@jbrowse/plugin-data-management 1.7.11 → 2.1.0

package/dist/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js.map

@@ -0,0 +1 @@
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package/dist/HierarchicalTrackSelectorWidget/components/ManageConnectionsDialog.js

@@ -1,80 +1,51 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = void 0;
-
-var _react = _interopRequireDefault(require("react"));
-
-var _core = require("@material-ui/core");
-
-var _Close = _interopRequireDefault(require("@material-ui/icons/Close"));
-
-var _mobxReact = require("mobx-react");
-
-var _configuration = require("@jbrowse/core/configuration");
-
-var useStyles = (0, _core.makeStyles)(function (theme) {
-  return {
+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 material_1 = require("@mui/material");
+var mui_1 = require("tss-react/mui");
+var Close_1 = __importDefault(require("@mui/icons-material/Close"));
+var mobx_react_1 = require("mobx-react");
+var configuration_1 = require("@jbrowse/core/configuration");
+var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
     closeButton: {
-      position: 'absolute',
-      right: theme.spacing(1),
-      top: theme.spacing(1),
-      color: theme.palette.grey[500]
+        position: 'absolute',
+        right: theme.spacing(1),
+        top: theme.spacing(1),
+        color: theme.palette.grey[500],
     },
     connectionContainer: {
-      margin: theme.spacing(4),
-      width: 500
-    }
-  };
-});
-
-function ManageConnectionsDlg(_ref) {
-  var session = _ref.session,
-      handleClose = _ref.handleClose,
-      breakConnection = _ref.breakConnection;
-  var classes = useStyles();
-  var adminMode = session.adminMode,
-      connections = session.connections,
-      sessionConnections = session.sessionConnections;
-  return /*#__PURE__*/_react.default.createElement(_core.Dialog, {
-    open: true,
-    onClose: handleClose,
-    maxWidth: "lg"
-  }, /*#__PURE__*/_react.default.createElement(_core.DialogTitle, null, "Delete connections", /*#__PURE__*/_react.default.createElement(_core.IconButton, {
-    className: classes.closeButton,
-    onClick: function onClick() {
-      return handleClose();
-    }
-  }, /*#__PURE__*/_react.default.createElement(_Close.default, null))), /*#__PURE__*/_react.default.createElement(_core.DialogContent, null, /*#__PURE__*/_react.default.createElement(_core.Typography, null, "Click the X icon to delete the connection from your config completely"), /*#__PURE__*/_react.default.createElement("div", {
-    className: classes.connectionContainer
-  }, connections.map(function (conf) {
-    var name = (0, _configuration.readConfObject)(conf, 'name');
-    return /*#__PURE__*/_react.default.createElement("div", {
-      key: "conn-".concat(name)
-    }, /*#__PURE__*/_react.default.createElement(_core.Typography, null, adminMode || sessionConnections !== null && sessionConnections !== void 0 && sessionConnections.includes(conf) ? /*#__PURE__*/_react.default.createElement(_core.IconButton, {
-      onClick: function onClick() {
-        return breakConnection(conf, true);
-      }
-    }, /*#__PURE__*/_react.default.createElement(_Close.default, {
-      color: "error"
-    })) : /*#__PURE__*/_react.default.createElement(_core.Tooltip, {
-      title: "Unable to delete connection in config file as non-admin user"
-    }, /*#__PURE__*/_react.default.createElement(_core.IconButton, null, /*#__PURE__*/_react.default.createElement(_Close.default, {
-      color: "disabled"
-    }))), name));
-  }), !connections.length ? /*#__PURE__*/_react.default.createElement(_core.Typography, null, "No connections found") : null)), /*#__PURE__*/_react.default.createElement(_core.DialogActions, null, /*#__PURE__*/_react.default.createElement(_core.Button, {
-    onClick: function onClick() {
-      return handleClose();
+        margin: theme.spacing(4),
+        width: 500,
     },
-    variant: "contained",
-    color: "primary"
-  }, "Close")));
+}); });
+function ManageConnectionsDlg(_a) {
+    var session = _a.session, handleClose = _a.handleClose, breakConnection = _a.breakConnection;
+    var classes = useStyles().classes;
+    var adminMode = session.adminMode, connections = session.connections, sessionConnections = session.sessionConnections;
+    return (react_1.default.createElement(material_1.Dialog, { open: true, onClose: handleClose, maxWidth: "lg" },
+        react_1.default.createElement(material_1.DialogTitle, null,
+            "Delete connections",
+            react_1.default.createElement(material_1.IconButton, { className: classes.closeButton, onClick: function () { return handleClose(); } },
+                react_1.default.createElement(Close_1.default, null))),
+        react_1.default.createElement(material_1.DialogContent, null,
+            react_1.default.createElement(material_1.Typography, null, "Click the X icon to delete the connection from your config completely"),
+            react_1.default.createElement("div", { className: classes.connectionContainer },
+                connections.map(function (conf) {
+                    var name = (0, configuration_1.readConfObject)(conf, 'name');
+                    return (react_1.default.createElement("div", { key: "conn-".concat(name) },
+                        react_1.default.createElement(material_1.Typography, null,
+                            adminMode || (sessionConnections === null || sessionConnections === void 0 ? void 0 : sessionConnections.includes(conf)) ? (react_1.default.createElement(material_1.IconButton, { onClick: function () { return breakConnection(conf, true); } },
+                                react_1.default.createElement(Close_1.default, { color: "error" }))) : (react_1.default.createElement(material_1.Tooltip, { title: "Unable to delete connection in config file as non-admin user" },
+                                react_1.default.createElement(material_1.IconButton, null,
+                                    react_1.default.createElement(Close_1.default, { color: "disabled" })))),
+                            name)));
+                }),
+                !connections.length ? (react_1.default.createElement(material_1.Typography, null, "No connections found")) : null)),
+        react_1.default.createElement(material_1.DialogActions, null,
+            react_1.default.createElement(material_1.Button, { onClick: function () { return handleClose(); }, variant: "contained", color: "primary" }, "Close"))));
 }
-
-var _default = (0, _mobxReact.observer)(ManageConnectionsDlg);
-
-exports.default = _default;
+exports.default = (0, mobx_react_1.observer)(ManageConnectionsDlg);
+//# sourceMappingURL=ManageConnectionsDialog.js.map

package/dist/HierarchicalTrackSelectorWidget/components/ManageConnectionsDialog.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"ManageConnectionsDialog.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/ManageConnectionsDialog.tsx"],"names":[],"mappings":";;;;;AAAA,gDAAyB;AACzB,0CASsB;AACtB,qCAA0C;AAC1C,oEAAiD;AACjD,yCAAqC;AACrC,6DAGoC;AAGpC,IAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,UAAA,KAAK,IAAI,OAAA,CAAC;IACvC,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;IAED,mBAAmB,EAAE;QACnB,MAAM,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACxB,KAAK,EAAE,GAAG;KACX;CACF,CAAC,EAZsC,CAYtC,CAAC,CAAA;AAEH,SAAS,oBAAoB,CAAC,EAQ7B;QAPC,OAAO,aAAA,EACP,WAAW,iBAAA,EACX,eAAe,qBAAA;IAMP,IAAA,OAAO,GAAK,SAAS,EAAE,QAAhB,CAAgB;IACvB,IAAA,SAAS,GAAsC,OAAO,UAA7C,EAAE,WAAW,GAAyB,OAAO,YAAhC,EAAE,kBAAkB,GAAK,OAAO,mBAAZ,CAAY;IAC9D,OAAO,CACL,8BAAC,iBAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,QAAQ,EAAC,IAAI;QAC9C,8BAAC,sBAAW;;YAEV,8BAAC,qBAAU,IACT,SAAS,EAAE,OAAO,CAAC,WAAW,EAC9B,OAAO,EAAE,cAAM,OAAA,WAAW,EAAE,EAAb,CAAa;gBAE5B,8BAAC,eAAS,OAAG,CACF,CACD;QACd,8BAAC,wBAAa;YACZ,8BAAC,qBAAU,gFAEE;YACb,uCAAK,SAAS,EAAE,OAAO,CAAC,mBAAmB;gBACxC,WAAW,CAAC,GAAG,CAAC,UAAA,IAAI;oBACnB,IAAM,IAAI,GAAG,IAAA,8BAAc,EAAC,IAAI,EAAE,MAAM,CAAC,CAAA;oBACzC,OAAO,CACL,uCAAK,GAAG,EAAE,eAAQ,IAAI,CAAE;wBACtB,8BAAC,qBAAU;4BACR,SAAS,KAAI,kBAAkB,aAAlB,kBAAkB,uBAAlB,kBAAkB,CAAE,QAAQ,CAAC,IAAI,CAAC,CAAA,CAAC,CAAC,CAAC,CACjD,8BAAC,qBAAU,IAAC,OAAO,EAAE,cAAM,OAAA,eAAe,CAAC,IAAI,EAAE,IAAI,CAAC,EAA3B,CAA2B;gCACpD,8BAAC,eAAS,IAAC,KAAK,EAAC,OAAO,GAAG,CAChB,CACd,CAAC,CAAC,CAAC,CACF,8BAAC,kBAAO,IAAC,KAAK,EAAC,8DAA8D;gCAC3E,8BAAC,qBAAU;oCACT,8BAAC,eAAS,IAAC,KAAK,EAAC,UAAU,GAAG,CACnB,CACL,CACX;4BACA,IAAI,CACM,CACT,CACP,CAAA;gBACH,CAAC,CAAC;gBACD,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,CAAC,CACrB,8BAAC,qBAAU,+BAAkC,CAC9C,CAAC,CAAC,CAAC,IAAI,CACJ,CACQ;QAChB,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IACL,OAAO,EAAE,cAAM,OAAA,WAAW,EAAE,EAAb,CAAa,EAC5B,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,YAGR,CACK,CACT,CACV,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,oBAAoB,CAAC,CAAA"}

package/dist/HierarchicalTrackSelectorWidget/components/Node.d.ts

@@ -0,0 +1,29 @@
+/// <reference types="react" />
+import { HierarchicalTrackSelectorModel, TreeNode } from '../model';
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+export interface InfoArgs {
+    target: HTMLElement;
+    id: string;
+    conf: AnyConfigurationModel;
+}
+export default function Node(props: {
+    data: {
+        nestingLevel: number;
+        checked: boolean;
+        conf: AnyConfigurationModel;
+        drawerPosition: unknown;
+        id: string;
+        isLeaf: boolean;
+        name: string;
+        onChange: Function;
+        toggleCollapse: (arg: string) => void;
+        tree: TreeNode;
+        selected: boolean;
+        model: HierarchicalTrackSelectorModel;
+    };
+    isOpen: boolean;
+    style?: {
+        height: number;
+    };
+    setOpen: (arg: boolean) => void;
+}): JSX.Element;

package/dist/HierarchicalTrackSelectorWidget/components/Node.js

@@ -0,0 +1,207 @@
+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || function (mod) {
+    if (mod && mod.__esModule) return mod;
+    var result = {};
+    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
+    __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 __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 react_1 = __importStar(require("react"));
+var material_1 = require("@mui/material");
+var mui_1 = require("tss-react/mui");
+// icons
+var ArrowDropDown_1 = __importDefault(require("@mui/icons-material/ArrowDropDown"));
+var ArrowRight_1 = __importDefault(require("@mui/icons-material/ArrowRight"));
+var MoreHoriz_1 = __importDefault(require("@mui/icons-material/MoreHoriz"));
+var Menu_1 = __importDefault(require("@jbrowse/core/ui/Menu"));
+var util_1 = require("@jbrowse/core/util");
+var configuration_1 = require("@jbrowse/core/configuration");
+var util_2 = require("./util");
+var useStyles = (0, mui_1.makeStyles)()(function (theme) {
+    var _a, _b;
+    return ({
+        compactCheckbox: {
+            padding: 0,
+        },
+        checkboxLabel: {
+            marginRight: 0,
+            '&:hover': {
+                backgroundColor: '#eee',
+            },
+        },
+        contrastColor: {
+            color: theme.palette.secondary.contrastText,
+        },
+        // this accordionBase element's small padding is used to give a margin to
+        // accordionColor it a "margin" because the virtualized elements can't really
+        // use margin in a conventional way (it doesn't affect layout)
+        accordionBase: {
+            display: 'flex',
+        },
+        accordionCard: {
+            padding: 3,
+            cursor: 'pointer',
+            display: 'flex',
+        },
+        nestingLevelMarker: {
+            position: 'absolute',
+            borderLeft: '1.5px solid #555',
+        },
+        // accordionColor set's display:flex so that the child accordionText use
+        // vertically centered text
+        accordionColor: {
+            // @ts-ignore
+            background: (_a = theme.palette.tertiary) === null || _a === void 0 ? void 0 : _a.main,
+            // @ts-ignore
+            color: (_b = theme.palette.tertiary) === null || _b === void 0 ? void 0 : _b.contrastText,
+            width: '100%',
+            display: 'flex',
+            paddingLeft: 5,
+        },
+        // margin:auto 0 to center text vertically
+        accordionText: {
+            margin: 'auto 0',
+        },
+    });
+});
+function treeToMap(tree, map) {
+    if (map === void 0) { map = new Map(); }
+    if (tree.id && tree.children.length) {
+        map.set(tree.id, tree);
+    }
+    for (var i = 0; i < tree.children.length; i++) {
+        var node = tree.children[i];
+        treeToMap(node, map);
+    }
+    return map;
+}
+function isUnsupported(name) {
+    if (name === void 0) { name = ''; }
+    return name.endsWith('(Unsupported)') || name.endsWith('(Unknown)');
+}
+// An individual node in the track selector. Note: manually sets cursor:
+// pointer improves usability for what can be clicked
+function Node(props) {
+    var _a, _b;
+    var data = props.data, isOpen = props.isOpen, style = props.style, setOpen = props.setOpen;
+    var checked = data.checked, conf = data.conf, drawerPosition = data.drawerPosition, id = data.id, isLeaf = data.isLeaf, model = data.model, name = data.name, nestingLevel = data.nestingLevel, onChange = data.onChange, selected = data.selected, toggleCollapse = data.toggleCollapse, tree = data.tree;
+    var classes = useStyles().classes;
+    var width = 10;
+    var _c = __read((0, react_1.useState)(null), 2), menuEl = _c[0], setMenuEl = _c[1];
+    var _d = __read((0, react_1.useState)(), 2), info = _d[0], setInfo = _d[1];
+    var marginLeft = nestingLevel * width + (isLeaf ? width : 0);
+    var description = (conf && (0, configuration_1.readConfObject)(conf, ['description'])) || '';
+    return (react_1.default.createElement("div", { style: style, className: !isLeaf ? classes.accordionBase : undefined },
+        new Array(nestingLevel).fill(0).map(function (_, idx) { return (react_1.default.createElement("div", { key: "mark-".concat(idx), style: { left: idx * width + 4, height: style === null || style === void 0 ? void 0 : style.height }, className: classes.nestingLevelMarker })); }),
+        react_1.default.createElement("div", { className: !isLeaf ? classes.accordionCard : undefined, onClick: function () {
+                if (!menuEl) {
+                    toggleCollapse(id);
+                    setOpen(!isOpen);
+                }
+            }, style: {
+                marginLeft: marginLeft,
+                whiteSpace: 'nowrap',
+                width: '100%',
+            } },
+            react_1.default.createElement("div", { className: !isLeaf ? classes.accordionColor : undefined },
+                !isLeaf ? (react_1.default.createElement("div", { className: classes.accordionText },
+                    react_1.default.createElement(material_1.Typography, null,
+                        isOpen ? react_1.default.createElement(ArrowDropDown_1.default, null) : react_1.default.createElement(ArrowRight_1.default, null),
+                        name,
+                        react_1.default.createElement(material_1.IconButton, { onClick: function (event) {
+                                setMenuEl(event.currentTarget);
+                                event.stopPropagation();
+                            }, className: classes.contrastColor },
+                            react_1.default.createElement(MoreHoriz_1.default, null))))) : (react_1.default.createElement(react_1.default.Fragment, null,
+                    react_1.default.createElement(material_1.Tooltip, { title: description + (selected ? ' (in selection)' : ''), placement: drawerPosition === 'left' ? 'right' : 'left' },
+                        react_1.default.createElement(material_1.FormControlLabel, { className: classes.checkboxLabel, control: react_1.default.createElement(material_1.Checkbox, { className: classes.compactCheckbox, checked: checked, onChange: function () { return onChange(id); }, disabled: isUnsupported(name), inputProps: {
+                                    // @ts-ignore
+                                    'data-testid': "htsTrackEntry-".concat(id),
+                                } }), label: react_1.default.createElement("div", { style: {
+                                    background: selected ? '#cccc' : undefined,
+                                    padding: 1,
+                                } }, name) })),
+                    react_1.default.createElement(material_1.IconButton, { onClick: function (e) { return setInfo({ target: e.currentTarget, id: id, conf: conf }); }, style: { padding: 0 }, color: "secondary", "data-testid": "htsTrackEntryMenu-".concat(id) },
+                        react_1.default.createElement(MoreHoriz_1.default, null)))),
+                menuEl ? (react_1.default.createElement(Menu_1.default, { anchorEl: menuEl, menuItems: [
+                        {
+                            label: 'Add to selection',
+                            onClick: function () {
+                                return model.addToSelection((0, util_2.getAllChildren)(treeToMap(tree).get(id)));
+                            },
+                        },
+                        {
+                            label: 'Remove from selection',
+                            onClick: function () {
+                                return model.removeFromSelection((0, util_2.getAllChildren)(treeToMap(tree).get(id)));
+                            },
+                        },
+                    ], onMenuItemClick: function (_event, callback) {
+                        callback();
+                        setMenuEl(null);
+                    }, open: Boolean(menuEl), onClose: function () { return setMenuEl(null); } })) : null,
+                info ? (react_1.default.createElement(Menu_1.default, { anchorEl: info === null || info === void 0 ? void 0 : info.target, menuItems: __spreadArray(__spreadArray(__spreadArray([], __read((((_b = (_a = (0, util_1.getSession)(model)).getTrackActionMenuItems) === null || _b === void 0 ? void 0 : _b.call(_a, info.conf)) ||
+                        [])), false), [
+                        {
+                            label: 'Add to selection',
+                            onClick: function () { return model.addToSelection([info.conf]); },
+                        }
+                    ], false), __read((selected
+                        ? [
+                            {
+                                label: 'Remove from selection',
+                                onClick: function () { return model.removeFromSelection([info.conf]); },
+                            },
+                        ]
+                        : [])), false), onMenuItemClick: function (_event, callback) {
+                        callback();
+                        setInfo(undefined);
+                    }, open: Boolean(info), onClose: function () { return setInfo(undefined); } })) : null))));
+}
+exports.default = Node;
+//# sourceMappingURL=Node.js.map

package/dist/HierarchicalTrackSelectorWidget/components/Node.js.map

@@ -0,0 +1 @@
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package/dist/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.js

@@ -1,97 +1,63 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = void 0;
-
-var _react = _interopRequireDefault(require("react"));
-
-var _core = require("@material-ui/core");
-
-var _Close = _interopRequireDefault(require("@material-ui/icons/Close"));
-
-var _mobxReact = require("mobx-react");
-
-var _configuration = require("@jbrowse/core/configuration");
-
-var useStyles = (0, _core.makeStyles)(function (theme) {
-  return {
+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 material_1 = require("@mui/material");
+var mui_1 = require("tss-react/mui");
+var Close_1 = __importDefault(require("@mui/icons-material/Close"));
+var mobx_react_1 = require("mobx-react");
+var configuration_1 = require("@jbrowse/core/configuration");
+var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
     closeButton: {
-      position: 'absolute',
-      right: theme.spacing(1),
-      top: theme.spacing(1),
-      color: theme.palette.grey[500]
+        position: 'absolute',
+        right: theme.spacing(1),
+        top: theme.spacing(1),
+        color: theme.palette.grey[500],
     },
     connectionContainer: {
-      width: 500,
-      margin: theme.spacing(4)
-    }
-  };
-});
-
-function ToggleConnectionDialog(_ref) {
-  var session = _ref.session,
-      handleClose = _ref.handleClose,
-      assemblyName = _ref.assemblyName,
-      breakConnection = _ref.breakConnection;
-  var classes = useStyles();
-  var connections = session.connections,
-      _session$connectionIn = session.connectionInstances,
-      instances = _session$connectionIn === void 0 ? [] : _session$connectionIn;
-  var assemblySpecificConnections = connections.filter(function (c) {
-    var configAssemblyNames = (0, _configuration.readConfObject)(c, 'assemblyNames');
-
-    if (configAssemblyNames.length === 0) {
-      return true;
-    }
-
-    return configAssemblyNames.includes(assemblyName);
-  });
-  return /*#__PURE__*/_react.default.createElement(_core.Dialog, {
-    open: true,
-    onClose: handleClose,
-    maxWidth: "lg"
-  }, /*#__PURE__*/_react.default.createElement(_core.DialogTitle, null, "Turn on/off connections", /*#__PURE__*/_react.default.createElement(_core.IconButton, {
-    className: classes.closeButton,
-    onClick: function onClick() {
-      return handleClose();
-    }
-  }, /*#__PURE__*/_react.default.createElement(_Close.default, null))), /*#__PURE__*/_react.default.createElement(_core.DialogContent, null, /*#__PURE__*/_react.default.createElement(_core.Typography, null, "Use the checkbox to turn on/off connections"), /*#__PURE__*/_react.default.createElement("div", {
-    className: classes.connectionContainer
-  }, assemblySpecificConnections.map(function (conf) {
-    var name = (0, _configuration.readConfObject)(conf, 'name');
-    var found = instances.find(function (conn) {
-      return name === conn.name;
-    });
-    return /*#__PURE__*/_react.default.createElement(_core.FormControlLabel, {
-      key: conf.connectionId,
-      control: /*#__PURE__*/_react.default.createElement(_core.Checkbox, {
-        checked: !!found,
-        onChange: function onChange() {
-          if (found) {
-            breakConnection(conf);
-          } else {
-            var _session$makeConnecti;
-
-            (_session$makeConnecti = session.makeConnection) === null || _session$makeConnecti === void 0 ? void 0 : _session$makeConnecti.call(session, conf);
-          }
-        },
-        color: "primary"
-      }),
-      label: name
-    });
-  }), !assemblySpecificConnections.length ? /*#__PURE__*/_react.default.createElement(_core.Typography, null, "No connections found for ", assemblyName) : null)), /*#__PURE__*/_react.default.createElement(_core.DialogActions, null, /*#__PURE__*/_react.default.createElement(_core.Button, {
-    onClick: function onClick() {
-      return handleClose();
+        width: 500,
+        margin: theme.spacing(4),
     },
-    variant: "contained",
-    color: "primary"
-  }, "Close")));
+}); });
+function ToggleConnectionDialog(_a) {
+    var session = _a.session, handleClose = _a.handleClose, assemblyName = _a.assemblyName, breakConnection = _a.breakConnection;
+    var classes = useStyles().classes;
+    var connections = session.connections, _b = session.connectionInstances, instances = _b === void 0 ? [] : _b;
+    var assemblySpecificConnections = connections.filter(function (c) {
+        var configAssemblyNames = (0, configuration_1.readConfObject)(c, 'assemblyNames');
+        if (configAssemblyNames.length === 0) {
+            return true;
+        }
+        return configAssemblyNames.includes(assemblyName);
+    });
+    return (react_1.default.createElement(material_1.Dialog, { open: true, onClose: handleClose, maxWidth: "lg" },
+        react_1.default.createElement(material_1.DialogTitle, null,
+            "Turn on/off connections",
+            react_1.default.createElement(material_1.IconButton, { className: classes.closeButton, onClick: function () { return handleClose(); } },
+                react_1.default.createElement(Close_1.default, null))),
+        react_1.default.createElement(material_1.DialogContent, null,
+            react_1.default.createElement(material_1.Typography, null, "Use the checkbox to turn on/off connections"),
+            react_1.default.createElement("div", { className: classes.connectionContainer },
+                assemblySpecificConnections.map(function (conf) {
+                    var name = (0, configuration_1.readConfObject)(conf, 'name');
+                    var found = instances.find(function (conn) { return name === conn.name; });
+                    return (react_1.default.createElement(material_1.FormControlLabel, { key: conf.connectionId, control: react_1.default.createElement(material_1.Checkbox, { checked: !!found, onChange: function () {
+                                var _a;
+                                if (found) {
+                                    breakConnection(conf);
+                                }
+                                else {
+                                    (_a = session.makeConnection) === null || _a === void 0 ? void 0 : _a.call(session, conf);
+                                }
+                            }, color: "primary" }), label: name }));
+                }),
+                !assemblySpecificConnections.length ? (react_1.default.createElement(material_1.Typography, null,
+                    "No connections found for ",
+                    assemblyName)) : null)),
+        react_1.default.createElement(material_1.DialogActions, null,
+            react_1.default.createElement(material_1.Button, { onClick: function () { return handleClose(); }, variant: "contained", color: "primary" }, "Close"))));
 }
-
-var _default = (0, _mobxReact.observer)(ToggleConnectionDialog);
-
-exports.default = _default;
+exports.default = (0, mobx_react_1.observer)(ToggleConnectionDialog);
+//# sourceMappingURL=ToggleConnectionsDialog.js.map

package/dist/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.js.map

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package/dist/HierarchicalTrackSelectorWidget/components/util.d.ts

@@ -0,0 +1,3 @@
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import { TreeNode } from '../model';
+export declare function getAllChildren(subtree?: TreeNode): AnyConfigurationModel[];

package/dist/HierarchicalTrackSelectorWidget/components/util.js

@@ -0,0 +1,11 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.getAllChildren = void 0;
+function getAllChildren(subtree) {
+    // @ts-ignore
+    return ((subtree === null || subtree === void 0 ? void 0 : subtree.children.map(function (t) {
+        return t.children.length ? getAllChildren(t) : t.conf;
+    })) || []).flat(Infinity);
+}
+exports.getAllChildren = getAllChildren;
+//# sourceMappingURL=util.js.map

package/dist/HierarchicalTrackSelectorWidget/components/util.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"util.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/util.ts"],"names":[],"mappings":";;;AAGA,SAAgB,cAAc,CAAC,OAAkB;IAC/C,aAAa;IACb,OAAO,CACL,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,QAAQ,CAAC,GAAG,CAAC,UAAA,CAAC;QACrB,OAAA,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,CAAC,CAAC,CAAE,CAAC,CAAC,IAA8B;IAAzE,CAAyE,CAC1E,KAAI,EAAE,CACR,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;AAClB,CAAC;AAPD,wCAOC"}

package/dist/HierarchicalTrackSelectorWidget/configSchema.d.ts

@@ -0,0 +1,2 @@
+declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export default configSchema;

package/dist/HierarchicalTrackSelectorWidget/configSchema.js

@@ -0,0 +1,6 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+var configuration_1 = require("@jbrowse/core/configuration");
+var configSchema = (0, configuration_1.ConfigurationSchema)('HierarchicalTrackSelectorWidget', {});
+exports.default = configSchema;
+//# sourceMappingURL=configSchema.js.map

package/dist/HierarchicalTrackSelectorWidget/configSchema.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/configSchema.ts"],"names":[],"mappings":";;AAAA,6DAAiE;AACjE,IAAM,YAAY,GAAG,IAAA,mCAAmB,EAAC,iCAAiC,EAAE,EAAE,CAAC,CAAA;AAC/E,kBAAe,YAAY,CAAA"}

package/dist/HierarchicalTrackSelectorWidget/index.d.ts

@@ -1,2 +1,4 @@
-export { default as stateModelFactory } from './model';
-export declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+import stateModelFactory, { HierarchicalTrackSelectorModel } from './model';
+import configSchema from './configSchema';
+export { stateModelFactory, configSchema };
+export type { HierarchicalTrackSelectorModel };

package/dist/HierarchicalTrackSelectorWidget/index.js

@@ -1,21 +1,11 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.configSchema = void 0;
-Object.defineProperty(exports, "stateModelFactory", {
-  enumerable: true,
-  get: function get() {
-    return _model.default;
-  }
-});
-
-var _configuration = require("@jbrowse/core/configuration");
-
-var _model = _interopRequireDefault(require("./model"));
-
-var configSchema = (0, _configuration.ConfigurationSchema)('HierarchicalTrackSelectorWidget', {});
-exports.configSchema = configSchema;
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.configSchema = exports.stateModelFactory = void 0;
+var model_1 = __importDefault(require("./model"));
+exports.stateModelFactory = model_1.default;
+var configSchema_1 = __importDefault(require("./configSchema"));
+exports.configSchema = configSchema_1.default;
+//# sourceMappingURL=index.js.map