@jbrowse/plugin-linear-genome-view 2.2.0 → 2.2.2

package/dist/LinearGenomeView/components/SearchResultsDialog.js

@@ -4,25 +4,12 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importDefault(require("react"));
-const mui_1 = require("tss-react/mui");
 const mobx_state_tree_1 = require("mobx-state-tree");
 const util_1 = require("@jbrowse/core/util");
+const ui_1 = require("@jbrowse/core/ui");
 const material_1 = require("@mui/material");
-const Close_1 = __importDefault(require("@mui/icons-material/Close"));
-const useStyles = (0, mui_1.makeStyles)()(theme => ({
-    dialogContent: {
-        width: '80em',
-    },
-    closeButton: {
-        position: 'absolute',
-        right: theme.spacing(1),
-        top: theme.spacing(1),
-        color: theme.palette.grey[500],
-    },
-}));
 function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
     var _a, _b;
-    const { classes } = useStyles();
     const session = (0, util_1.getSession)(model);
     const { pluginManager } = (0, util_1.getEnv)(session);
     const { assemblyManager } = session;
@@ -41,7 +28,7 @@ function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
         throw new Error(`assembly ${assemblyName} regions not loaded`);
     }
     const assemblyRegions = assembly.regions;
-    function handleClick(location) {
+    async function handleClick(location) {
         try {
             const newRegion = assemblyRegions.find(region => location === region.refName);
             if (newRegion) {
@@ -51,7 +38,7 @@ function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
                 model.showAllRegions();
             }
             else {
-                model.navToLocString(location, assemblyName);
+                await model.navToLocString(location, assemblyName);
             }
         }
         catch (e) {
@@ -68,14 +55,7 @@ function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
         }
         return '';
     }
-    return (react_1.default.createElement(material_1.Dialog, { open: true, maxWidth: "xl", onClose: handleClose },
-        react_1.default.createElement(material_1.DialogTitle, null,
-            "Search results",
-            handleClose ? (react_1.default.createElement(material_1.IconButton, { "data-testid": "close-resultsDialog", className: classes.closeButton, onClick: () => {
-                    handleClose();
-                }, size: "large" },
-                react_1.default.createElement(Close_1.default, null))) : null),
-        react_1.default.createElement(material_1.Divider, null),
+    return (react_1.default.createElement(ui_1.Dialog, { open: true, maxWidth: "xl", onClose: handleClose, title: "Search results" },
         react_1.default.createElement(material_1.DialogContent, null, !((_b = model.searchResults) === null || _b === void 0 ? void 0 : _b.length) ? (react_1.default.createElement(material_1.Typography, null,
             "No results found for ",
             react_1.default.createElement("b", null, model.searchQuery))) : (react_1.default.createElement(react_1.default.Fragment, null,
@@ -95,15 +75,21 @@ function SearchResultsDialog({ model, optAssemblyName, handleClose, }) {
                         react_1.default.createElement(material_1.TableCell, { align: "right" }, result.getLocation()),
                         react_1.default.createElement(material_1.TableCell, { align: "right" }, getTrackName(result.getTrackId()) || 'N/A'),
                         react_1.default.createElement(material_1.TableCell, { align: "right" },
-                            react_1.default.createElement(material_1.Button, { onClick: () => {
-                                    const location = result.getLocation();
-                                    if (location) {
-                                        handleClick(location);
-                                        const resultTrackId = result.getTrackId();
-                                        if (resultTrackId) {
-                                            model.showTrack(resultTrackId);
+                            react_1.default.createElement(material_1.Button, { onClick: async () => {
+                                    try {
+                                        const location = result.getLocation();
+                                        if (location) {
+                                            await handleClick(location);
+                                            const resultTrackId = result.getTrackId();
+                                            if (resultTrackId) {
+                                                model.showTrack(resultTrackId);
+                                            }
                                         }
                                     }
+                                    catch (e) {
+                                        console.error(e);
+                                        session.notify(`${e}`, 'error');
+                                    }
                                     handleClose();
                                 }, color: "primary", variant: "contained" }, "Go"))))))))))),
         react_1.default.createElement(material_1.Divider, null),

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

@@ -1 +1 @@
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+{"version":3,"file":"SearchResultsDialog.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/SearchResultsDialog.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,qDAA4D;AAC5D,6CAAuD;AACvD,yCAAyC;AACzC,4CAasB;AAItB,SAAwB,mBAAmB,CAAC,EAC1C,KAAK,EACL,eAAe,EACf,WAAW,GAKZ;;IACC,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IACjC,MAAM,EAAE,aAAa,EAAE,GAAG,IAAA,aAAM,EAAC,OAAO,CAAC,CAAA;IACzC,MAAM,EAAE,eAAe,EAAE,GAAG,OAAO,CAAA;IACnC,IAAI,YAAY,GAAG,eAAe,CAAA;IAClC,IAAI,KAAK,CAAC,gBAAgB,CAAC,MAAM,GAAG,CAAC,EAAE;QACrC,YAAY,GAAG,MAAA,KAAK,CAAC,gBAAgB,CAAC,CAAC,CAAC,0CAAE,YAAY,CAAA;KACvD;IACD,IAAI,CAAC,YAAY,EAAE;QACjB,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;KAC3C;IACD,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAClD,IAAI,CAAC,QAAQ,EAAE;QACb,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,YAAY,CAAC,CAAA;KACtD;IACD,IAAI,CAAC,QAAQ,CAAC,OAAO,EAAE;QACrB,MAAM,IAAI,KAAK,CAAC,YAAY,YAAY,qBAAqB,CAAC,CAAA;KAC/D;IACD,MAAM,eAAe,GAAG,QAAQ,CAAC,OAAO,CAAA;IAExC,KAAK,UAAU,WAAW,CAAC,QAAgB;QACzC,IAAI;YACF,MAAM,SAAS,GAAG,eAAe,CAAC,IAAI,CACpC,MAAM,CAAC,EAAE,CAAC,QAAQ,KAAK,MAAM,CAAC,OAAO,CACtC,CAAA;YACD,IAAI,SAAS,EAAE;gBACb,KAAK,CAAC,mBAAmB,CAAC,CAAC,SAAS,CAAC,CAAC,CAAA;gBACtC,qEAAqE;gBACrE,6BAA6B;gBAC7B,KAAK,CAAC,cAAc,EAAE,CAAA;aACvB;iBAAM;gBACL,MAAM,KAAK,CAAC,cAAc,CAAC,QAAQ,EAAE,YAAY,CAAC,CAAA;aACnD;SACF;QAAC,OAAO,CAAC,EAAE;YACV,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACf,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,EAAE,SAAS,CAAC,CAAA;SAClC;IACH,CAAC;IAED,SAAS,YAAY,CAAC,OAA2B;;QAC/C,IAAI,OAAO,EAAE;YACX,MAAM,MAAM,GAAG,aAAa,CAAC,yBAAyB,CAAC,OAAO,CAAC,CAAA;YAC/D,MAAM,aAAa,GAAG,IAAA,mCAAiB,EAAC,MAAM,EAAE,IAAA,yBAAO,EAAC,KAAK,CAAC,EAAE,OAAO,CAAC,CAAA;YACxE,OAAO,CAAA,MAAA,aAAa,aAAb,aAAa,uBAAb,aAAa,CAAE,IAAI,0CAAE,KAAK,KAAI,EAAE,CAAA;SACxC;QACD,OAAO,EAAE,CAAA;IACX,CAAC;IAED,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,QAAQ,EAAC,IAAI,EAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,gBAAgB;QACrE,8BAAC,wBAAa,QACX,CAAC,CAAA,MAAA,KAAK,CAAC,aAAa,0CAAE,MAAM,CAAA,CAAC,CAAC,CAAC,CAC9B,8BAAC,qBAAU;;YACY,yCAAI,KAAK,CAAC,WAAW,CAAK,CACpC,CACd,CAAC,CAAC,CAAC,CACF;YACE,8BAAC,qBAAU;;gBACW,yCAAI,KAAK,CAAC,WAAW,CAAK,CACnC;YACb,8BAAC,yBAAc,IAAC,SAAS,EAAE,gBAAK;gBAC9B,8BAAC,gBAAK;oBACJ,8BAAC,oBAAS;wBACR,8BAAC,mBAAQ;4BACP,8BAAC,oBAAS,eAAiB;4BAC3B,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,eAAqB;4BAC7C,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,YAAkB;4BAC1C,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,GAAG,CAClB,CACD;oBACZ,8BAAC,oBAAS,QACP,KAAK,CAAC,aAAa,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE,CAAC,CACjC,8BAAC,mBAAQ,IAAC,GAAG,EAAE,GAAG,MAAM,CAAC,KAAK,EAAE,EAAE;wBAChC,8BAAC,oBAAS,IAAC,SAAS,EAAC,IAAI,EAAC,KAAK,EAAC,KAAK,IAClC,MAAM,CAAC,QAAQ,EAAE,CACR;wBACZ,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,IACrB,MAAM,CAAC,WAAW,EAAE,CACX;wBACZ,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO,IACrB,YAAY,CAAC,MAAM,CAAC,UAAU,EAAE,CAAC,IAAI,KAAK,CACjC;wBACZ,8BAAC,oBAAS,IAAC,KAAK,EAAC,OAAO;4BACtB,8BAAC,iBAAM,IACL,OAAO,EAAE,KAAK,IAAI,EAAE;oCAClB,IAAI;wCACF,MAAM,QAAQ,GAAG,MAAM,CAAC,WAAW,EAAE,CAAA;wCACrC,IAAI,QAAQ,EAAE;4CACZ,MAAM,WAAW,CAAC,QAAQ,CAAC,CAAA;4CAC3B,MAAM,aAAa,GAAG,MAAM,CAAC,UAAU,EAAE,CAAA;4CACzC,IAAI,aAAa,EAAE;gDACjB,KAAK,CAAC,SAAS,CAAC,aAAa,CAAC,CAAA;6CAC/B;yCACF;qCACF;oCAAC,OAAO,CAAC,EAAE;wCACV,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;wCAChB,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,EAAE,OAAO,CAAC,CAAA;qCAChC;oCACD,WAAW,EAAE,CAAA;gCACf,CAAC,EACD,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,SAGZ,CACC,CACH,CACZ,CAAC,CACQ,CACN,CACO,CAChB,CACJ,CACa;QAChB,8BAAC,kBAAO,OAAG;QACX,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IAAC,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,EAAE,KAAK,EAAC,SAAS,aAE5C,CACK,CACT,CACV,CAAA;AACH,CAAC;AAlID,sCAkIC"}

package/dist/LinearGenomeView/components/SequenceSearchDialog.js

@@ -22,29 +22,19 @@ var __importStar = (this && this.__importStar) || function (mod) {
     __setModuleDefault(result, mod);
     return result;
 };
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
 Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importStar(require("react"));
 const material_1 = require("@mui/material");
+const ui_1 = require("@jbrowse/core/ui");
 const mobx_state_tree_1 = require("mobx-state-tree");
 const mui_1 = require("tss-react/mui");
 const mobx_react_1 = require("mobx-react");
 const util_1 = require("@jbrowse/core/util");
-// icons
-const Close_1 = __importDefault(require("@mui/icons-material/Close"));
-const useStyles = (0, mui_1.makeStyles)()(theme => ({
-    closeButton: {
-        position: 'absolute',
-        right: theme.spacing(1),
-        top: theme.spacing(1),
-        color: theme.palette.grey[500],
-    },
+const useStyles = (0, mui_1.makeStyles)()({
     dialogContent: {
         width: '40em',
     },
-}));
+});
 function SequenceDialog({ model, handleClose, }) {
     const { classes } = useStyles();
     const [value, setValue] = (0, react_1.useState)('');
@@ -58,12 +48,7 @@ function SequenceDialog({ model, handleClose, }) {
     catch (e) {
         error = e;
     }
-    return (react_1.default.createElement(material_1.Dialog, { maxWidth: "xl", open: true, onClose: handleClose },
-        react_1.default.createElement(material_1.DialogTitle, null,
-            "Sequence search",
-            handleClose ? (react_1.default.createElement(material_1.IconButton, { className: classes.closeButton, onClick: () => handleClose(), size: "large" },
-                react_1.default.createElement(Close_1.default, null))) : null),
-        react_1.default.createElement(material_1.Divider, null),
+    return (react_1.default.createElement(ui_1.Dialog, { maxWidth: "xl", open: true, onClose: handleClose, title: "Sequence search" },
         react_1.default.createElement(material_1.DialogContent, { className: classes.dialogContent },
             react_1.default.createElement(material_1.Typography, null, "Supply a sequence to search for. A track will be created with the resulting matches once submitted. You can also supply regex style expressions e.g. AACT(C|T)."),
             react_1.default.createElement(material_1.TextField, { value: value, onChange: e => setValue(e.target.value), helperText: "Sequence search pattern" }),

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

@@ -1 +1 @@
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package/dist/LinearGenomeView/components/TrackContainer.d.ts

@@ -1,7 +1,7 @@
 /// <reference types="react" />
 import { BaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models';
 import { LinearGenomeViewModel } from '..';
-declare type LGV = LinearGenomeViewModel;
+type LGV = LinearGenomeViewModel;
 declare function TrackContainer({ model, track, }: {
     model: LGV;
     track: BaseTrackModel;

package/dist/LinearGenomeView/components/TrackContainer.js

@@ -31,6 +31,7 @@ const material_1 = require("@mui/material");
 const mui_1 = require("tss-react/mui");
 const mobx_react_1 = require("mobx-react");
 const mobx_state_tree_1 = require("mobx-state-tree");
+const react_error_boundary_1 = require("react-error-boundary");
 const configuration_1 = require("@jbrowse/core/configuration");
 const ui_1 = require("@jbrowse/core/ui");
 const util_1 = require("@jbrowse/core/util");
@@ -56,7 +57,7 @@ const useStyles = (0, mui_1.makeStyles)()({
     trackLabel: {
         zIndex: 3,
     },
-    // aligns with block bounderies. check for example the breakpoint split view
+    // 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',
@@ -98,6 +99,7 @@ function TrackContainer({ model, track, }) {
     const trackId = (0, configuration_1.getConf)(track, 'trackId');
     const ref = (0, react_1.useRef)(null);
     const dimmed = draggingTrackId !== undefined && draggingTrackId !== display.id;
+    const minimized = track.minimized;
     const debouncedOnDragEnter = (0, util_1.useDebouncedCallback)(() => {
         if ((0, mobx_state_tree_1.isAlive)(display) && dimmed) {
             moveTrack(draggingTrackId, track.id);
@@ -113,15 +115,16 @@ function TrackContainer({ model, track, }) {
     }, [model.trackRefs, trackId]);
     return (react_1.default.createElement(material_1.Paper, { className: classes.root, variant: "outlined" },
         react_1.default.createElement(TrackContainerLabel, { model: track, view: model }),
-        react_1.default.createElement("div", { className: classes.trackRenderingContainer, style: { height }, onScroll: event => display.setScrollTop(event.currentTarget.scrollTop), onDragEnter: debouncedOnDragEnter, "data-testid": `trackRenderingContainer-${model.id}-${trackId}` },
-            react_1.default.createElement("div", { ref: ref, className: classes.renderingComponentContainer, style: { transform: `scaleX(${model.scaleFactor})` } },
-                react_1.default.createElement(RenderingComponent, { model: display, onHorizontalScroll: horizontalScroll })),
-            DisplayBlurb ? (react_1.default.createElement("div", { style: {
-                    position: 'absolute',
-                    left: 0,
-                    top: display.height - 20,
-                } },
-                react_1.default.createElement(DisplayBlurb, { model: display }))) : null),
+        react_1.default.createElement(react_error_boundary_1.ErrorBoundary, { key: track.id, FallbackComponent: ({ error }) => react_1.default.createElement(ui_1.ErrorMessage, { error: error }) },
+            react_1.default.createElement("div", { className: classes.trackRenderingContainer, style: { height: minimized ? 20 : height }, onScroll: evt => display.setScrollTop(evt.currentTarget.scrollTop), onDragEnter: debouncedOnDragEnter, "data-testid": `trackRenderingContainer-${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: 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)),
         react_1.default.createElement("div", { className: classes.overlay, style: {
                 height: display.height,
                 background: dimmed ? 'rgba(0, 0, 0, 0.4)' : undefined,

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

@@ -1 +1 @@
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+{"version":3,"file":"TrackContainer.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/TrackContainer.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAgD;AAChD,4CAAqC;AACrC,uCAA0C;AAC1C,2CAAqC;AACrC,qDAAyC;AACzC,+DAAoD;AAIpD,+DAAqD;AACrD,yCAA6D;AAC7D,6CAAyD;AAIzD,8DAAqC;AAErC,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,IAAI,EAAE;QACJ,SAAS,EAAE,CAAC;KACb;IACD,YAAY,EAAE;QACZ,MAAM,EAAE,CAAC;QACT,SAAS,EAAE,YAAY;QACvB,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,CAAC;KACV;IACD,OAAO,EAAE;QACP,aAAa,EAAE,MAAM;QACrB,QAAQ,EAAE,UAAU;QACpB,GAAG,EAAE,CAAC;QACN,IAAI,EAAE,CAAC;QACP,KAAK,EAAE,MAAM;QACb,MAAM,EAAE,CAAC;KACV;IACD,UAAU,EAAE;QACV,MAAM,EAAE,CAAC;KACV;IAED,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;IACD,gBAAgB,EAAE;QAChB,QAAQ,EAAE,UAAU;QACpB,OAAO,EAAE,cAAc;KACxB;IACD,iBAAiB,EAAE;QACjB,QAAQ,EAAE,UAAU;KACrB;IACD,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,MAAM,mBAAmB,GAAG,IAAA,qBAAQ,EAClC,CAAC,EAAE,KAAK,EAAE,IAAI,EAAwC,EAAE,EAAE;IACxD,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,CACF,CAAA;AAED,SAAS,cAAc,CAAC,EACtB,KAAK,EACL,KAAK,GAIN;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,KAAK,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;IACjC,MAAM,EAAE,gBAAgB,EAAE,eAAe,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IAC9D,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,EAAC,IAAI,CAAC,CAAA;IACxB,MAAM,MAAM,GAAG,eAAe,KAAK,SAAS,IAAI,eAAe,KAAK,OAAO,CAAC,EAAE,CAAA;IAC9E,MAAM,SAAS,GAAG,KAAK,CAAC,SAAS,CAAA;IACjC,MAAM,oBAAoB,GAAG,IAAA,2BAAoB,EAAC,GAAG,EAAE;QACrD,IAAI,IAAA,yBAAO,EAAC,OAAO,CAAC,IAAI,MAAM,EAAE;YAC9B,SAAS,CAAC,eAAe,EAAE,KAAK,CAAC,EAAE,CAAC,CAAA;SACrC;IACH,CAAC,EAAE,GAAG,CAAC,CAAA;IACP,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,8BAAC,gBAAK,IAAC,SAAS,EAAE,OAAO,CAAC,IAAI,EAAE,OAAO,EAAC,UAAU;QAChD,8BAAC,mBAAmB,IAAC,KAAK,EAAE,KAAK,EAAE,IAAI,EAAE,KAAK,GAAI;QAClD,8BAAC,oCAAa,IACZ,GAAG,EAAE,KAAK,CAAC,EAAE,EACb,iBAAiB,EAAE,CAAC,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,8BAAC,iBAAY,IAAC,KAAK,EAAE,KAAK,GAAI;YAEhE,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,oBAAoB,iBACpB,2BAA2B,KAAK,CAAC,EAAE,IAAI,OAAO,EAAE,IAE5D,CAAC,SAAS,CAAC,CAAC,CAAC,CACZ;gBACE,uCACE,GAAG,EAAE,GAAG,EACR,SAAS,EAAE,OAAO,CAAC,2BAA2B,EAC9C,KAAK,EAAE,EAAE,SAAS,EAAE,UAAU,KAAK,CAAC,WAAW,GAAG,EAAE;oBAEpD,8BAAC,kBAAkB,IACjB,KAAK,EAAE,OAAO,EACd,kBAAkB,EAAE,gBAAgB,GACpC,CACE;gBAEL,YAAY,CAAC,CAAC,CAAC,CACd,uCACE,KAAK,EAAE;wBACL,QAAQ,EAAE,UAAU;wBACpB,IAAI,EAAE,CAAC;wBACP,GAAG,EAAE,OAAO,CAAC,MAAM,GAAG,EAAE;qBACzB;oBAED,8BAAC,YAAY,IAAC,KAAK,EAAE,OAAO,GAAI,CAC5B,CACP,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAC,CAAC,CAAC,IAAI,CACJ,CACQ;QAChB,uCACE,SAAS,EAAE,OAAO,CAAC,OAAO,EAC1B,KAAK,EAAE;gBACL,MAAM,EAAE,OAAO,CAAC,MAAM;gBACtB,UAAU,EAAE,MAAM,CAAC,CAAC,CAAC,oBAAoB,CAAC,CAAC,CAAC,SAAS;aACtD,EACD,WAAW,EAAE,oBAAoB,GACjC;QACF,8BAAC,iBAAY,IACX,MAAM,EAAE,OAAO,CAAC,YAAY,EAC5B,SAAS,EAAE,OAAO,CAAC,YAAY,GAC/B,CACI,CACT,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,cAAc,CAAC,CAAA"}

package/dist/LinearGenomeView/components/TrackLabel.js

@@ -16,6 +16,8 @@ const hooks_1 = require("material-ui-popup-state/hooks");
 const MoreVert_1 = __importDefault(require("@mui/icons-material/MoreVert"));
 const DragIndicator_1 = __importDefault(require("@mui/icons-material/DragIndicator"));
 const Close_1 = __importDefault(require("@mui/icons-material/Close"));
+const Minimize_1 = __importDefault(require("@mui/icons-material/Minimize"));
+const Add_1 = __importDefault(require("@mui/icons-material/Add"));
 const useStyles = (0, mui_1.makeStyles)()(theme => ({
     root: {
         background: (0, material_1.alpha)(theme.palette.background.paper, 0.8),
@@ -51,6 +53,7 @@ const TrackLabel = react_1.default.forwardRef(({ track, className }, ref) => {
     const view = (0, util_1.getContainingView)(track);
     const session = (0, util_1.getSession)(track);
     const trackConf = track.configuration;
+    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)({
@@ -58,6 +61,11 @@ const TrackLabel = react_1.default.forwardRef(({ track, className }, ref) => {
         variant: 'popover',
     });
     const items = [
+        {
+            label: minimized ? 'Restore track' : 'Minimize track',
+            icon: minimized ? Add_1.default : Minimize_1.default,
+            onClick: () => track.setMinimized(!minimized),
+        },
         ...(((_a = session.getTrackActionMenuItems) === null || _a === void 0 ? void 0 : _a.call(session, trackConf)) || []),
         ...track.trackMenuItems(),
     ].sort((a, b) => (b.priority || 0) - (a.priority || 0));
@@ -73,7 +81,7 @@ const TrackLabel = react_1.default.forwardRef(({ track, className }, ref) => {
             react_1.default.createElement(DragIndicator_1.default, { className: classes.dragHandleIcon, fontSize: "small" })),
         react_1.default.createElement(material_1.IconButton, { onClick: () => view.hideTrack(trackId), className: classes.iconButton, title: "close this track", color: "secondary" },
             react_1.default.createElement(Close_1.default, { fontSize: "small" })),
-        react_1.default.createElement(material_1.Typography, { variant: "body1", component: "span", className: classes.trackName }, trackName),
+        react_1.default.createElement(material_1.Typography, { variant: "body1", component: "span", className: classes.trackName }, trackName + (minimized ? ' (minimized)' : '')),
         react_1.default.createElement(material_1.IconButton, { ...(0, hooks_1.bindTrigger)(popupState), className: classes.iconButton, color: "secondary", "data-testid": "track_menu_icon", disabled: !items.length },
             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 })));

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

@@ -1 +1 @@
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package/dist/LinearGenomeView/components/TracksContainer.d.ts

@@ -1,6 +1,6 @@
 import React from 'react';
 import { LinearGenomeViewModel } from '..';
-declare type LGV = LinearGenomeViewModel;
+type LGV = LinearGenomeViewModel;
 declare function TracksContainer({ children, model, }: {
     children: React.ReactNode;
     model: LGV;

package/dist/LinearGenomeView/components/TracksContainer.js

@@ -29,13 +29,17 @@ 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 normalize_wheel_1 = __importDefault(require("normalize-wheel"));
-// locals
+const ui_1 = require("@jbrowse/core/ui");
+// local utils
 const __1 = require("..");
-const RubberBand_1 = __importDefault(require("./RubberBand"));
-const ScaleBar_1 = __importDefault(require("./ScaleBar"));
+const hooks_1 = require("./hooks");
+// local components
+const Rubberband_1 = __importDefault(require("./Rubberband"));
+const Scalebar_1 = __importDefault(require("./Scalebar"));
 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 useStyles = (0, mui_1.makeStyles)()({
     tracksContainer: {
         position: 'relative',
@@ -48,123 +52,22 @@ const useStyles = (0, mui_1.makeStyles)()({
 });
 function TracksContainer({ children, model, }) {
     const { classes } = useStyles();
-    // refs are to store these variables to avoid repeated rerenders associated
-    // with useState/setState
-    const delta = (0, react_1.useRef)(0);
-    const scheduled = (0, react_1.useRef)(false);
-    const timeout = (0, react_1.useRef)();
+    const { mouseDown: mouseDown1, mouseUp } = (0, hooks_1.useSideScroll)(model);
     const ref = (0, react_1.useRef)(null);
-    const prevX = (0, react_1.useRef)(0);
-    const [mouseDragging, setMouseDragging] = (0, react_1.useState)(false);
-    (0, react_1.useEffect)(() => {
-        let cleanup = () => { };
-        function globalMouseMove(event) {
-            event.preventDefault();
-            const currX = event.clientX;
-            const distance = currX - prevX.current;
-            if (distance) {
-                // use rAF to make it so multiple event handlers aren't fired per-frame
-                // see https://calendar.perfplanet.com/2013/the-runtime-performance-checklist/
-                if (!scheduled.current) {
-                    scheduled.current = true;
-                    window.requestAnimationFrame(() => {
-                        model.horizontalScroll(-distance);
-                        scheduled.current = false;
-                        prevX.current = event.clientX;
-                    });
-                }
-            }
-        }
-        function globalMouseUp() {
-            prevX.current = 0;
-            if (mouseDragging) {
-                setMouseDragging(false);
-            }
-        }
-        if (mouseDragging) {
-            window.addEventListener('mousemove', globalMouseMove, true);
-            window.addEventListener('mouseup', globalMouseUp, true);
-            cleanup = () => {
-                window.removeEventListener('mousemove', globalMouseMove, true);
-                window.removeEventListener('mouseup', globalMouseUp, true);
-            };
-        }
-        return cleanup;
-    }, [model, mouseDragging, prevX]);
-    function mouseDown(event) {
-        // check if clicking a draggable element or a resize handle
-        const target = event.target;
-        if (target.draggable || target.dataset.resizer) {
-            return;
-        }
-        // otherwise do click and drag scroll
-        if (event.button === 0) {
-            prevX.current = event.clientX;
-            setMouseDragging(true);
-        }
-    }
-    // this local mouseup is used in addition to the global because sometimes
-    // the global add/remove are not called in time, resulting in issue #533
-    function mouseUp(event) {
-        event.preventDefault();
-        setMouseDragging(false);
-    }
-    function mouseLeave(event) {
-        event.preventDefault();
-    }
-    (0, react_1.useEffect)(() => {
-        const curr = ref.current;
-        // if ctrl is held down, zoom in with y-scroll
-        // else scroll horizontally with x-scroll
-        function onWheel(origEvent) {
-            const event = (0, normalize_wheel_1.default)(origEvent);
-            if (origEvent.ctrlKey === true) {
-                origEvent.preventDefault();
-                delta.current += event.pixelY / 500;
-                model.setScaleFactor(delta.current < 0 ? 1 - delta.current : 1 / (1 + delta.current));
-                if (timeout.current) {
-                    clearTimeout(timeout.current);
-                }
-                timeout.current = setTimeout(() => {
-                    model.setScaleFactor(1);
-                    model.zoomTo(delta.current > 0
-                        ? model.bpPerPx * (1 + delta.current)
-                        : model.bpPerPx / (1 - delta.current));
-                    delta.current = 0;
-                }, 300);
-            }
-            else {
-                // this is needed to stop the event from triggering "back button
-                // action" on MacOSX etc.  but is a heuristic to avoid preventing the
-                // inner-track scroll behavior
-                if (Math.abs(event.pixelX) > Math.abs(2 * event.pixelY)) {
-                    origEvent.preventDefault();
-                }
-                delta.current += event.pixelX;
-                if (!scheduled.current) {
-                    // use rAF to make it so multiple event handlers aren't fired per-frame
-                    // see https://calendar.perfplanet.com/2013/the-runtime-performance-checklist/
-                    scheduled.current = true;
-                    window.requestAnimationFrame(() => {
-                        model.horizontalScroll(delta.current);
-                        delta.current = 0;
-                        scheduled.current = false;
-                    });
-                }
-            }
-        }
-        if (curr) {
-            curr.addEventListener('wheel', onWheel);
-            return () => {
-                curr.removeEventListener('wheel', onWheel);
-            };
-        }
-        return () => { };
-    }, [model]);
-    return (react_1.default.createElement("div", { ref: ref, "data-testid": "trackContainer", className: classes.tracksContainer, onMouseDown: mouseDown, onMouseUp: mouseUp, onMouseLeave: mouseLeave },
+    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, onMouseDown: event => {
+            mouseDown1(event);
+            mouseDown2(event);
+        }, onMouseMove: mouseMove, onMouseUp: mouseUp },
         model.showGridlines ? react_1.default.createElement(Gridlines_1.default, { model: model }) : null,
         model.showCenterLine ? react_1.default.createElement(CenterLine_1.default, { model: model }) : 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' } }) }),
+        guideX !== undefined ? (react_1.default.createElement(VerticalGuide_1.default, { model: model, coordX: guideX })) : rubberbandOn ? (react_1.default.createElement(RubberbandSpan_1.default, { leftBpOffset: leftBpOffset, rightBpOffset: rightBpOffset, numOfBpSelected: numOfBpSelected, width: width, left: left })) : null,
+        anchorPosition ? (react_1.default.createElement(ui_1.Menu, { anchorReference: "anchorPosition", anchorPosition: {
+                left: anchorPosition.clientX,
+                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' } }) }),
         children));
 }
 exports.default = (0, mobx_react_1.observer)(TracksContainer);

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

@@ -1 +1 @@
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package/dist/LinearGenomeView/components/VerticalGuide.d.ts

@@ -0,0 +1,9 @@
+/// <reference types="react" />
+import { LinearGenomeViewModel } from '..';
+type LGV = LinearGenomeViewModel;
+declare function VerticalGuide({ model, coordX }: {
+    model: LGV;
+    coordX: number;
+}): JSX.Element;
+declare const _default: typeof VerticalGuide;
+export default _default;

package/dist/LinearGenomeView/components/VerticalGuide.js

@@ -0,0 +1,29 @@
+"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 material_1 = require("@mui/material");
+const mui_1 = require("tss-react/mui");
+const mobx_react_1 = require("mobx-react");
+const util_1 = require("@jbrowse/core/util");
+const useStyles = (0, mui_1.makeStyles)()({
+    guide: {
+        pointerEvents: 'none',
+        height: '100%',
+        width: 1,
+        position: 'absolute',
+        zIndex: 10,
+    },
+});
+function VerticalGuide({ model, coordX }) {
+    const { classes } = useStyles();
+    return (react_1.default.createElement(material_1.Tooltip, { open: true, placement: "top", title: (0, util_1.stringify)(model.pxToBp(coordX)), arrow: true },
+        react_1.default.createElement("div", { className: classes.guide, style: {
+                left: coordX,
+                background: 'red',
+            } })));
+}
+exports.default = (0, mobx_react_1.observer)(VerticalGuide);
+//# sourceMappingURL=VerticalGuide.js.map

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

@@ -0,0 +1 @@
+{"version":3,"file":"VerticalGuide.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/VerticalGuide.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,4CAAuC;AACvC,uCAA0C;AAC1C,2CAAqC;AACrC,6CAA8C;AAO9C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,KAAK,EAAE;QACL,aAAa,EAAE,MAAM;QACrB,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,CAAC;QACR,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,EAAE;KACX;CACF,CAAC,CAAA;AAEF,SAAS,aAAa,CAAC,EAAE,KAAK,EAAE,MAAM,EAAkC;IACtE,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,OAAO,CACL,8BAAC,kBAAO,IAAC,IAAI,QAAC,SAAS,EAAC,KAAK,EAAC,KAAK,EAAE,IAAA,gBAAS,EAAC,KAAK,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,EAAE,KAAK;QACzE,uCACE,SAAS,EAAE,OAAO,CAAC,KAAK,EACxB,KAAK,EAAE;gBACL,IAAI,EAAE,MAAM;gBACZ,UAAU,EAAE,KAAK;aAClB,GACD,CACM,CACX,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,aAAa,CAAC,CAAA"}

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

@@ -0,0 +1,65 @@
+import React from 'react';
+import { LinearGenomeViewModel } from '..';
+type LGV = LinearGenomeViewModel;
+export declare function useSideScroll(model: LGV): {
+    mouseDown: (event: React.MouseEvent) => void;
+    mouseUp: (event: React.MouseEvent) => void;
+};
+interface AnchorPosition {
+    offsetX: number;
+    clientX: number;
+    clientY: number;
+}
+export declare function useRangeSelect(ref: React.RefObject<HTMLDivElement>, model: LGV, shiftOnly?: boolean): {
+    open: boolean;
+    guideX: number | undefined;
+    mouseDown: (event: React.MouseEvent<HTMLDivElement>) => void;
+    mouseMove: (event: React.MouseEvent<HTMLDivElement>) => void;
+    mouseOut: () => void;
+    handleMenuItemClick: (_: unknown, callback: Function) => void;
+    rubberbandOn?: undefined;
+    handleClose?: undefined;
+    leftBpOffset?: undefined;
+    rightBpOffset?: undefined;
+    anchorPosition?: undefined;
+    numOfBpSelected?: undefined;
+    width?: undefined;
+    left?: undefined;
+} | {
+    open: boolean;
+    rubberbandOn: boolean;
+    mouseDown: (event: React.MouseEvent<HTMLDivElement>) => void;
+    mouseMove: (event: React.MouseEvent<HTMLDivElement>) => void;
+    mouseOut: () => void;
+    handleClose: () => void;
+    handleMenuItemClick: (_: unknown, callback: Function) => void;
+    leftBpOffset: {
+        coord: number;
+        index: number;
+        refName: string;
+        oob: boolean;
+        assemblyName: string;
+        offset: number;
+        start: number;
+        end: number;
+        reversed: boolean;
+    };
+    rightBpOffset: {
+        coord: number;
+        index: number;
+        refName: string;
+        oob: boolean;
+        assemblyName: string;
+        offset: number;
+        start: number;
+        end: number;
+        reversed: boolean;
+    };
+    anchorPosition: AnchorPosition | undefined;
+    numOfBpSelected: number;
+    width: number;
+    left: number;
+    guideX?: undefined;
+};
+export declare function useWheelScroll(ref: React.RefObject<HTMLDivElement>, model: LGV): void;
+export {};