@jbrowse/plugin-variants 1.6.4 → 1.6.7

package/dist/plugin-variants.esm.js

@@ -22,11 +22,10 @@ import { ObservableCreate } from '@jbrowse/core/util/rxjs';
 import { TabixIndexedFile } from '@gmod/tabix';
 import IntervalTree from '@flatten-js/interval-tree';
 import { unzip } from '@gmod/bgzf-filehandle';
-import { Dialog, DialogTitle, IconButton, Divider, DialogContent, FormControlLabel, Checkbox, DialogActions, Button, Paper, Typography, TextField, Link } from '@material-ui/core';
+import { Dialog, DialogTitle, IconButton, Divider, DialogContent, FormControlLabel, Checkbox, DialogActions, Button, makeStyles, Paper, Typography, TextField, Link } from '@material-ui/core';
 import SimpleFeature from '@jbrowse/core/util/simpleFeature';
 import { DataGrid } from '@mui/x-data-grid';
 import { FeatureDetails, BaseCard } from '@jbrowse/core/BaseFeatureWidget/BaseFeatureDetail';
-import { makeStyles } from '@material-ui/core/styles';
 import CloseIcon from '@material-ui/icons/Close';
 
 function ownKeys(object, enumerableOnly) {
@@ -1838,7 +1837,7 @@ var VariantsPlugin = /*#__PURE__*/function (_Plugin) {
       });
       pluginManager.addToExtensionPoint('Core-guessTrackTypeForLocation', function (trackTypeGuesser) {
         return function (adapterName) {
-          if (adapterName === 'VcfTabixAdapter') {
+          if (adapterName === 'VcfTabixAdapter' || adapterName === 'VcfAdapter') {
             return 'VariantTrack';
           }
 
@@ -2619,7 +2618,7 @@ function BreakendOptionDialog(_ref) {
   }, /*#__PURE__*/React.createElement(DialogTitle, null, "Breakpoint split view options", handleClose ? /*#__PURE__*/React.createElement(IconButton, {
     className: classes.closeButton,
     onClick: function onClick() {
-      handleClose();
+      return handleClose();
     }
   }, /*#__PURE__*/React.createElement(CloseIcon, null)) : null), /*#__PURE__*/React.createElement(Divider, null), /*#__PURE__*/React.createElement(DialogContent, null, /*#__PURE__*/React.createElement(FormControlLabel, {
     className: classes.block,
@@ -2647,14 +2646,21 @@ function BreakendOptionDialog(_ref) {
     onClick: function onClick() {
       var view = model.view;
       var session = getSession(model);
-      var viewSnapshot = viewType.snapshotFromBreakendFeature(feature, view);
-      viewSnapshot.views[0].offsetPx -= view.width / 2 + 100;
-      viewSnapshot.views[1].offsetPx -= view.width / 2 + 100;
-      viewSnapshot.featureData = feature;
-      var viewTracks = getSnapshot(view.tracks);
-      viewSnapshot.views[0].tracks = viewTracks;
-      viewSnapshot.views[1].tracks = mirrorTracks ? viewTracks.slice().reverse() : viewTracks;
-      session.addView('BreakpointSplitView', viewSnapshot);
+
+      try {
+        var viewSnapshot = viewType.snapshotFromBreakendFeature(feature, view);
+        viewSnapshot.views[0].offsetPx -= view.width / 2 + 100;
+        viewSnapshot.views[1].offsetPx -= view.width / 2 + 100;
+        viewSnapshot.featureData = feature;
+        var viewTracks = getSnapshot(view.tracks);
+        viewSnapshot.views[0].tracks = viewTracks;
+        viewSnapshot.views[1].tracks = mirrorTracks ? viewTracks.slice().reverse() : viewTracks;
+        session.addView('BreakpointSplitView', viewSnapshot);
+      } catch (e) {
+        console.error(e);
+        session.notify("".concat(e));
+      }
+
       handleClose();
     },
     variant: "contained",
@@ -2662,11 +2668,10 @@ function BreakendOptionDialog(_ref) {
     autoFocus: true
   }, "OK"), /*#__PURE__*/React.createElement(Button, {
     onClick: function onClick() {
-      handleClose();
+      return handleClose();
     },
     color: "secondary",
-    variant: "contained",
-    autoFocus: true
+    variant: "contained"
   }, "Cancel")));
 }
 
@@ -2799,12 +2804,17 @@ function BreakendPanel(props) {
         event.preventDefault();
         var view = model.view;
 
-        if (view) {
-          var _view$navToLocString;
+        try {
+          if (view) {
+            var _view$navToLocString;
 
-          (_view$navToLocString = view.navToLocString) === null || _view$navToLocString === void 0 ? void 0 : _view$navToLocString.call(view, locString);
-        } else {
-          session.notify('No view associated with this feature detail panel anymore', 'warning');
+            (_view$navToLocString = view.navToLocString) === null || _view$navToLocString === void 0 ? void 0 : _view$navToLocString.call(view, locString);
+          } else {
+            throw new Error('No view associated with this feature detail panel anymore');
+          }
+        } catch (e) {
+          console.error(e);
+          session.notify("".concat(e));
         }
       }
     }, "LGV - ".concat(locString)));