@jbrowse/plugin-linear-genome-view 2.4.2 → 2.6.1

package/dist/LinearGenomeView/components/TrackLabel.js

@@ -11,8 +11,7 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const util_1 = require("@jbrowse/core/util");
 const tracks_1 = require("@jbrowse/core/util/tracks");
 const ui_1 = require("@jbrowse/core/ui");
-const CascadingMenu_1 = __importDefault(require("@jbrowse/core/ui/CascadingMenu"));
-const hooks_1 = require("material-ui-popup-state/hooks");
+const CascadingMenuButton_1 = __importDefault(require("@jbrowse/core/ui/CascadingMenuButton"));
 // icons
 const MoreVert_1 = __importDefault(require("@mui/icons-material/MoreVert"));
 const DragIndicator_1 = __importDefault(require("@mui/icons-material/DragIndicator"));
@@ -56,10 +55,6 @@ const TrackLabel = react_1.default.forwardRef(function ({ track, className }, re
     const minimized = track.minimized;
     const trackId = (0, configuration_1.getConf)(track, 'trackId');
     const trackName = (0, tracks_1.getTrackName)(trackConf, session);
-    const popupState = (0, hooks_1.usePopupState)({
-        popupId: 'trackLabelMenu',
-        variant: 'popover',
-    });
     const items = [
         {
             label: minimized ? 'Restore track' : 'Minimize track',
@@ -82,10 +77,11 @@ const TrackLabel = react_1.default.forwardRef(function ({ track, className }, re
         react_1.default.createElement(material_1.IconButton, { onClick: () => view.hideTrack(trackId), className: classes.iconButton, title: "close this track" },
             react_1.default.createElement(Close_1.default, { fontSize: "small" })),
         react_1.default.createElement(material_1.Typography, { variant: "body1", component: "span", className: classes.trackName },
-            react_1.default.createElement(ui_1.SanitizedHTML, { html: `${trackName}${minimized ? ' (minimized)' : ''}` })),
-        react_1.default.createElement(material_1.IconButton, { ...(0, hooks_1.bindTrigger)(popupState), className: classes.iconButton, "data-testid": "track_menu_icon", disabled: items.length === 0 },
-            react_1.default.createElement(MoreVert_1.default, { fontSize: "small" })),
-        react_1.default.createElement(CascadingMenu_1.default, { ...(0, hooks_1.bindPopover)(popupState), onMenuItemClick: (_, callback) => callback(), menuItems: items, popupState: popupState })));
+            react_1.default.createElement(ui_1.SanitizedHTML, { html: [trackName, minimized ? '(minimized)' : '']
+                    .filter(f => !!f)
+                    .join(' ') })),
+        react_1.default.createElement(CascadingMenuButton_1.default, { menuItems: items, "data-testid": "track_menu_icon" },
+            react_1.default.createElement(MoreVert_1.default, { fontSize: "small" }))));
 });
 exports.default = (0, mobx_react_1.observer)(TrackLabel);
 //# sourceMappingURL=TrackLabel.js.map

package/dist/LinearGenomeView/components/TrackLabel.js.map

@@ -1 +1 @@
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+{"version":3,"file":"TrackLabel.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackLabel.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,4CAAoE;AACpE,uCAA0C;AAC1C,2CAAqC;AACrC,+DAAqD;AACrD,6CAAkE;AAClE,sDAAwD;AAExD,yCAAgD;AAChD,+FAAsE;AAEtE,QAAQ;AACR,4EAAuD;AACvD,sFAAwD;AACxD,sEAAiD;AACjD,4EAAuD;AACvD,kEAA6C;AAI7C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,IAAI,EAAE;QACJ,UAAU,EAAE,IAAA,gBAAK,EAAC,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK,EAAE,GAAG,CAAC;QACtD,SAAS,EAAE;YACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,UAAU,CAAC,KAAK;SAC3C;QACD,UAAU,EAAE,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,YAAY,CAAC,EAAE;YACnD,QAAQ,EAAE,KAAK,CAAC,WAAW,CAAC,QAAQ,CAAC,QAAQ;SAC9C,CAAC;KACH;IACD,SAAS,EAAE;QACT,MAAM,EAAE,QAAQ;QAChB,KAAK,EAAE,KAAK;QACZ,QAAQ,EAAE,QAAQ;QAClB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,MAAM,EAAE,MAAM;KACf;IACD,cAAc,EAAE;QACd,OAAO,EAAE,cAAc;QACvB,aAAa,EAAE,QAAQ;QACvB,aAAa,EAAE,MAAM;KACtB;IACD,UAAU,EAAE;QACV,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;CACF,CAAC,CAAC,CAAA;AASH,MAAM,UAAU,GAAG,eAAK,CAAC,UAAU,CAAwB,UACzD,EAAE,KAAK,EAAE,SAAS,EAAE,EACpB,GAAG;;IAEH,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,KAAK,CAAQ,CAAA;IAC5C,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IACjC,MAAM,SAAS,GAAG,KAAK,CAAC,aAAa,CAAA;IACrC,MAAM,SAAS,GAAG,KAAK,CAAC,SAAS,CAAA;IACjC,MAAM,OAAO,GAAG,IAAA,uBAAO,EAAC,KAAK,EAAE,SAAS,CAAC,CAAA;IACzC,MAAM,SAAS,GAAG,IAAA,qBAAY,EAAC,SAAS,EAAE,OAAO,CAAC,CAAA;IAClD,MAAM,KAAK,GAAG;QACZ;YACE,KAAK,EAAE,SAAS,CAAC,CAAC,CAAC,eAAe,CAAC,CAAC,CAAC,gBAAgB;YACrD,IAAI,EAAE,SAAS,CAAC,CAAC,CAAC,aAAO,CAAC,CAAC,CAAC,kBAAY;YACxC,OAAO,EAAE,GAAG,EAAE,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,SAAS,CAAC;SAC9C;QACD,GAAG,CAAC,CAAA,MAAA,OAAO,CAAC,uBAAuB,wDAAG,SAAS,CAAC,KAAI,EAAE,CAAC;QACvD,GAAG,KAAK,CAAC,cAAc,EAAE;KAC1B,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,CAAC,CAAA;IAEvD,OAAO,CACL,8BAAC,gBAAK,IAAC,GAAG,EAAE,GAAG,EAAE,SAAS,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,CAAC,IAAI,CAAC;QACrD,wCACE,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,MAAM,MAAM,GAAG,KAAK,CAAC,aAAa,CAAA;gBAClC,IAAI,MAAM,CAAC,UAAU,EAAE;oBACrB,MAAM,MAAM,GAAG,MAAM,CAAC,UAAyB,CAAA;oBAC/C,KAAK,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;oBAC/C,IAAI,CAAC,kBAAkB,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;iBAClC;YACH,CAAC,EACD,SAAS,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,iBACtC,cAAc,IAAI,CAAC,EAAE,IAAI,OAAO,EAAE;YAE/C,8BAAC,uBAAQ,IAAC,SAAS,EAAE,OAAO,CAAC,cAAc,EAAE,QAAQ,EAAC,OAAO,GAAG,CAC3D;QACP,8BAAC,qBAAU,IACT,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,EACtC,SAAS,EAAE,OAAO,CAAC,UAAU,EAC7B,KAAK,EAAC,kBAAkB;YAExB,8BAAC,eAAS,IAAC,QAAQ,EAAC,OAAO,GAAG,CACnB;QAEb,8BAAC,qBAAU,IACT,OAAO,EAAC,OAAO,EACf,SAAS,EAAC,MAAM,EAChB,SAAS,EAAE,OAAO,CAAC,SAAS;YAE5B,8BAAC,kBAAa,IACZ,IAAI,EAAE,CAAC,SAAS,EAAE,SAAS,CAAC,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,EAAE,CAAC;qBAC9C,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;qBAChB,IAAI,CAAC,GAAG,CAAC,GACZ,CACS;QAEb,8BAAC,6BAAmB,IAAC,SAAS,EAAE,KAAK,iBAAc,iBAAiB;YAClE,8BAAC,kBAAY,IAAC,QAAQ,EAAC,OAAO,GAAG,CACb,CAChB,CACT,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,kBAAe,IAAA,qBAAQ,EAAC,UAAU,CAAC,CAAA"}

package/dist/LinearGenomeView/components/TrackLabelContainer.d.ts

@@ -0,0 +1,9 @@
+import React from 'react';
+import { BaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models';
+import { LinearGenomeViewModel } from '..';
+type LGV = LinearGenomeViewModel;
+declare const TrackLabelContainer: ({ track, view, }: {
+    track: BaseTrackModel;
+    view: LGV;
+}) => React.JSX.Element | null;
+export default TrackLabelContainer;

package/dist/LinearGenomeView/components/TrackLabelContainer.js

@@ -0,0 +1,32 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const react_1 = __importDefault(require("react"));
+const mui_1 = require("tss-react/mui");
+const mobx_react_1 = require("mobx-react");
+const TrackLabel_1 = __importDefault(require("./TrackLabel"));
+const useStyles = (0, mui_1.makeStyles)()({
+    trackLabel: {
+        zIndex: 3,
+    },
+    trackLabelOffset: {
+        position: 'relative',
+        display: 'inline-block',
+    },
+    trackLabelOverlap: {
+        position: 'absolute',
+    },
+});
+const TrackLabelContainer = (0, mobx_react_1.observer)(function ({ track, view, }) {
+    const { classes, cx } = useStyles();
+    const display = track.displays[0];
+    const { trackLabel, trackLabelOverlap, trackLabelOffset } = classes;
+    const labelStyle = view.trackLabels !== 'overlapping' || display.prefersOffset
+        ? trackLabelOffset
+        : trackLabelOverlap;
+    return view.trackLabels !== 'hidden' ? (react_1.default.createElement(TrackLabel_1.default, { track: track, className: cx(trackLabel, labelStyle) })) : null;
+});
+exports.default = TrackLabelContainer;
+//# sourceMappingURL=TrackLabelContainer.js.map

package/dist/LinearGenomeView/components/TrackLabelContainer.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"TrackLabelContainer.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackLabelContainer.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,uCAA0C;AAC1C,2CAAqC;AAOrC,8DAAqC;AAErC,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,UAAU,EAAE;QACV,MAAM,EAAE,CAAC;KACV;IAED,gBAAgB,EAAE;QAChB,QAAQ,EAAE,UAAU;QACpB,OAAO,EAAE,cAAc;KACxB;IACD,iBAAiB,EAAE;QACjB,QAAQ,EAAE,UAAU;KACrB;CACF,CAAC,CAAA;AAIF,MAAM,mBAAmB,GAAG,IAAA,qBAAQ,EAAC,UAAU,EAC7C,KAAK,EACL,IAAI,GAIL;IACC,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,MAAM,OAAO,GAAG,KAAK,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;IACjC,MAAM,EAAE,UAAU,EAAE,iBAAiB,EAAE,gBAAgB,EAAE,GAAG,OAAO,CAAA;IACnE,MAAM,UAAU,GACd,IAAI,CAAC,WAAW,KAAK,aAAa,IAAI,OAAO,CAAC,aAAa;QACzD,CAAC,CAAC,gBAAgB;QAClB,CAAC,CAAC,iBAAiB,CAAA;IAEvB,OAAO,IAAI,CAAC,WAAW,KAAK,QAAQ,CAAC,CAAC,CAAC,CACrC,8BAAC,oBAAU,IAAC,KAAK,EAAE,KAAK,EAAE,SAAS,EAAE,EAAE,CAAC,UAAU,EAAE,UAAU,CAAC,GAAI,CACpE,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,kBAAe,mBAAmB,CAAA"}

package/dist/LinearGenomeView/components/TrackRenderingContainer.d.ts

@@ -0,0 +1,10 @@
+import React from 'react';
+import { BaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models';
+import { LinearGenomeViewModel } from '..';
+type LGV = LinearGenomeViewModel;
+declare const _default: ({ model, track, onDragEnter, }: {
+    model: LGV;
+    track: BaseTrackModel;
+    onDragEnter: () => void;
+}) => React.JSX.Element;
+export default _default;

package/dist/LinearGenomeView/components/TrackRenderingContainer.js

@@ -0,0 +1,74 @@
+"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;
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const react_1 = __importStar(require("react"));
+const mui_1 = require("tss-react/mui");
+const mobx_react_1 = require("mobx-react");
+const configuration_1 = require("@jbrowse/core/configuration");
+const useStyles = (0, mui_1.makeStyles)()({
+    // aligns with block boundaries. check for example the breakpoint split view
+    // demo to see if features align if wanting to change things
+    renderingComponentContainer: {
+        position: 'absolute',
+        // -1 offset because of the 1px border of the Paper
+        left: -1,
+        height: '100%',
+        width: '100%',
+    },
+    trackRenderingContainer: {
+        overflowY: 'auto',
+        overflowX: 'hidden',
+        whiteSpace: 'nowrap',
+        position: 'relative',
+        background: 'none',
+        zIndex: 2,
+    },
+});
+exports.default = (0, mobx_react_1.observer)(function TrackRenderingContainer({ model, track, onDragEnter, }) {
+    const { classes } = useStyles();
+    const display = track.displays[0];
+    const { height, RenderingComponent, DisplayBlurb } = display;
+    const trackId = (0, configuration_1.getConf)(track, 'trackId');
+    const ref = (0, react_1.useRef)(null);
+    const minimized = track.minimized;
+    (0, react_1.useEffect)(() => {
+        if (ref.current) {
+            model.trackRefs[trackId] = ref.current;
+        }
+        return () => {
+            delete model.trackRefs[trackId];
+        };
+    }, [model.trackRefs, trackId]);
+    return (react_1.default.createElement("div", { className: classes.trackRenderingContainer, style: { height: minimized ? 20 : height }, onScroll: evt => display.setScrollTop(evt.currentTarget.scrollTop), onDragEnter: onDragEnter, "data-testid": `trackRenderingContainer-${model.id}-${trackId}` }, !minimized ? (react_1.default.createElement(react_1.default.Fragment, null,
+        react_1.default.createElement("div", { ref: ref, className: classes.renderingComponentContainer, style: { transform: `scaleX(${model.scaleFactor})` } },
+            react_1.default.createElement(RenderingComponent, { model: display, onHorizontalScroll: model.horizontalScroll })),
+        DisplayBlurb ? (react_1.default.createElement("div", { style: {
+                position: 'absolute',
+                left: 0,
+                top: display.height - 20,
+            } },
+            react_1.default.createElement(DisplayBlurb, { model: display }))) : null)) : null));
+});
+//# sourceMappingURL=TrackRenderingContainer.js.map

package/dist/LinearGenomeView/components/TrackRenderingContainer.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"TrackRenderingContainer.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackRenderingContainer.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAgD;AAChD,uCAA0C;AAC1C,2CAAqC;AAIrC,+DAAqD;AAKrD,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,4EAA4E;IAC5E,4DAA4D;IAC5D,2BAA2B,EAAE;QAC3B,QAAQ,EAAE,UAAU;QACpB,mDAAmD;QACnD,IAAI,EAAE,CAAC,CAAC;QACR,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,MAAM;KACd;IAED,uBAAuB,EAAE;QACvB,SAAS,EAAE,MAAM;QACjB,SAAS,EAAE,QAAQ;QACnB,UAAU,EAAE,QAAQ;QACpB,QAAQ,EAAE,UAAU;QACpB,UAAU,EAAE,MAAM;QAClB,MAAM,EAAE,CAAC;KACV;CACF,CAAC,CAAA;AAIF,kBAAe,IAAA,qBAAQ,EAAC,SAAS,uBAAuB,CAAC,EACvD,KAAK,EACL,KAAK,EACL,WAAW,GAKZ;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,KAAK,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;IACjC,MAAM,EAAE,MAAM,EAAE,kBAAkB,EAAE,YAAY,EAAE,GAAG,OAAO,CAAA;IAC5D,MAAM,OAAO,GAAG,IAAA,uBAAO,EAAC,KAAK,EAAE,SAAS,CAAC,CAAA;IACzC,MAAM,GAAG,GAAG,IAAA,cAAM,EAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,SAAS,GAAG,KAAK,CAAC,SAAS,CAAA;IAEjC,IAAA,iBAAS,EAAC,GAAG,EAAE;QACb,IAAI,GAAG,CAAC,OAAO,EAAE;YACf,KAAK,CAAC,SAAS,CAAC,OAAO,CAAC,GAAG,GAAG,CAAC,OAAO,CAAA;SACvC;QACD,OAAO,GAAG,EAAE;YACV,OAAO,KAAK,CAAC,SAAS,CAAC,OAAO,CAAC,CAAA;QACjC,CAAC,CAAA;IACH,CAAC,EAAE,CAAC,KAAK,CAAC,SAAS,EAAE,OAAO,CAAC,CAAC,CAAA;IAE9B,OAAO,CACL,uCACE,SAAS,EAAE,OAAO,CAAC,uBAAuB,EAC1C,KAAK,EAAE,EAAE,MAAM,EAAE,SAAS,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,MAAM,EAAE,EAC1C,QAAQ,EAAE,GAAG,CAAC,EAAE,CAAC,OAAO,CAAC,YAAY,CAAC,GAAG,CAAC,aAAa,CAAC,SAAS,CAAC,EAClE,WAAW,EAAE,WAAW,iBACX,2BAA2B,KAAK,CAAC,EAAE,IAAI,OAAO,EAAE,IAE5D,CAAC,SAAS,CAAC,CAAC,CAAC,CACZ;QACE,uCACE,GAAG,EAAE,GAAG,EACR,SAAS,EAAE,OAAO,CAAC,2BAA2B,EAC9C,KAAK,EAAE,EAAE,SAAS,EAAE,UAAU,KAAK,CAAC,WAAW,GAAG,EAAE;YAEpD,8BAAC,kBAAkB,IACjB,KAAK,EAAE,OAAO,EACd,kBAAkB,EAAE,KAAK,CAAC,gBAAgB,GAC1C,CACE;QAEL,YAAY,CAAC,CAAC,CAAC,CACd,uCACE,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,IAAI,EAAE,CAAC;gBACP,GAAG,EAAE,OAAO,CAAC,MAAM,GAAG,EAAE;aACzB;YAED,8BAAC,YAAY,IAAC,KAAK,EAAE,OAAO,GAAI,CAC5B,CACP,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAA;AACH,CAAC,CAAC,CAAA"}

package/dist/LinearGenomeView/components/TracksContainer.d.ts

@@ -4,5 +4,5 @@ type LGV = LinearGenomeViewModel;
 declare const _default: ({ children, model, }: {
     children: React.ReactNode;
     model: LGV;
-}) => JSX.Element;
+}) => React.JSX.Element;
 export default _default;

package/dist/LinearGenomeView/components/TracksContainer.js

@@ -40,6 +40,7 @@ const Gridlines_1 = __importDefault(require("./Gridlines"));
 const CenterLine_1 = __importDefault(require("./CenterLine"));
 const VerticalGuide_1 = __importDefault(require("./VerticalGuide"));
 const RubberbandSpan_1 = __importDefault(require("./RubberbandSpan"));
+const util_1 = require("@jbrowse/core/util");
 const useStyles = (0, mui_1.makeStyles)()({
     tracksContainer: {
         position: 'relative',
@@ -48,17 +49,13 @@ const useStyles = (0, mui_1.makeStyles)()({
 });
 exports.default = (0, mobx_react_1.observer)(function TracksContainer({ children, model, }) {
     const { classes } = useStyles();
+    const { pluginManager } = (0, util_1.getEnv)(model);
     const { mouseDown: mouseDown1, mouseUp } = (0, hooks_1.useSideScroll)(model);
     const ref = (0, react_1.useRef)(null);
     const { guideX, rubberbandOn, leftBpOffset, rightBpOffset, numOfBpSelected, width, left, anchorPosition, handleMenuItemClick, open, handleClose, mouseMove, mouseDown: mouseDown2, } = (0, hooks_1.useRangeSelect)(ref, model, true);
     (0, hooks_1.useWheelScroll)(ref, model);
-    return (react_1.default.createElement("div", { ref: ref, "data-testid": "trackContainer", className: classes.tracksContainer, onClick: event => {
-            var _a;
-            if (event.detail === 2) {
-                const left = ((_a = ref.current) === null || _a === void 0 ? void 0 : _a.getBoundingClientRect().left) || 0;
-                model.zoomTo(model.bpPerPx / 2, event.clientX - left, true);
-            }
-        }, onMouseDown: event => {
+    const additional = pluginManager.evaluateExtensionPoint('LinearGenomeView-TracksContainerComponent', undefined, { model });
+    return (react_1.default.createElement("div", { ref: ref, "data-testid": "trackContainer", className: classes.tracksContainer, onMouseDown: event => {
             mouseDown1(event);
             mouseDown2(event);
         }, onMouseMove: mouseMove, onMouseUp: mouseUp },
@@ -70,6 +67,7 @@ exports.default = (0, mobx_react_1.observer)(function TracksContainer({ children
                 top: anchorPosition.clientY,
             }, onMenuItemClick: handleMenuItemClick, open: open, onClose: handleClose, menuItems: model.rubberBandMenuItems() })) : null,
         react_1.default.createElement(Rubberband_1.default, { model: model, ControlComponent: react_1.default.createElement(Scalebar_1.default, { model: model, style: { height: __1.SCALE_BAR_HEIGHT, boxSizing: 'border-box' } }) }),
+        additional,
         children));
 });
 //# sourceMappingURL=TracksContainer.js.map

package/dist/LinearGenomeView/components/TracksContainer.js.map

@@ -1 +1 @@
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+{"version":3,"file":"TracksContainer.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TracksContainer.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAqC;AACrC,uCAA0C;AAC1C,2CAAqC;AACrC,yCAAuC;AAEvC,cAAc;AACd,0BAA4D;AAC5D,mCAAuE;AAEvE,mBAAmB;AACnB,8DAAqC;AACrC,0DAAiC;AACjC,4DAAmC;AACnC,8DAAqC;AACrC,oEAA2C;AAC3C,sEAA6C;AAC7C,6CAA2C;AAE3C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,eAAe,EAAE;QACf,QAAQ,EAAE,UAAU;QACpB,QAAQ,EAAE,QAAQ;KACnB;CACF,CAAC,CAAA;AAIF,kBAAe,IAAA,qBAAQ,EAAC,SAAS,eAAe,CAAC,EAC/C,QAAQ,EACR,KAAK,GAIN;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,aAAa,EAAE,GAAG,IAAA,aAAM,EAAC,KAAK,CAAC,CAAA;IACvC,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,OAAO,EAAE,GAAG,IAAA,qBAAa,EAAC,KAAK,CAAC,CAAA;IAC/D,MAAM,GAAG,GAAG,IAAA,cAAM,EAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,EACJ,MAAM,EACN,YAAY,EACZ,YAAY,EACZ,aAAa,EACb,eAAe,EACf,KAAK,EACL,IAAI,EACJ,cAAc,EACd,mBAAmB,EACnB,IAAI,EACJ,WAAW,EACX,SAAS,EACT,SAAS,EAAE,UAAU,GACtB,GAAG,IAAA,sBAAc,EAAC,GAAG,EAAE,KAAK,EAAE,IAAI,CAAC,CAAA;IACpC,IAAA,sBAAc,EAAC,GAAG,EAAE,KAAK,CAAC,CAAA;IAE1B,MAAM,UAAU,GAAG,aAAa,CAAC,sBAAsB,CACrD,2CAA2C,EAC3C,SAAS,EACT,EAAE,KAAK,EAAE,CACS,CAAA;IAEpB,OAAO,CACL,uCACE,GAAG,EAAE,GAAG,iBACI,gBAAgB,EAC5B,SAAS,EAAE,OAAO,CAAC,eAAe,EAClC,WAAW,EAAE,KAAK,CAAC,EAAE;YACnB,UAAU,CAAC,KAAK,CAAC,CAAA;YACjB,UAAU,CAAC,KAAK,CAAC,CAAA;QACnB,CAAC,EACD,WAAW,EAAE,SAAS,EACtB,SAAS,EAAE,OAAO;QAEjB,KAAK,CAAC,aAAa,CAAC,CAAC,CAAC,8BAAC,mBAAS,IAAC,KAAK,EAAE,KAAK,GAAI,CAAC,CAAC,CAAC,IAAI;QACxD,KAAK,CAAC,cAAc,CAAC,CAAC,CAAC,8BAAC,oBAAU,IAAC,KAAK,EAAE,KAAK,GAAI,CAAC,CAAC,CAAC,IAAI;QAC1D,MAAM,KAAK,SAAS,CAAC,CAAC,CAAC,CACtB,8BAAC,uBAAa,IAAC,KAAK,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,GAAI,CAChD,CAAC,CAAC,CAAC,YAAY,CAAC,CAAC,CAAC,CACjB,8BAAC,wBAAc,IACb,YAAY,EAAE,YAAY,EAC1B,aAAa,EAAE,aAAa,EAC5B,eAAe,EAAE,eAAe,EAChC,KAAK,EAAE,KAAK,EACZ,IAAI,EAAE,IAAI,GACV,CACH,CAAC,CAAC,CAAC,IAAI;QACP,cAAc,CAAC,CAAC,CAAC,CAChB,8BAAC,SAAI,IACH,eAAe,EAAC,gBAAgB,EAChC,cAAc,EAAE;gBACd,IAAI,EAAE,cAAc,CAAC,OAAO;gBAC5B,GAAG,EAAE,cAAc,CAAC,OAAO;aAC5B,EACD,eAAe,EAAE,mBAAmB,EACpC,IAAI,EAAE,IAAI,EACV,OAAO,EAAE,WAAW,EACpB,SAAS,EAAE,KAAK,CAAC,mBAAmB,EAAE,GACtC,CACH,CAAC,CAAC,CAAC,IAAI;QAER,8BAAC,oBAAU,IACT,KAAK,EAAE,KAAK,EACZ,gBAAgB,EACd,8BAAC,kBAAQ,IACP,KAAK,EAAE,KAAK,EACZ,KAAK,EAAE,EAAE,MAAM,EAAE,oBAAgB,EAAE,SAAS,EAAE,YAAY,EAAE,GAC5D,GAEJ;QACD,UAAU;QACV,QAAQ,CACL,CACP,CAAA;AACH,CAAC,CAAC,CAAA"}

package/dist/LinearGenomeView/components/VerticalGuide.d.ts

@@ -1,9 +1,9 @@
-/// <reference types="react" />
+import React from 'react';
 import { LinearGenomeViewModel } from '..';
 type LGV = LinearGenomeViewModel;
 declare function VerticalGuide({ model, coordX }: {
     model: LGV;
     coordX: number;
-}): JSX.Element;
+}): React.JSX.Element;
 declare const _default: typeof VerticalGuide;
 export default _default;

package/dist/LinearGenomeView/components/ZoomControls.d.ts

@@ -1,7 +1,7 @@
-/// <reference types="react" />
+import React from 'react';
 import { LinearGenomeViewModel } from '..';
 declare function ZoomControls({ model }: {
     model: LinearGenomeViewModel;
-}): JSX.Element;
+}): React.JSX.Element;
 declare const _default: typeof ZoomControls;
 export default _default;

package/dist/LinearGenomeView/components/util.js

@@ -39,7 +39,7 @@ exports.getRelativeX = getRelativeX;
 function getCytobands(assembly, refName) {
     var _a;
     return (((_a = assembly === null || assembly === void 0 ? void 0 : assembly.cytobands) === null || _a === void 0 ? void 0 : _a.map(f => ({
-        refName: assembly.getCanonicalRefName(f.get('refName')),
+        refName: assembly.getCanonicalRefName(f.get('refName')) || f.get('refName'),
         start: f.get('start'),
         end: f.get('end'),
         type: f.get('type'),

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

@@ -1 +1 @@
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package/dist/LinearGenomeView/model.d.ts

@@ -1,6 +1,7 @@
 import React from 'react';
 import { Region } from '@jbrowse/core/util/types';
 import { MenuItem } from '@jbrowse/core/ui';
+import { ParsedLocString } from '@jbrowse/core/util';
 import BaseResult from '@jbrowse/core/TextSearch/BaseResults';
 import { BlockSet, BaseBlock } from '@jbrowse/core/util/blockTypes';
 import { Instance } from 'mobx-state-tree';
@@ -44,6 +45,7 @@ export declare const SPACING = 7;
 export declare const WIDGET_HEIGHT = 32;
 /**
  * #stateModel LinearGenomeView
+ * #category view
  */
 export declare function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -89,15 +91,12 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     afterDisplayedRegionsSetCallbacks: Function[];
     scaleFactor: number;
     trackRefs: {
-        [key: string]: any;
+        [key: string]: HTMLDivElement;
     };
     coarseDynamicBlocks: BaseBlock[];
     coarseTotalBp: number;
     leftOffset: BpOffset | undefined;
     rightOffset: BpOffset | undefined;
-    searchResults: BaseResult[] | undefined;
-    searchQuery: string | undefined;
-    seqDialogDisplayed: boolean;
 } & {
     /**
      * #getter
@@ -136,10 +135,6 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
      * #getter
      */
     readonly hasDisplayedRegions: boolean;
-    /**
-     * #getter
-     */
-    readonly isSearchDialogDisplayed: boolean;
     /**
      * #getter
      */
@@ -256,17 +251,15 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
     /**
      * #action
-     * sets offsets used in the get sequence dialog
+     * sets offsets of rubberband, used in the get sequence dialog can call
+     * view.getSelectedRegions(view.leftOffset,view.rightOffset) to compute
+     * the selected regions from the offsets
      */
     setOffsets(left?: BpOffset, right?: BpOffset): void;
     /**
      * #action
      */
-    setSearchResults(results?: BaseResult[], query?: string): void;
-    /**
-     * #action
-     */
-    setGetSequenceDialogOpen(open: boolean): void;
+    setSearchResults(searchResults: BaseResult[], searchQuery: string, assemblyName?: string): void;
     /**
      * #action
      */
@@ -315,10 +308,13 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     /**
      * #method
      * Helper method for the fetchSequence.
-     * Retrieves the corresponding regions that were selected by the rubberband
+     * Retrieves the corresponding regions that were selected by the
+     * rubberband
      *
-     * @param leftOffset - `object as {start, end, index, offset}`, offset = start of user drag
-     * @param rightOffset - `object as {start, end, index, offset}`, offset = end of user drag
+     * @param leftOffset - `object as {start, end, index, offset}`, offset = start
+     * of user drag
+     * @param rightOffset - `object as {start, end, index, offset}`,
+     * offset = end of user drag
      * @returns array of Region[]
      */
     getSelectedRegions(leftOffset?: BpOffset, rightOffset?: BpOffset): {
@@ -336,7 +332,8 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     }[];
     /**
      * #action
-     * schedule something to be run after the next time displayedRegions is set
+     * schedule something to be run after the next time displayedRegions is
+     * set
      */
     afterDisplayedRegionsSet(cb: Function): void;
     /**
@@ -392,8 +389,8 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     readonly anyCytobandsExist: boolean;
     /**
      * #getter
-     * the cytoband is displayed to the right of the chromosome name,
-     * and that offset is calculated manually with this method
+     * the cytoband is displayed to the right of the chromosome name, and
+     * that offset is calculated manually with this method
      */
     readonly cytobandOffset: number;
 } & {
@@ -407,17 +404,16 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
      * #getter
      * static blocks are an important concept jbrowse uses to avoid
      * re-rendering when you scroll to the side. when you horizontally
-     * scroll to the right, old blocks to the left may be removed, and
-     * new blocks may be instantiated on the right. tracks may use the
-     * static blocks to render their data for the region represented by
-     * the block
+     * scroll to the right, old blocks to the left may be removed, and new
+     * blocks may be instantiated on the right. tracks may use the static
+     * blocks to render their data for the region represented by the block
      */
     readonly staticBlocks: BlockSet;
     /**
      * #getter
      * dynamic blocks represent the exact coordinates of the currently
      * visible genome regions on the screen. they are similar to static
-     * blocks, but statcic blocks can go offscreen while dynamic blocks
+     * blocks, but static blocks can go offscreen while dynamic blocks
      * represent exactly what is on screen
      */
     readonly dynamicBlocks: BlockSet;
@@ -428,8 +424,8 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     readonly roundedDynamicBlocks: BaseBlock[];
     /**
      * #getter
-     * a single "combo-locstring" representing all the regions visible
-     * on the screen
+     * a single "combo-locstring" representing all the regions visible on
+     * the screen
      */
     readonly visibleLocStrings: string;
     /**
@@ -446,8 +442,8 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
 } & {
     /**
      * #action
-     * offset is the base-pair-offset in the displayed region, index is the index of the
-     * displayed region in the linear genome view
+     * offset is the base-pair-offset in the displayed region, index is the
+     * index of the displayed region in the linear genome view
      *
      * @param start - object as `{start, end, offset, index}`
      * @param end - object as `{start, end, offset, index}`
@@ -455,19 +451,28 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     moveTo(start?: BpOffset, end?: BpOffset): void;
     /**
      * #action
-     * navigate to the given locstring
+     * Navigate to the given locstring, will change displayed regions if
+     * needed, and wait for assemblies to be initialized
      *
-     * @param locString - e.g. "chr1:1-100"
-     * @param optAssemblyName - (optional) the assembly name to use when navigating to the locstring
+     * @param input - e.g. "chr1:1-100", "chr1:1-100 chr2:1-100", "chr 1 100"
+     * @param optAssemblyName - (optional) the assembly name to use when
+     * navigating to the locstring
+     */
+    navToLocString(input: string, optAssemblyName?: string): Promise<void>;
+    /**
+     * #action
+     * Similar to `navToLocString`, but accepts parsed location objects
+     * instead of strings. Will try to perform `setDisplayedRegions` if
+     * changing regions
      */
-    navToLocString(locString: string, optAssemblyName?: string): Promise<void>;
+    navToLocations(parsedLocStrings: ParsedLocString[], assemblyName?: string): Promise<void>;
     /**
      * #action
      * Navigate to a location based on its refName and optionally start, end,
-     * and assemblyName. Can handle if there are multiple displayedRegions
-     * from same refName. Only navigates to a location if it is entirely
-     * within a displayedRegion. Navigates to the first matching location
-     * encountered.
+     * and assemblyName. Will not try to change displayed regions, use
+     * `navToLocations` instead. Only navigates to a location if it is
+     * entirely within a displayedRegion. Navigates to the first matching
+     * location encountered.
      *
      * Throws an error if navigation was unsuccessful
      *
@@ -476,6 +481,15 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     navTo(query: NavLocation): void;
     /**
      * #action
+     * Navigate to a location based on its refName and optionally start, end,
+     * and assemblyName. Will not try to change displayed regions, use
+     * navToLocations instead. Only navigates to a location if it is entirely
+     * within a displayedRegion. Navigates to the first matching location
+     * encountered.
+     *
+     * Throws an error if navigation was unsuccessful
+     *
+     * @param locations - proposed location to navigate to
      */
     navToMultiple(locations: NavLocation[]): void;
 } & {