@jbrowse/plugin-data-management 2.0.1 → 2.1.0

package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js

@@ -1,122 +1,32 @@
-import React, { Suspense, lazy, useCallback, useMemo, useState, useRef, useEffect, } from 'react';
-import { Checkbox, Fab, FormControlLabel, IconButton, InputAdornment, Menu, MenuItem, TextField, Tooltip, Typography, } from '@mui/material';
+import React, { useCallback, useMemo, useState, useRef, useEffect } from 'react';
+import { Fab, Menu, MenuItem } from '@mui/material';
 import { makeStyles } from 'tss-react/mui';
 // icons
-import ClearIcon from '@mui/icons-material/Clear';
 import AddIcon from '@mui/icons-material/Add';
-import ArrowDropDownIcon from '@mui/icons-material/ArrowDropDown';
-import ArrowRightIcon from '@mui/icons-material/ArrowRight';
-import MenuIcon from '@mui/icons-material/Menu';
-import MoreIcon from '@mui/icons-material/MoreHoriz';
-import { Cable } from '@jbrowse/core/ui/Icons';
 // other
 import AutoSizer from 'react-virtualized-auto-sizer';
-import JBrowseMenu from '@jbrowse/core/ui/Menu';
 import { getSession, isSessionModelWithWidgets, isSessionModelWithConnections, isSessionWithAddTracks, } from '@jbrowse/core/util';
-import { readConfObject, } from '@jbrowse/core/configuration';
 import { observer } from 'mobx-react';
 import { VariableSizeTree } from 'react-vtree';
-// lazy components
-const CloseConnectionDialog = lazy(() => import('./CloseConnectionDialog'));
-const DeleteConnectionDialog = lazy(() => import('./DeleteConnectionDialog'));
-const ManageConnectionsDialog = lazy(() => import('./ManageConnectionsDialog'));
-const ToggleConnectionsDialog = lazy(() => import('./ToggleConnectionsDialog'));
-const useStyles = makeStyles()(theme => {
-    var _a, _b;
-    return ({
-        searchBox: {
-            margin: theme.spacing(2),
-        },
-        menuIcon: {
-            marginRight: theme.spacing(1),
-            marginBottom: 0,
-        },
-        fab: {
-            position: 'absolute',
-            bottom: theme.spacing(6),
-            right: theme.spacing(6),
-        },
-        compactCheckbox: {
-            padding: 0,
-        },
-        checkboxLabel: {
-            marginRight: 0,
-            '&:hover': {
-                backgroundColor: '#eee',
-            },
-        },
-        // 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',
-        },
-    });
-});
-// An individual node in the track selector. Note: manually sets cursor:
-// pointer improves usability for what can be clicked
-function Node(props) {
-    const { data, isOpen, style, setOpen } = props;
-    const { isLeaf, nestingLevel, checked, id, name, onChange, toggleCollapse, conf, onMoreInfo, drawerPosition, } = data;
-    const { classes } = useStyles();
-    const width = 10;
-    const marginLeft = nestingLevel * width + (isLeaf ? width : 0);
-    const unsupported = (name === null || name === void 0 ? void 0 : name.endsWith('(Unsupported)')) || (name === null || name === void 0 ? void 0 : name.endsWith('(Unknown)'));
-    const description = (conf && readConfObject(conf, ['description'])) || '';
-    return (React.createElement("div", { style: style, className: !isLeaf ? classes.accordionBase : undefined },
-        new Array(nestingLevel).fill(0).map((_, idx) => (React.createElement("div", { key: `mark-${idx}`, style: { left: idx * width + 4, height: style === null || style === void 0 ? void 0 : style.height }, className: classes.nestingLevelMarker }))),
-        React.createElement("div", { className: !isLeaf ? classes.accordionCard : undefined, onClick: () => {
-                toggleCollapse(id);
-                setOpen(!isOpen);
-            }, style: {
-                marginLeft,
-                whiteSpace: 'nowrap',
-                width: '100%',
-            } },
-            React.createElement("div", { className: !isLeaf ? classes.accordionColor : undefined }, !isLeaf ? (React.createElement("div", { className: classes.accordionText },
-                React.createElement(Typography, null,
-                    isOpen ? React.createElement(ArrowDropDownIcon, null) : React.createElement(ArrowRightIcon, null),
-                    name))) : (React.createElement(React.Fragment, null,
-                React.createElement(Tooltip, { title: description, placement: drawerPosition === 'left' ? 'right' : 'left' },
-                    React.createElement(FormControlLabel, { className: classes.checkboxLabel, control: React.createElement(Checkbox, { className: classes.compactCheckbox, checked: checked, onChange: () => onChange(id), color: "primary", disabled: unsupported, inputProps: {
-                                // @ts-ignore
-                                'data-testid': `htsTrackEntry-${id}`,
-                            } }), label: name })),
-                React.createElement(IconButton, { onClick: e => onMoreInfo({ target: e.currentTarget, id, conf }), style: { padding: 0 }, color: "secondary", "data-testid": `htsTrackEntryMenu-${id}` },
-                    React.createElement(MoreIcon, null))))))));
-}
-function getNodeData(node, nestingLevel, extra) {
+import Header from './Header';
+import Node from './Node';
+const useStyles = makeStyles()(theme => ({
+    fab: {
+        position: 'absolute',
+        bottom: theme.spacing(6),
+        right: theme.spacing(6),
+    },
+}));
+function getNodeData(node, nestingLevel, extra, selection) {
     const isLeaf = !!node.conf;
+    const selected = !!selection[node.id];
     return {
         data: {
             defaultHeight: isLeaf ? 22 : 40,
             isLeaf,
             isOpenByDefault: true,
             nestingLevel,
+            selected,
             ...node,
             ...extra,
         },
@@ -128,34 +38,32 @@ function getNodeData(node, nestingLevel, extra) {
 // in jbrowse-web the toolbar is position="sticky" which means the autosizer
 // includes the height of the toolbar, so we subtract the given offsets
 const HierarchicalTree = observer(({ height, tree, model, }) => {
-    var _a;
-    const { filterText, view } = model;
+    const { filterText, selection, view } = model;
     const treeRef = useRef(null);
-    const [info, setMoreInfo] = useState();
     const session = getSession(model);
     const { drawerPosition } = session;
+    const obj = useMemo(() => Object.fromEntries(selection.map(s => [s.trackId, s])), [selection]);
     const extra = useMemo(() => ({
         onChange: (trackId) => view.toggleTrack(trackId),
         toggleCollapse: (pathName) => model.toggleCategory(pathName),
-        onMoreInfo: setMoreInfo,
+        tree,
+        model,
         drawerPosition,
-    }), [view, model, drawerPosition]);
+    }), [view, model, drawerPosition, tree]);
     const treeWalker = useCallback(function* treeWalker() {
         for (let i = 0; i < tree.children.length; i++) {
             const r = tree.children[i];
-            yield getNodeData(r, 0, extra);
+            yield getNodeData(r, 0, extra, obj);
         }
         while (true) {
             // @ts-ignore
             const parentMeta = yield;
             for (let i = 0; i < parentMeta.node.children.length; i++) {
                 const curr = parentMeta.node.children[i];
-                yield getNodeData(curr, parentMeta.nestingLevel + 1, extra);
+                yield getNodeData(curr, parentMeta.nestingLevel + 1, extra, obj);
             }
         }
-    }, [tree, extra]);
-    const conf = info === null || info === void 0 ? void 0 : info.conf;
-    const menuItems = (conf && ((_a = session.getTrackActionMenuItems) === null || _a === void 0 ? void 0 : _a.call(session, conf))) || [];
+    }, [tree, extra, obj]);
     useEffect(() => {
         // @ts-ignore
         treeRef.current.recomputeTree({
@@ -164,11 +72,7 @@ const HierarchicalTree = observer(({ height, tree, model, }) => {
         });
     }, [tree, filterText]);
     return (React.createElement(React.Fragment, null,
-        React.createElement(VariableSizeTree, { ref: treeRef, treeWalker: treeWalker, height: height }, Node),
-        React.createElement(JBrowseMenu, { anchorEl: info === null || info === void 0 ? void 0 : info.target, menuItems: menuItems, onMenuItemClick: (_event, callback) => {
-                callback();
-                setMoreInfo(undefined);
-            }, open: Boolean(info), onClose: () => setMoreInfo(undefined) })));
+        React.createElement(VariableSizeTree, { ref: treeRef, treeWalker: treeWalker, height: height }, Node)));
 });
 // Don't use autosizer in jest and instead hardcode a height, otherwise fails
 // jest tests
@@ -210,116 +114,13 @@ const HierarchicalTrackSelectorContainer = observer(({ model, toolbarHeight, ove
                         }
                     } }, "Add track")) : null))) : null));
 });
-const HierarchicalTrackSelectorHeader = observer(({ model, setHeaderHeight, setAssemblyIdx, assemblyIdx, }) => {
-    const { classes } = useStyles();
-    const session = getSession(model);
-    const [connectionAnchorEl, setConnectionAnchorEl] = useState();
-    const [menuAnchorEl, setMenuAnchorEl] = useState();
-    const [modalInfo, setModalInfo] = useState();
-    const [deleteDialogDetails, setDeleteDialogDetails] = useState();
-    const [connectionManagerOpen, setConnectionManagerOpen] = useState(false);
-    const [connectionToggleOpen, setConnectionToggleOpen] = useState(false);
-    const { assemblyNames } = model;
-    const assemblyName = assemblyNames[assemblyIdx];
-    function breakConnection(connectionConf, deletingConnection) {
-        const name = readConfObject(connectionConf, 'name');
-        // @ts-ignore
-        const result = session.prepareToBreakConnection(connectionConf);
-        if (result) {
-            const [safelyBreakConnection, dereferenceTypeCount] = result;
-            if (Object.keys(dereferenceTypeCount).length > 0) {
-                setModalInfo({
-                    connectionConf,
-                    safelyBreakConnection,
-                    dereferenceTypeCount,
-                    name,
-                });
-            }
-            else {
-                safelyBreakConnection();
-            }
-        }
-        if (deletingConnection) {
-            setDeleteDialogDetails({ name, connectionConf });
-        }
-    }
-    const connectionMenuItems = [
-        {
-            label: 'Turn on/off connections...',
-            onClick: () => setConnectionToggleOpen(true),
-        },
-    ];
-    if (isSessionModelWithConnections(session)) {
-        connectionMenuItems.unshift({
-            label: 'Add connection',
-            onClick: () => {
-                if (isSessionModelWithWidgets(session)) {
-                    const widget = session.addWidget('AddConnectionWidget', 'addConnectionWidget');
-                    session.showWidget(widget);
-                }
-            },
-        });
-        connectionMenuItems.push({
-            label: 'Delete connections...',
-            onClick: () => setConnectionManagerOpen(true),
-        });
-    }
-    const assemblyMenuItems = assemblyNames.length > 1
-        ? [
-            {
-                label: 'Select assembly...',
-                subMenu: assemblyNames.map((name, idx) => ({
-                    label: name,
-                    onClick: () => setAssemblyIdx(idx),
-                })),
-            },
-        ]
-        : [];
-    const menuItems = [
-        {
-            label: 'Add track...',
-            onClick: () => {
-                if (isSessionModelWithWidgets(session)) {
-                    const widget = session.addWidget('AddTrackWidget', 'addTrackWidget', {
-                        view: model.view.id,
-                    });
-                    session.showWidget(widget);
-                }
-            },
-        },
-        ...assemblyMenuItems,
-    ];
-    return (React.createElement("div", { ref: ref => setHeaderHeight((ref === null || ref === void 0 ? void 0 : ref.getBoundingClientRect().height) || 0), "data-testid": "hierarchical_track_selector" },
-        React.createElement("div", { style: { display: 'flex' } },
-            isSessionWithAddTracks(session) && (React.createElement(IconButton, { className: classes.menuIcon, onClick: event => setMenuAnchorEl(event.currentTarget) },
-                React.createElement(MenuIcon, null))),
-            session.makeConnection && (React.createElement(IconButton, { className: classes.menuIcon, onClick: event => setConnectionAnchorEl(event.currentTarget) },
-                React.createElement(Cable, null))),
-            React.createElement(TextField, { className: classes.searchBox, label: "Filter tracks", value: model.filterText, onChange: event => model.setFilterText(event.target.value), fullWidth: true, InputProps: {
-                    endAdornment: (React.createElement(InputAdornment, { position: "end" },
-                        React.createElement(IconButton, { color: "secondary", onClick: model.clearFilterText },
-                            React.createElement(ClearIcon, null)))),
-                } })),
-        React.createElement(JBrowseMenu, { anchorEl: connectionAnchorEl, open: Boolean(connectionAnchorEl), onMenuItemClick: (_, callback) => {
-                callback();
-                setConnectionAnchorEl(undefined);
-            }, onClose: () => setConnectionAnchorEl(undefined), menuItems: connectionMenuItems }),
-        React.createElement(JBrowseMenu, { anchorEl: menuAnchorEl, open: Boolean(menuAnchorEl), onMenuItemClick: (_, callback) => {
-                callback();
-                setMenuAnchorEl(undefined);
-            }, onClose: () => setMenuAnchorEl(undefined), menuItems: menuItems }),
-        React.createElement(Suspense, { fallback: React.createElement("div", null) },
-            modalInfo ? (React.createElement(CloseConnectionDialog, { modalInfo: modalInfo, setModalInfo: setModalInfo })) : deleteDialogDetails ? (React.createElement(DeleteConnectionDialog, { handleClose: () => setDeleteDialogDetails(undefined), deleteDialogDetails: deleteDialogDetails, session: session })) : null,
-            connectionManagerOpen ? (React.createElement(ManageConnectionsDialog, { handleClose: () => setConnectionManagerOpen(false), breakConnection: breakConnection, session: session })) : null,
-            connectionToggleOpen ? (React.createElement(ToggleConnectionsDialog, { handleClose: () => setConnectionToggleOpen(false), session: session, breakConnection: breakConnection, assemblyName: assemblyName })) : null)));
-});
 const HierarchicalTrackSelector = observer(({ model, toolbarHeight = 0, }) => {
     const [assemblyIdx, setAssemblyIdx] = useState(0);
     const [headerHeight, setHeaderHeight] = useState(0);
     const { assemblyNames } = model;
     const assemblyName = assemblyNames[assemblyIdx];
     return assemblyName ? (React.createElement(React.Fragment, null,
-        React.createElement(HierarchicalTrackSelectorHeader, { model: model, setHeaderHeight: setHeaderHeight, setAssemblyIdx: setAssemblyIdx, assemblyIdx: assemblyIdx }),
+        React.createElement(Header, { model: model, setHeaderHeight: setHeaderHeight, setAssemblyIdx: setAssemblyIdx, assemblyIdx: assemblyIdx }),
         React.createElement(AutoSizedHierarchicalTree, { tree: model.hierarchy(assemblyName), model: model, offset: toolbarHeight + headerHeight }))) : null;
 });
 export default HierarchicalTrackSelectorContainer;

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

@@ -1 +1 @@
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+{"version":3,"file":"HierarchicalTrackSelector.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,WAAW,EAAE,OAAO,EAAE,QAAQ,EAAE,MAAM,EAAE,SAAS,EAAE,MAAM,OAAO,CAAA;AAChF,OAAO,EAAE,GAAG,EAAE,IAAI,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACnD,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,QAAQ;AACR,OAAO,OAAO,MAAM,yBAAyB,CAAA;AAC7C,QAAQ;AACR,OAAO,SAAS,MAAM,8BAA8B,CAAA;AACpD,OAAO,EACL,UAAU,EACV,yBAAyB,EACzB,6BAA6B,EAC7B,sBAAsB,GACvB,MAAM,oBAAoB,CAAA;AAC3B,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,gBAAgB,EAAE,MAAM,aAAa,CAAA;AAI9C,OAAO,MAAM,MAAM,UAAU,CAAA;AAC7B,OAAO,IAAI,MAAM,QAAQ,CAAA;AAEzB,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,GAAG,EAAE;QACH,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACxB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KACxB;CACF,CAAC,CAAC,CAAA;AAEH,SAAS,WAAW,CAClB,IAAc,EACd,YAAoB,EACpB,KAA8B,EAC9B,SAAkC;IAElC,MAAM,MAAM,GAAG,CAAC,CAAC,IAAI,CAAC,IAAI,CAAA;IAC1B,MAAM,QAAQ,GAAG,CAAC,CAAC,SAAS,CAAC,IAAI,CAAC,EAAE,CAAC,CAAA;IACrC,OAAO;QACL,IAAI,EAAE;YACJ,aAAa,EAAE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE;YAC/B,MAAM;YACN,eAAe,EAAE,IAAI;YACrB,YAAY;YACZ,QAAQ;YACR,GAAG,IAAI;YACP,GAAG,KAAK;SACT;QACD,YAAY;QACZ,IAAI;KACL,CAAA;AACH,CAAC;AAID,+EAA+E;AAC/E,4EAA4E;AAC5E,uEAAuE;AACvE,MAAM,gBAAgB,GAAG,QAAQ,CAC/B,CAAC,EACC,MAAM,EACN,IAAI,EACJ,KAAK,GAKN,EAAE,EAAE;IACH,MAAM,EAAE,UAAU,EAAE,SAAS,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;IAC7C,MAAM,OAAO,GAAG,MAAM,CAAW,IAAI,CAAC,CAAA;IACtC,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,EAAE,cAAc,EAAE,GAAG,OAAO,CAAA;IAClC,MAAM,GAAG,GAAG,OAAO,CACjB,GAAG,EAAE,CAAC,MAAM,CAAC,WAAW,CAAC,SAAS,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,CAAC,EAC5D,CAAC,SAAS,CAAC,CACZ,CAAA;IAED,MAAM,KAAK,GAAG,OAAO,CACnB,GAAG,EAAE,CAAC,CAAC;QACL,QAAQ,EAAE,CAAC,OAAe,EAAE,EAAE,CAAC,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC;QACxD,cAAc,EAAE,CAAC,QAAgB,EAAE,EAAE,CAAC,KAAK,CAAC,cAAc,CAAC,QAAQ,CAAC;QACpE,IAAI;QACJ,KAAK;QACL,cAAc;KACf,CAAC,EACF,CAAC,IAAI,EAAE,KAAK,EAAE,cAAc,EAAE,IAAI,CAAC,CACpC,CAAA;IACD,MAAM,UAAU,GAAG,WAAW,CAC5B,QAAQ,CAAC,CAAC,UAAU;QAClB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC7C,MAAM,CAAC,GAAG,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;YAC1B,MAAM,WAAW,CAAC,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,GAAG,CAAC,CAAA;SACpC;QAED,OAAO,IAAI,EAAE;YACX,aAAa;YACb,MAAM,UAAU,GAAG,KAAK,CAAA;YAExB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC,IAAI,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;gBACxD,MAAM,IAAI,GAAG,UAAU,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;gBACxC,MAAM,WAAW,CAAC,IAAI,EAAE,UAAU,CAAC,YAAY,GAAG,CAAC,EAAE,KAAK,EAAE,GAAG,CAAC,CAAA;aACjE;SACF;IACH,CAAC,EACD,CAAC,IAAI,EAAE,KAAK,EAAE,GAAG,CAAC,CACnB,CAAA;IAED,SAAS,CAAC,GAAG,EAAE;QACb,aAAa;QACb,OAAO,CAAC,OAAO,CAAC,aAAa,CAAC;YAC5B,YAAY,EAAE,IAAI;YAClB,gBAAgB,EAAE,IAAI;SACvB,CAAC,CAAA;IACJ,CAAC,EAAE,CAAC,IAAI,EAAE,UAAU,CAAC,CAAC,CAAA;IACtB,OAAO,CACL;QAEE,oBAAC,gBAAgB,IAAC,GAAG,EAAE,OAAO,EAAE,UAAU,EAAE,UAAU,EAAE,MAAM,EAAE,MAAM,IAEnE,IAAI,CACY,CAClB,CACJ,CAAA;AACH,CAAC,CACF,CAAA;AAED,6EAA6E;AAC7E,aAAa;AACb,MAAM,yBAAyB,GAAG,CAAC,EACjC,IAAI,EACJ,KAAK,EACL,MAAM,GAKP,EAAE,EAAE;IACH,OAAO,OAAO,IAAI,KAAK,WAAW,CAAC,CAAC,CAAC,CACnC,oBAAC,SAAS,IAAC,YAAY,UACpB,CAAC,EAAE,MAAM,EAAE,EAAE,EAAE;QACd,OAAO,CACL,oBAAC,gBAAgB,IACf,MAAM,EAAE,MAAM,GAAG,MAAM,EACvB,KAAK,EAAE,KAAK,EACZ,IAAI,EAAE,IAAI,GACV,CACH,CAAA;IACH,CAAC,CACS,CACb,CAAC,CAAC,CAAC,CACF,oBAAC,gBAAgB,IAAC,MAAM,EAAE,IAAI,EAAE,KAAK,EAAE,KAAK,EAAE,IAAI,EAAE,IAAI,GAAI,CAC7D,CAAA;AACH,CAAC,CAAA;AAED,MAAM,OAAO,GAAG,CAAC,EACf,kBAAkB,EAClB,QAAQ,GAIT,EAAE,EAAE;IACH,OAAO,kBAAkB,CAAC,CAAC,CAAC,CAC1B,6BAAK,KAAK,EAAE,EAAE,GAAG,kBAAkB,EAAE,IAAG,QAAQ,CAAO,CACxD,CAAC,CAAC,CAAC,CACF,0CAAG,QAAQ,CAAI,CAChB,CAAA;AACH,CAAC,CAAA;AACD,MAAM,kCAAkC,GAAG,QAAQ,CACjD,CAAC,EACC,KAAK,EACL,aAAa,EACb,kBAAkB,GAKnB,EAAE,EAAE;IACH,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,CAA2B,IAAI,CAAC,CAAA;IAExE,SAAS,cAAc;QACrB,WAAW,CAAC,IAAI,CAAC,CAAA;IACnB,CAAC;IACD,MAAM,cAAc,GAAG,6BAA6B,CAAC,OAAO,CAAC,CAAA;IAC7D,MAAM,WAAW,GAAG,sBAAsB,CAAC,OAAO,CAAC,CAAA;IACnD,OAAO,CACL,oBAAC,OAAO,IAAC,kBAAkB,EAAE,kBAAkB;QAC7C,oBAAC,yBAAyB,IACxB,KAAK,EAAE,KAAK,EACZ,aAAa,EAAE,aAAa,GAC5B;QACD,WAAW,IAAI,cAAc,CAAC,CAAC,CAAC,CAC/B;YACE,oBAAC,GAAG,IACF,KAAK,EAAC,WAAW,EACjB,SAAS,EAAE,OAAO,CAAC,GAAG,EACtB,OAAO,EAAE,KAAK,CAAC,EAAE,CAAC,WAAW,CAAC,KAAK,CAAC,aAAa,CAAC;gBAElD,oBAAC,OAAO,OAAG,CACP;YACN,oBAAC,IAAI,IACH,QAAQ,EAAE,QAAQ,EAClB,IAAI,EAAE,OAAO,CAAC,QAAQ,CAAC,EACvB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,CAAC,IAAI,CAAC;gBAE/B,cAAc,CAAC,CAAC,CAAC,CAChB,oBAAC,QAAQ,IACP,OAAO,EAAE,GAAG,EAAE;wBACZ,cAAc,EAAE,CAAA;wBAChB,IAAI,yBAAyB,CAAC,OAAO,CAAC,EAAE;4BACtC,OAAO,CAAC,UAAU,CAChB,OAAO,CAAC,SAAS,CACf,qBAAqB,EACrB,qBAAqB,CACtB,CACF,CAAA;yBACF;oBACH,CAAC,qBAGQ,CACZ,CAAC,CAAC,CAAC,IAAI;gBACP,WAAW,CAAC,CAAC,CAAC,CACb,oBAAC,QAAQ,IACP,OAAO,EAAE,GAAG,EAAE;wBACZ,cAAc,EAAE,CAAA;wBAChB,IAAI,yBAAyB,CAAC,OAAO,CAAC,EAAE;4BACtC,OAA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package/esm/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/esm/HierarchicalTrackSelectorWidget/components/Node.js

@@ -0,0 +1,149 @@
+import React, { useState } from 'react';
+import { Checkbox, FormControlLabel, IconButton, Tooltip, Typography, } from '@mui/material';
+import { makeStyles } from 'tss-react/mui';
+// icons
+import ArrowDropDownIcon from '@mui/icons-material/ArrowDropDown';
+import ArrowRightIcon from '@mui/icons-material/ArrowRight';
+import MoreHorizIcon from '@mui/icons-material/MoreHoriz';
+import JBrowseMenu from '@jbrowse/core/ui/Menu';
+import { getSession } from '@jbrowse/core/util';
+import { readConfObject, } from '@jbrowse/core/configuration';
+import { getAllChildren } from './util';
+const useStyles = makeStyles()(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 = new Map()) {
+    if (tree.id && tree.children.length) {
+        map.set(tree.id, tree);
+    }
+    for (let i = 0; i < tree.children.length; i++) {
+        const node = tree.children[i];
+        treeToMap(node, map);
+    }
+    return map;
+}
+function isUnsupported(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
+export default function Node(props) {
+    var _a, _b;
+    const { data, isOpen, style, setOpen } = props;
+    const { checked, conf, drawerPosition, id, isLeaf, model, name, nestingLevel, onChange, selected, toggleCollapse, tree, } = data;
+    const { classes } = useStyles();
+    const width = 10;
+    const [menuEl, setMenuEl] = useState(null);
+    const [info, setInfo] = useState();
+    const marginLeft = nestingLevel * width + (isLeaf ? width : 0);
+    const description = (conf && readConfObject(conf, ['description'])) || '';
+    return (React.createElement("div", { style: style, className: !isLeaf ? classes.accordionBase : undefined },
+        new Array(nestingLevel).fill(0).map((_, idx) => (React.createElement("div", { key: `mark-${idx}`, style: { left: idx * width + 4, height: style === null || style === void 0 ? void 0 : style.height }, className: classes.nestingLevelMarker }))),
+        React.createElement("div", { className: !isLeaf ? classes.accordionCard : undefined, onClick: () => {
+                if (!menuEl) {
+                    toggleCollapse(id);
+                    setOpen(!isOpen);
+                }
+            }, style: {
+                marginLeft,
+                whiteSpace: 'nowrap',
+                width: '100%',
+            } },
+            React.createElement("div", { className: !isLeaf ? classes.accordionColor : undefined },
+                !isLeaf ? (React.createElement("div", { className: classes.accordionText },
+                    React.createElement(Typography, null,
+                        isOpen ? React.createElement(ArrowDropDownIcon, null) : React.createElement(ArrowRightIcon, null),
+                        name,
+                        React.createElement(IconButton, { onClick: event => {
+                                setMenuEl(event.currentTarget);
+                                event.stopPropagation();
+                            }, className: classes.contrastColor },
+                            React.createElement(MoreHorizIcon, null))))) : (React.createElement(React.Fragment, null,
+                    React.createElement(Tooltip, { title: description + (selected ? ' (in selection)' : ''), placement: drawerPosition === 'left' ? 'right' : 'left' },
+                        React.createElement(FormControlLabel, { className: classes.checkboxLabel, control: React.createElement(Checkbox, { className: classes.compactCheckbox, checked: checked, onChange: () => onChange(id), disabled: isUnsupported(name), inputProps: {
+                                    // @ts-ignore
+                                    'data-testid': `htsTrackEntry-${id}`,
+                                } }), label: React.createElement("div", { style: {
+                                    background: selected ? '#cccc' : undefined,
+                                    padding: 1,
+                                } }, name) })),
+                    React.createElement(IconButton, { onClick: e => setInfo({ target: e.currentTarget, id, conf }), style: { padding: 0 }, color: "secondary", "data-testid": `htsTrackEntryMenu-${id}` },
+                        React.createElement(MoreHorizIcon, null)))),
+                menuEl ? (React.createElement(JBrowseMenu, { anchorEl: menuEl, menuItems: [
+                        {
+                            label: 'Add to selection',
+                            onClick: () => model.addToSelection(getAllChildren(treeToMap(tree).get(id))),
+                        },
+                        {
+                            label: 'Remove from selection',
+                            onClick: () => model.removeFromSelection(getAllChildren(treeToMap(tree).get(id))),
+                        },
+                    ], onMenuItemClick: (_event, callback) => {
+                        callback();
+                        setMenuEl(null);
+                    }, open: Boolean(menuEl), onClose: () => setMenuEl(null) })) : null,
+                info ? (React.createElement(JBrowseMenu, { anchorEl: info === null || info === void 0 ? void 0 : info.target, menuItems: [
+                        ...(((_b = (_a = getSession(model)).getTrackActionMenuItems) === null || _b === void 0 ? void 0 : _b.call(_a, info.conf)) ||
+                            []),
+                        {
+                            label: 'Add to selection',
+                            onClick: () => model.addToSelection([info.conf]),
+                        },
+                        ...(selected
+                            ? [
+                                {
+                                    label: 'Remove from selection',
+                                    onClick: () => model.removeFromSelection([info.conf]),
+                                },
+                            ]
+                            : []),
+                    ], onMenuItemClick: (_event, callback) => {
+                        callback();
+                        setInfo(undefined);
+                    }, open: Boolean(info), onClose: () => setInfo(undefined) })) : null))));
+}
+//# sourceMappingURL=Node.js.map

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

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package/esm/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/esm/HierarchicalTrackSelectorWidget/components/util.js

@@ -0,0 +1,5 @@
+export function getAllChildren(subtree) {
+    // @ts-ignore
+    return ((subtree === null || subtree === void 0 ? void 0 : subtree.children.map(t => t.children.length ? getAllChildren(t) : t.conf)) || []).flat(Infinity);
+}
+//# sourceMappingURL=util.js.map

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

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

package/esm/HierarchicalTrackSelectorWidget/configSchema.d.ts

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

package/esm/HierarchicalTrackSelectorWidget/configSchema.js

@@ -0,0 +1,4 @@
+import { ConfigurationSchema } from '@jbrowse/core/configuration';
+const configSchema = ConfigurationSchema('HierarchicalTrackSelectorWidget', {});
+export default configSchema;
+//# sourceMappingURL=configSchema.js.map

package/esm/HierarchicalTrackSelectorWidget/configSchema.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,MAAM,YAAY,GAAG,mBAAmB,CAAC,iCAAiC,EAAE,EAAE,CAAC,CAAA;AAC/E,eAAe,YAAY,CAAA"}

package/esm/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/esm/HierarchicalTrackSelectorWidget/index.js

@@ -1,4 +1,4 @@
-import { ConfigurationSchema } from '@jbrowse/core/configuration';
-export { default as stateModelFactory } from './model';
-export const configSchema = ConfigurationSchema('HierarchicalTrackSelectorWidget', {});
+import stateModelFactory from './model';
+import configSchema from './configSchema';
+export { stateModelFactory, configSchema };
 //# sourceMappingURL=index.js.map

package/esm/HierarchicalTrackSelectorWidget/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE,OAAO,EAAE,OAAO,IAAI,iBAAiB,EAAE,MAAM,SAAS,CAAA;AACtD,MAAM,CAAC,MAAM,YAAY,GAAG,mBAAmB,CAC7C,iCAAiC,EACjC,EAAE,CACH,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,iBAAqD,MAAM,SAAS,CAAA;AAC3E,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,OAAO,EAAE,iBAAiB,EAAE,YAAY,EAAE,CAAA"}

package/esm/HierarchicalTrackSelectorWidget/model.d.ts

@@ -1,7 +1,6 @@
 import { Instance } from 'mobx-state-tree';
 import { AnyConfigurationModel } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
-import { AbstractView } from 'react';
 export declare type TreeNode = {
     name: string;
     id: string;
@@ -20,7 +19,16 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
     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>>;
 }, {
-    setView(view: AbstractView): void;
+    selection: ({
+        [x: string]: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        setSubschema(slotName: string, data: unknown): any;
+    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+} & {
+    addToSelection(elt: AnyConfigurationModel[]): void;
+    removeFromSelection(elt: AnyConfigurationModel[]): void;
+    clearSelection(): void;
+    setView(view: unknown): void;
     toggleCategory(pathName: string): void;
     clearFilterText(): void;
     setFilterText(newText: string): void;