/material");
+const mui_1 = require("tss-react/mui");
+const Create_1 = __importDefault(require("@mui/icons-material/Create"));
+const Delete_1 = __importDefault(require("@mui/icons-material/Delete"));
+const configuration_1 = require("@jbrowse/core/configuration");
+const useStyles = (0, mui_1.makeStyles)()(() => ({
     table: {
         minWidth: 500,
         minHeight: 150,
@@ -24,28 +24,27 @@ var useStyles = (0, mui_1.makeStyles)()(function () { return ({
         minHeight: 0,
         minWidth: 0,
     },
-}); });
-var AssemblyTable = (0, mobx_react_1.observer)(function (_a) {
-    var rootModel = _a.rootModel, setIsAssemblyBeingEdited = _a.setIsAssemblyBeingEdited, setAssemblyBeingEdited = _a.setAssemblyBeingEdited;
-    var classes = useStyles().classes;
+}));
+const AssemblyTable = (0, mobx_react_1.observer)(({ rootModel, setIsAssemblyBeingEdited, setAssemblyBeingEdited, }) => {
+    const { classes } = useStyles();
     function removeAssembly(name) {
         rootModel.jbrowse.removeAssemblyConf(name);
     }
-    var rows = rootModel.jbrowse.assemblies.map(function (assembly) {
-        var name = (0, configuration_1.readConfObject)(assembly, 'name');
-        var displayName = (0, configuration_1.readConfObject)(assembly, 'displayName');
-        var aliases = (0, configuration_1.readConfObject)(assembly, 'aliases');
+    const rows = rootModel.jbrowse.assemblies.map(assembly => {
+        const name = (0, configuration_1.readConfObject)(assembly, 'name');
+        const displayName = (0, configuration_1.readConfObject)(assembly, 'displayName');
+        const aliases = (0, configuration_1.readConfObject)(assembly, 'aliases');
         return (react_1.default.createElement(material_1.TableRow, { key: name },
             react_1.default.createElement(material_1.TableCell, null, name),
             react_1.default.createElement(material_1.TableCell, null, displayName),
             react_1.default.createElement(material_1.TableCell, null, aliases ? aliases.toString() : ''),
             react_1.default.createElement(material_1.TableCell, { className: classes.buttonCell },
-                react_1.default.createElement(material_1.IconButton, { "data-testid": "".concat(name, "-edit"), className: classes.button, onClick: function () {
+                react_1.default.createElement(material_1.IconButton, { "data-testid": `${name}-edit`, className: classes.button, onClick: () => {
                         setIsAssemblyBeingEdited(true);
                         setAssemblyBeingEdited(assembly);
                     } },
                     react_1.default.createElement(Create_1.default, { color: "primary" })),
-                react_1.default.createElement(material_1.IconButton, { "data-testid": "".concat(name, "-delete"), className: classes.button, onClick: function () {
+                react_1.default.createElement(material_1.IconButton, { "data-testid": `${name}-delete`, className: classes.button, onClick: () => {
                         removeAssembly(name);
                     } },
                     react_1.default.createElement(Delete_1.default, { color: "error" })))));

package/dist/AssemblyManager/AssemblyTable.js.map

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