react-msaview 4.4.0 → 4.4.2

package/dist/colorSchemes.js

@@ -1,7 +1,7 @@
 import { blue, green, orange, red } from '@mui/material/colors';
 import { colord, extend } from 'colord';
 import namesPlugin from 'colord/plugins/names';
-import { transform } from './util';
+import { isBlank, transform } from './util';
 extend([namesPlugin]);
 const colorSchemes = {
     none: {},
@@ -443,7 +443,7 @@ export function getPercentIdentityColor(stats, total, model, row, col) {
     let ent = 0;
     let letter = '';
     for (const entry of entries) {
-        if (entry[1] > ent && entry[0] !== '-') {
+        if (entry[1] > ent && !isBlank(entry[0])) {
             letter = entry[0];
             ent = entry[1];
         }

package/dist/colorSchemes.js.map

@@ -1 +1 @@
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package/dist/components/VerticalScrollbar.js

@@ -1,6 +1,6 @@
 import React, { useEffect, useRef, useState } from 'react';
+import { clamp } from '@jbrowse/core/util';
 import { observer } from 'mobx-react';
-import { clamp } from '../util';
 const VerticalScrollbar = observer(({ model }) => {
     const { msaAreaHeight, scrollY, totalHeight } = model;
     const [hovered, setHovered] = useState(false);
@@ -18,7 +18,7 @@ const VerticalScrollbar = observer(({ model }) => {
                 if (!scheduled.current) {
                     scheduled.current = true;
                     window.requestAnimationFrame(() => {
-                        model.setScrollY(clamp(-totalHeight, mouseDown.scrollY - (event.clientY - mouseDown.clientY) / unit, 0));
+                        model.setScrollY(clamp(mouseDown.scrollY - (event.clientY - mouseDown.clientY) / unit, -totalHeight, 0));
                         scheduled.current = false;
                     });
                 }

package/dist/components/VerticalScrollbar.js.map

@@ -1 +1 @@
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+{"version":3,"file":"VerticalScrollbar.js","sourceRoot":"","sources":["../../src/components/VerticalScrollbar.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAE1D,OAAO,EAAE,KAAK,EAAE,MAAM,oBAAoB,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,MAAM,iBAAiB,GAAG,QAAQ,CAAC,CAAC,EAAE,KAAK,EAA2B,EAAE,EAAE;IACxE,MAAM,EAAE,aAAa,EAAE,OAAO,EAAE,WAAW,EAAE,GAAG,KAAK,CAAA;IACrD,MAAM,CAAC,OAAO,EAAE,UAAU,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC7C,MAAM,SAAS,GAAG,MAAM,CAAC,KAAK,CAAC,CAAA;IAC/B,MAAM,CAAC,SAAS,EAAE,YAAY,CAAC,GAAG,QAAQ,EAGtC,CAAA;IACJ,MAAM,IAAI,GAAG,yBAAyB,CAAA;IACtC,MAAM,IAAI,GAAG,aAAa,GAAG,WAAW,CAAA;IACxC,MAAM,GAAG,GAAG,CAAC,OAAO,CAAA;IACpB,MAAM,MAAM,GAAG,GAAG,GAAG,aAAa,CAAA;IAClC,MAAM,CAAC,GAAG,GAAG,GAAG,IAAI,CAAA;IACpB,MAAM,CAAC,GAAG,MAAM,GAAG,IAAI,CAAA;IACvB,SAAS,CAAC,GAAG,EAAE;QACb,SAAS,EAAE,CAAC,KAAiB;YAC3B,IAAI,SAAS,KAAK,SAAS,EAAE,CAAC;gBAC5B,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,CAAC;oBACvB,SAAS,CAAC,OAAO,GAAG,IAAI,CAAA;oBACxB,MAAM,CAAC,qBAAqB,CAAC,GAAG,EAAE;wBAChC,KAAK,CAAC,UAAU,CACd,KAAK,CACH,SAAS,CAAC,OAAO,GAAG,CAAC,KAAK,CAAC,OAAO,GAAG,SAAS,CAAC,OAAO,CAAC,GAAG,IAAI,EAC9D,CAAC,WAAW,EACZ,CAAC,CACF,CACF,CAAA;wBACD,SAAS,CAAC,OAAO,GAAG,KAAK,CAAA;oBAC3B,CAAC,CAAC,CAAA;gBACJ,CAAC;YACH,CAAC;QACH,CAAC;QACD,SAAS,GAAG;YACV,YAAY,CAAC,SAAS,CAAC,CAAA;QACzB,CAAC;QACD,IAAI,SAAS,KAAK,SAAS,EAAE,CAAC;YAC5B,QAAQ,CAAC,gBAAgB,CAAC,WAAW,EAAE,EAAE,CAAC,CAAA;YAC1C,QAAQ,CAAC,gBAAgB,CAAC,SAAS,EAAE,GAAG,CAAC,CAAA;YACzC,OAAO,GAAG,EAAE;gBACV,QAAQ,CAAC,mBAAmB,CAAC,WAAW,EAAE,EAAE,CAAC,CAAA;gBAC7C,QAAQ,CAAC,mBAAmB,CAAC,WAAW,EAAE,GAAG,CAAC,CAAA;YAChD,CAAC,CAAA;QACH,CAAC;IACH,CAAC,EAAE,CAAC,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,SAAS,CAAC,CAAC,CAAA;IACzC,OAAO,CACL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,KAAK,EAAE,EAAE;YACT,MAAM,EAAE,aAAa;YACrB,UAAU,EAAE,gBAAgB;YAC5B,SAAS,EAAE,gBAAgB;YAC3B,SAAS,EAAE,YAAY;SACxB;QAED,6BACE,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,GAAG,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC;gBACnB,IAAI,EAAE,CAAC;gBACP,UAAU,EAAE,OAAO,CAAC,CAAC,CAAC,sBAAsB,CAAC,CAAC,CAAC,IAAI;gBACnD,MAAM,EAAE,SAAS;gBACjB,SAAS,EAAE,YAAY;gBACvB,KAAK,EAAE,EAAE;gBACT,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC;gBAC3B,MAAM,EAAE,GAAG;aACZ,EACD,WAAW,EAAE,GAAG,EAAE;gBAChB,UAAU,CAAC,IAAI,CAAC,CAAA;YAClB,CAAC,EACD,UAAU,EAAE,GAAG,EAAE;gBACf,UAAU,CAAC,KAAK,CAAC,CAAA;YACnB,CAAC,EACD,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,YAAY,CAAC;oBACX,OAAO,EAAE,KAAK,CAAC,OAAO;oBACtB,OAAO,EAAE,KAAK,CAAC,OAAO;iBACvB,CAAC,CAAA;YACJ,CAAC,GACD,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AACF,eAAe,iBAAiB,CAAA"}

package/dist/components/dialogs/SettingsDialog.js

@@ -16,6 +16,7 @@ const useStyles = makeStyles()(theme => ({
         width: '80em',
     },
 }));
+const toP = (s = 0) => +(+s).toFixed(1);
 const SettingsContent = observer(function ({ model }) {
     return (React.createElement(React.Fragment, null,
         React.createElement(TreeSettings, { model: model }),
@@ -82,7 +83,7 @@ const MSASettings = observer(function MSASettings({ model, }) {
         React.createElement("div", { className: classes.flex },
             React.createElement(Typography, null,
                 "Column width (",
-                colWidth,
+                toP(colWidth),
                 "px)"),
             React.createElement(Slider, { className: classes.field, min: 1, max: 50, value: colWidth, onChange: (_, val) => {
                     model.setColWidth(val);
@@ -90,7 +91,7 @@ const MSASettings = observer(function MSASettings({ model, }) {
         React.createElement("div", { className: classes.flex },
             React.createElement(Typography, null,
                 "Row height (",
-                rowHeight,
+                toP(rowHeight),
                 "px)"),
             React.createElement(Slider, { className: classes.field, min: 1, max: 50, value: rowHeight, onChange: (_, val) => {
                     model.setRowHeight(val);

package/dist/components/dialogs/SettingsDialog.js.map

@@ -1 +1 @@
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package/dist/components/header/Header.js

@@ -3,11 +3,11 @@ import useMeasure from '@jbrowse/core/util/useMeasure';
 import Help from '@mui/icons-material/Help';
 import { IconButton } from '@mui/material';
 import { observer } from 'mobx-react';
+import SettingsMenu from './SettingsMenu';
 import HeaderInfoArea from './HeaderInfoArea';
 import HeaderMenu from './HeaderMenu';
 import HeaderStatusArea from './HeaderStatusArea';
 import MultiAlignmentSelector from './MultiAlignmentSelector';
-import SettingsMenu from './SettingsMenu';
 import ZoomControls from './ZoomControls';
 import ZoomMenu from './ZoomMenu';
 import ZoomStar from './ZoomStar';

package/dist/components/header/Header.js.map

@@ -1 +1 @@
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+{"version":3,"file":"Header.js","sourceRoot":"","sources":["../../../src/components/header/Header.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,IAAI,EAAE,SAAS,EAAE,MAAM,OAAO,CAAA;AAE9C,OAAO,UAAU,MAAM,+BAA+B,CAAA;AACtD,OAAO,IAAI,MAAM,0BAA0B,CAAA;AAC3C,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,YAAY,MAAM,gBAAgB,CAAA;AACzC,OAAO,cAAc,MAAM,kBAAkB,CAAA;AAC7C,OAAO,UAAU,MAAM,cAAc,CAAA;AACrC,OAAO,gBAAgB,MAAM,oBAAoB,CAAA;AACjD,OAAO,sBAAsB,MAAM,0BAA0B,CAAA;AAC7D,OAAO,YAAY,MAAM,gBAAgB,CAAA;AACzC,OAAO,QAAQ,MAAM,YAAY,CAAA;AACjC,OAAO,QAAQ,MAAM,YAAY,CAAA;AAIjC,MAAM,WAAW,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,wBAAwB,CAAC,CAAC,CAAA;AAEhE,MAAM,MAAM,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IAClE,MAAM,CAAC,GAAG,EAAE,EAAE,MAAM,EAAE,CAAC,GAAG,UAAU,EAAE,CAAA;IACtC,SAAS,CAAC,GAAG,EAAE;QACb,KAAK,CAAC,eAAe,CAAC,MAAM,IAAI,CAAC,CAAC,CAAA;IACpC,CAAC,EAAE,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC,CAAA;IACnB,OAAO,CACL,6BAAK,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,EAAE;QACvC,oBAAC,UAAU,IAAC,KAAK,EAAE,KAAK,GAAI;QAC5B,oBAAC,YAAY,IAAC,KAAK,EAAE,KAAK,GAAI;QAC9B,oBAAC,YAAY,IAAC,KAAK,EAAE,KAAK,GAAI;QAC7B,KAAK,CAAC,YAAY,CAAC,CAAC,CAAC,oBAAC,QAAQ,IAAC,KAAK,EAAE,KAAK,GAAI,CAAC,CAAC,CAAC,IAAI;QACvD,oBAAC,QAAQ,IAAC,KAAK,EAAE,KAAK,GAAI;QAC1B,6BAAK,KAAK,EAAE,EAAE,MAAM,EAAE,MAAM,EAAE;YAC5B,oBAAC,sBAAsB,IAAC,KAAK,EAAE,KAAK,GAAI,CACpC;QACN,oBAAC,cAAc,IAAC,KAAK,EAAE,KAAK,GAAI;QAChC,oBAAC,MAAM,OAAG;QACV,oBAAC,gBAAgB,IAAC,KAAK,EAAE,KAAK,GAAI;QAClC,oBAAC,UAAU,IACT,OAAO,EAAE,GAAG,EAAE;gBACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,WAAW,EAAE,EAAE,OAAO,EAAE,CAAC,CAAC,CAAA;YAC1D,CAAC;YAED,oBAAC,IAAI,OAAG,CACG,CACT,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,SAAS,MAAM;IACb,OAAO,6BAAK,KAAK,EAAE,EAAE,IAAI,EAAE,CAAC,EAAE,GAAI,CAAA;AACpC,CAAC;AAED,eAAe,MAAM,CAAA"}

package/dist/components/header/HeaderInfoArea.js

@@ -14,8 +14,9 @@ const HeaderInfoArea = observer(function ({ model }) {
     return mouseOverRowName && mouseCol !== undefined ? (React.createElement(Typography, { className: classes.margin },
         mouseOverRowName,
         ":",
-        model.mouseOverCoordToGapRemovedRowCoord(mouseOverRowName, mouseCol),
-        " (",
+        model.mouseOverCoordToGapRemovedRowCoordOneBased(mouseOverRowName, mouseCol),
+        ' ',
+        "(",
         model.mouseOverCoordToRowLetter(mouseOverRowName, mouseCol),
         ")")) : null;
 });

package/dist/components/header/HeaderInfoArea.js.map

@@ -1 +1 @@
-{"version":3,"file":"HeaderInfoArea.js","sourceRoot":"","sources":["../../../src/components/header/HeaderInfoArea.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAI1C,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,MAAM,EAAE;QACN,MAAM,EAAE,MAAM;QACd,UAAU,EAAE,EAAE;KACf;CACF,CAAC,CAAA;AAEF,MAAM,cAAc,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IAC1E,MAAM,EAAE,gBAAgB,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;IAC5C,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,OAAO,gBAAgB,IAAI,QAAQ,KAAK,SAAS,CAAC,CAAC,CAAC,CAClD,oBAAC,UAAU,IAAC,SAAS,EAAE,OAAO,CAAC,MAAM;QAClC,gBAAgB;;QAChB,KAAK,CAAC,kCAAkC,CAAC,gBAAgB,EAAE,QAAQ,CAAC;;QACpE,KAAK,CAAC,yBAAyB,CAAC,gBAAgB,EAAE,QAAQ,CAAC;YACjD,CACd,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,eAAe,cAAc,CAAA"}
+{"version":3,"file":"HeaderInfoArea.js","sourceRoot":"","sources":["../../../src/components/header/HeaderInfoArea.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAI1C,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,MAAM,EAAE;QACN,MAAM,EAAE,MAAM;QACd,UAAU,EAAE,EAAE;KACf;CACF,CAAC,CAAA;AAEF,MAAM,cAAc,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IAC1E,MAAM,EAAE,gBAAgB,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;IAC5C,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,OAAO,gBAAgB,IAAI,QAAQ,KAAK,SAAS,CAAC,CAAC,CAAC,CAClD,oBAAC,UAAU,IAAC,SAAS,EAAE,OAAO,CAAC,MAAM;QAClC,gBAAgB;;QAChB,KAAK,CAAC,0CAA0C,CAC/C,gBAAgB,EAChB,QAAQ,CACT;QAAE,GAAG;;QACJ,KAAK,CAAC,yBAAyB,CAAC,gBAAgB,EAAE,QAAQ,CAAC;YAClD,CACd,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,eAAe,cAAc,CAAA"}

package/dist/components/header/HeaderMenu.js

@@ -1,28 +1,25 @@
 import React, { lazy } from 'react';
 import CascadingMenuButton from '@jbrowse/core/ui/CascadingMenuButton';
-import AccountTreeIcon from '@mui/icons-material/AccountTree';
 import Assignment from '@mui/icons-material/Assignment';
 import FilterAlt from '@mui/icons-material/FilterAlt';
 import FolderOpen from '@mui/icons-material/FolderOpen';
-import GridOn from '@mui/icons-material/GridOn';
 import List from '@mui/icons-material/List';
 import MoreVert from '@mui/icons-material/Menu';
 import PhotoCamera from '@mui/icons-material/PhotoCamera';
 import Search from '@mui/icons-material/Search';
-import Settings from '@mui/icons-material/Settings';
 import Sort from '@mui/icons-material/Sort';
 import Visibility from '@mui/icons-material/Visibility';
 import { observer } from 'mobx-react';
 // lazies
-const SettingsDialog = lazy(() => import('../dialogs/SettingsDialog'));
 const MetadataDialog = lazy(() => import('../dialogs/MetadataDialog'));
 const TracklistDialog = lazy(() => import('../dialogs/TracklistDialog'));
 const ExportSVGDialog = lazy(() => import('../dialogs/ExportSVGDialog'));
 const FeatureFilterDialog = lazy(() => import('../dialogs/FeatureDialog'));
+const SettingsDialog = lazy(() => import('../dialogs/SettingsDialog'));
 const UserProvidedDomainsDialog = lazy(() => import('../dialogs/UserProvidedDomainsDialog'));
 const InterProScanDialog = lazy(() => import('../dialogs/InterProScanDialog'));
 const HeaderMenu = observer(({ model }) => {
-    const { drawTree, showBranchLen, labelsAlignRight, drawNodeBubbles, showDomains, actuallyShowDomains, subFeatureRows, drawLabels, treeWidthMatchesArea, noDomains, noTree, } = model;
+    const { showDomains, actuallyShowDomains, subFeatureRows, noDomains } = model;
     return (React.createElement(CascadingMenuButton, { menuItems: [
             {
                 label: 'Return to import form',
@@ -31,97 +28,6 @@ const HeaderMenu = observer(({ model }) => {
                     model.reset();
                 },
             },
-            {
-                icon: Settings,
-                label: 'Settings',
-                type: 'subMenu',
-                subMenu: [
-                    {
-                        label: 'Tree settings',
-                        type: 'subMenu',
-                        icon: AccountTreeIcon,
-                        subMenu: [
-                            {
-                                label: 'Show branch length',
-                                type: 'checkbox',
-                                checked: showBranchLen,
-                                onClick: () => {
-                                    model.setShowBranchLen(!showBranchLen);
-                                },
-                            },
-                            {
-                                label: 'Show tree',
-                                type: 'checkbox',
-                                checked: drawTree,
-                                onClick: () => {
-                                    model.setDrawTree(!drawTree);
-                                },
-                            },
-                            {
-                                label: 'Draw clickable bubbles on tree branches',
-                                type: 'checkbox',
-                                checked: drawNodeBubbles,
-                                onClick: () => {
-                                    model.setDrawNodeBubbles(!drawNodeBubbles);
-                                },
-                            },
-                            {
-                                label: 'Tree labels align right',
-                                type: 'checkbox',
-                                checked: labelsAlignRight,
-                                onClick: () => {
-                                    model.setLabelsAlignRight(!labelsAlignRight);
-                                },
-                            },
-                            {
-                                label: 'Draw labels',
-                                type: 'checkbox',
-                                checked: drawLabels,
-                                onClick: () => {
-                                    model.setDrawLabels(!drawLabels);
-                                },
-                            },
-                            ...(noTree
-                                ? []
-                                : [
-                                    {
-                                        label: 'Make tree width fit to tree area',
-                                        type: 'checkbox',
-                                        checked: treeWidthMatchesArea,
-                                        onClick: () => {
-                                            model.setTreeWidthMatchesArea(!treeWidthMatchesArea);
-                                        },
-                                    },
-                                ]),
-                        ],
-                    },
-                    {
-                        label: 'MSA settings',
-                        type: 'subMenu',
-                        icon: GridOn,
-                        subMenu: [],
-                    },
-                    {
-                        label: 'More',
-                        icon: Settings,
-                        type: 'subMenu',
-                        subMenu: [
-                            {
-                                label: 'More settings',
-                                onClick: () => {
-                                    model.queueDialog(onClose => [
-                                        SettingsDialog,
-                                        {
-                                            model,
-                                            onClose,
-                                        },
-                                    ]);
-                                },
-                            },
-                        ],
-                    },
-                ],
-            },
             {
                 label: 'Metadata',
                 icon: Assignment,
@@ -136,7 +42,19 @@ const HeaderMenu = observer(({ model }) => {
                 },
             },
             {
-                label: ' tracks',
+                label: 'More settings',
+                onClick: () => {
+                    model.queueDialog(onClose => [
+                        SettingsDialog,
+                        {
+                            model,
+                            onClose,
+                        },
+                    ]);
+                },
+            },
+            {
+                label: 'Extra tracks',
                 icon: List,
                 onClick: () => {
                     model.queueDialog(onClose => [

package/dist/components/header/HeaderMenu.js.map

@@ -1 +1 @@
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+{"version":3,"file":"HeaderMenu.js","sourceRoot":"","sources":["../../../src/components/header/HeaderMenu.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAEnC,OAAO,mBAAmB,MAAM,sCAAsC,CAAA;AACtE,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,SAAS,MAAM,+BAA+B,CAAA;AACrD,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,IAAI,MAAM,0BAA0B,CAAA;AAC3C,OAAO,QAAQ,MAAM,0BAA0B,CAAA;AAC/C,OAAO,WAAW,MAAM,iCAAiC,CAAA;AACzD,OAAO,MAAM,MAAM,4BAA4B,CAAA;AAC/C,OAAO,IAAI,MAAM,0BAA0B,CAAA;AAC3C,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,SAAS;AACT,MAAM,cAAc,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,2BAA2B,CAAC,CAAC,CAAA;AACtE,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,4BAA4B,CAAC,CAAC,CAAA;AACxE,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,4BAA4B,CAAC,CAAC,CAAA;AACxE,MAAM,mBAAmB,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,0BAA0B,CAAC,CAAC,CAAA;AAC1E,MAAM,cAAc,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,2BAA2B,CAAC,CAAC,CAAA;AACtE,MAAM,yBAAyB,GAAG,IAAI,CACpC,GAAG,EAAE,CAAC,MAAM,CAAC,sCAAsC,CAAC,CACrD,CAAA;AACD,MAAM,kBAAkB,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,+BAA+B,CAAC,CAAC,CAAA;AAE9E,MAAM,UAAU,GAAG,QAAQ,CAAC,CAAC,EAAE,KAAK,EAA2B,EAAE,EAAE;IACjE,MAAM,EAAE,WAAW,EAAE,mBAAmB,EAAE,cAAc,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IAC7E,OAAO,CACL,oBAAC,mBAAmB,IAClB,SAAS,EAAE;YACT;gBACE,KAAK,EAAE,uBAAuB;gBAC9B,IAAI,EAAE,UAAU;gBAChB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,KAAK,EAAE,CAAA;gBACf,CAAC;aACF;YACD;gBACE,KAAK,EAAE,UAAU;gBACjB,IAAI,EAAE,UAAU;gBAChB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC;wBAC3B,cAAc;wBACd;4BACE,KAAK;4BACL,OAAO;yBACR;qBACF,CAAC,CAAA;gBACJ,CAAC;aACF;YACD;gBACE,KAAK,EAAE,eAAe;gBACtB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC;wBAC3B,cAAc;wBACd;4BACE,KAAK;4BACL,OAAO;yBACR;qBACF,CAAC,CAAA;gBACJ,CAAC;aACF;YACD;gBACE,KAAK,EAAE,cAAc;gBACrB,IAAI,EAAE,IAAI;gBACV,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC;wBAC3B,eAAe;wBACf;4BACE,KAAK;4BACL,OAAO;yBACR;qBACF,CAAC,CAAA;gBACJ,CAAC;aACF;YAED;gBACE,KAAK,EAAE,YAAY;gBACnB,IAAI,EAAE,WAAW;gBACjB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC;wBAC3B,eAAe;wBACf;4BACE,OAAO;4BACP,KAAK;yBACN;qBACF,CAAC,CAAA;gBACJ,CAAC;aACF;YACD;gBACE,KAAK,EAAE,0BAA0B;gBACjC,IAAI,EAAE,SAAS;gBACf,OAAO,EAAE;oBACP;wBACE,KAAK,EAAE,iBAAiB;wBACxB,IAAI,EAAE,UAAU;wBAChB,OAAO,EAAE,GAAG,EAAE;4BACZ,KAAK,CAAC,WAAW,CAAC,WAAW,CAAC,EAAE,CAAC;gCAC/B,yBAAyB;gCACzB;oCACE,WAAW;oCACX,KAAK;iCACN;6BACF,CAAC,CAAA;wBACJ,CAAC;qBACF;oBACD;wBACE,KAAK,EAAE,mCAAmC;wBAC1C,IAAI,EAAE,MAAM;wBACZ,OAAO,EAAE,GAAG,EAAE;4BACZ,KAAK,CAAC,WAAW,CAAC,WAAW,CAAC,EAAE,CAAC;gCAC/B,kBAAkB;gCAClB;oCACE,WAAW;oCACX,KAAK;iCACN;6BACF,CAAC,CAAA;wBACJ,CAAC;qBACF;oBACD;wBACE,KAAK,EAAE,eAAe,SAAS,CAAC,CAAC,CAAC,sBAAsB,CAAC,CAAC,CAAC,EAAE,EAAE;wBAC/D,QAAQ,EAAE,SAAS;wBACnB,IAAI,EAAE,UAAU;wBAChB,OAAO,EAAE,mBAAmB,CAAC,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,KAAK;wBAClD,IAAI,EAAE,UAAU;wBAChB,OAAO,EAAE,GAAG,EAAE;4BACZ,KAAK,CAAC,cAAc,CAAC,CAAC,WAAW,CAAC,CAAA;wBACpC,CAAC;qBACF;oBACD;wBACE,KAAK,EAAE,qBAAqB,SAAS,CAAC,CAAC,CAAC,sBAAsB,CAAC,CAAC,CAAC,EAAE,EAAE;wBACrE,QAAQ,EAAE,SAAS;wBACnB,OAAO,EAAE,mBAAmB,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,KAAK;wBACrD,IAAI,EAAE,IAAI;wBACV,IAAI,EAAE,UAAU;wBAChB,OAAO,EAAE,GAAG,EAAE;4BACZ,KAAK,CAAC,iBAAiB,CAAC,CAAC,cAAc,CAAC,CAAA;wBAC1C,CAAC;qBACF;oBACD;wBACE,KAAK,EAAE,iBAAiB,SAAS,CAAC,CAAC,CAAC,sBAAsB,CAAC,CAAC,CAAC,EAAE,EAAE;wBACjE,IAAI,EAAE,SAAS;wBACf,QAAQ,EAAE,SAAS;wBACnB,OAAO,EAAE,GAAG,EAAE;4BACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC;gCAC3B,mBAAmB;gCACnB;oCACE,OAAO;oCACP,KAAK;iCACN;6BACF,CAAC,CAAA;wBACJ,CAAC;qBACF;iBACF;aACF;YACD,GAAG,KAAK,CAAC,kBAAkB,EAAE;SAC9B;QAED,oBAAC,QAAQ,OAAG,CACQ,CACvB,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,UAAU,CAAA"}

package/dist/components/header/SettingsMenu.js

@@ -1,20 +1,68 @@
-import React, { lazy } from 'react';
+import React from 'react';
 import CascadingMenuButton from '@jbrowse/core/ui/CascadingMenuButton';
-import AccountTreeIcon from '@mui/icons-material/AccountTree';
-import ColorLensIcon from '@mui/icons-material/ColorLens';
-import GridOn from '@mui/icons-material/GridOn';
+import Palette from '@mui/icons-material/Palette';
+import AccountTree from '@mui/icons-material/AccountTree';
 import Settings from '@mui/icons-material/Settings';
 import { observer } from 'mobx-react';
 import colorSchemes from '../../colorSchemes';
-// lazies
-const SettingsDialog = lazy(() => import('../dialogs/SettingsDialog'));
-const SettingsMenu = observer(({ model }) => {
-    const { drawTree, showBranchLen, labelsAlignRight, drawNodeBubbles, drawLabels, treeWidthMatchesArea, drawMsaLetters, noTree, bgColor, hideGaps, contrastLettering, colorSchemeName, } = model;
+const SettingsMenu = observer(function ({ model }) {
+    const { colorSchemeName, drawMsaLetters, contrastLettering, hideGaps, bgColor, drawTree, showBranchLen, labelsAlignRight, drawNodeBubbles, drawLabels, treeWidthMatchesArea, noTree, } = model;
     return (React.createElement(CascadingMenuButton, { closeAfterItemClick: false, menuItems: [
+            {
+                label: 'Color scheme',
+                icon: Palette,
+                type: 'subMenu',
+                subMenu: Object.keys(colorSchemes).map(option => ({
+                    label: option,
+                    type: 'radio',
+                    checked: colorSchemeName === option,
+                    onClick: () => {
+                        model.setColorSchemeName(option);
+                    },
+                })),
+            },
+            {
+                label: 'MSA settings',
+                type: 'subMenu',
+                subMenu: [
+                    {
+                        label: 'Draw letters',
+                        type: 'checkbox',
+                        checked: drawMsaLetters,
+                        onClick: () => {
+                            model.setDrawMsaLetters(!drawMsaLetters);
+                        },
+                    },
+                    {
+                        label: 'Color letters instead of background of tiles',
+                        type: 'checkbox',
+                        checked: !bgColor,
+                        onClick: () => {
+                            model.setBgColor(!bgColor);
+                        },
+                    },
+                    {
+                        label: 'Use contrast lettering',
+                        type: 'checkbox',
+                        checked: contrastLettering,
+                        onClick: () => {
+                            model.setContrastLettering(!contrastLettering);
+                        },
+                    },
+                    {
+                        label: 'Enable hiding gappy columns?',
+                        type: 'checkbox',
+                        checked: hideGaps,
+                        onClick: () => {
+                            model.setHideGaps(!hideGaps);
+                        },
+                    },
+                ],
+            },
             {
                 label: 'Tree settings',
                 type: 'subMenu',
-                icon: AccountTreeIcon,
+                icon: AccountTree,
                 subMenu: [
                     {
                         label: 'Show branch length',
@@ -70,70 +118,6 @@ const SettingsMenu = observer(({ model }) => {
                         ]),
                 ],
             },
-            {
-                label: 'MSA settings',
-                type: 'subMenu',
-                icon: GridOn,
-                subMenu: [
-                    {
-                        label: 'Draw letters',
-                        type: 'checkbox',
-                        checked: drawMsaLetters,
-                        onClick: () => {
-                            model.setDrawMsaLetters(!drawMsaLetters);
-                        },
-                    },
-                    {
-                        label: 'Color letters instead of background of tiles',
-                        type: 'checkbox',
-                        checked: !bgColor,
-                        onClick: () => {
-                            model.setBgColor(!bgColor);
-                        },
-                    },
-                    {
-                        label: 'Use contrast lettering',
-                        type: 'checkbox',
-                        checked: contrastLettering,
-                        onClick: () => {
-                            model.setContrastLettering(!contrastLettering);
-                        },
-                    },
-                    {
-                        label: 'Enable hiding gappy columns?',
-                        type: 'checkbox',
-                        checked: hideGaps,
-                        onClick: () => {
-                            model.setHideGaps(!hideGaps);
-                        },
-                    },
-                ],
-            },
-            {
-                label: 'Color scheme',
-                type: 'subMenu',
-                icon: ColorLensIcon,
-                subMenu: Object.keys(colorSchemes).map(option => ({
-                    label: option,
-                    type: 'radio',
-                    checked: colorSchemeName === option,
-                    onClick: () => {
-                        model.setColorSchemeName(option);
-                    },
-                })),
-            },
-            {
-                label: 'More settings',
-                onClick: () => {
-                    model.queueDialog(onClose => [
-                        SettingsDialog,
-                        {
-                            model,
-                            onClose,
-                        },
-                    ]);
-                },
-            },
         ] },
         React.createElement(Settings, null)));
 });

package/dist/components/header/SettingsMenu.js.map

@@ -1 +1 @@
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package/dist/components/header/ZoomMenu.js

@@ -6,9 +6,21 @@ import { observer } from 'mobx-react';
 const ZoomMenu = observer(function ({ model }) {
     return (React.createElement(CascadingMenuButton, { menuItems: [
             {
-                label: 'Fit to view',
+                label: 'Fit both vertically/horizontally',
                 onClick: () => {
-                    model.showEntire();
+                    model.fit();
+                },
+            },
+            {
+                label: 'Fit vertically',
+                onClick: () => {
+                    model.fitVertically();
+                },
+            },
+            {
+                label: 'Fit horizontally',
+                onClick: () => {
+                    model.fitHorizontally();
                 },
             },
             {

package/dist/components/header/ZoomMenu.js.map

@@ -1 +1 @@
-{"version":3,"file":"ZoomMenu.js","sourceRoot":"","sources":["../../../src/components/header/ZoomMenu.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,mBAAmB,MAAM,sCAAsC,CAAA;AACtE,OAAO,QAAQ,MAAM,8BAA8B,CAAA;AACnD,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,MAAM,QAAQ,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACpE,OAAO,CACL,oBAAC,mBAAmB,IAClB,SAAS,EAAE;YACT;gBACE,KAAK,EAAE,aAAa;gBACpB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,UAAU,EAAE,CAAA;gBACpB,CAAC;aACF;YACD;gBACE,KAAK,EAAE,uBAAuB;gBAC9B,IAAI,EAAE,UAAU;gBAChB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,SAAS,EAAE,CAAA;gBACnB,CAAC;aACF;YACD;gBACE,KAAK,EAAE,yBAAyB;gBAChC,OAAO,EAAE,KAAK,CAAC,YAAY;gBAC3B,IAAI,EAAE,UAAU;gBAChB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,eAAe,CAAC,CAAC,KAAK,CAAC,YAAY,CAAC,CAAA;gBAC5C,CAAC;aACF;SACF;QAED,oBAAC,QAAQ,OAAG,CACQ,CACvB,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,QAAQ,CAAA"}
+{"version":3,"file":"ZoomMenu.js","sourceRoot":"","sources":["../../../src/components/header/ZoomMenu.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,mBAAmB,MAAM,sCAAsC,CAAA;AACtE,OAAO,QAAQ,MAAM,8BAA8B,CAAA;AACnD,OAAO,UAAU,MAAM,gCAAgC,CAAA;AACvD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,MAAM,QAAQ,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACpE,OAAO,CACL,oBAAC,mBAAmB,IAClB,SAAS,EAAE;YACT;gBACE,KAAK,EAAE,kCAAkC;gBACzC,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,GAAG,EAAE,CAAA;gBACb,CAAC;aACF;YACD;gBACE,KAAK,EAAE,gBAAgB;gBACvB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,aAAa,EAAE,CAAA;gBACvB,CAAC;aACF;YACD;gBACE,KAAK,EAAE,kBAAkB;gBACzB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,eAAe,EAAE,CAAA;gBACzB,CAAC;aACF;YAED;gBACE,KAAK,EAAE,uBAAuB;gBAC9B,IAAI,EAAE,UAAU;gBAChB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,SAAS,EAAE,CAAA;gBACnB,CAAC;aACF;YACD;gBACE,KAAK,EAAE,yBAAyB;gBAChC,OAAO,EAAE,KAAK,CAAC,YAAY;gBAC3B,IAAI,EAAE,UAAU;gBAChB,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,eAAe,CAAC,CAAC,KAAK,CAAC,YAAY,CAAC,CAAA;gBAC5C,CAAC;aACF;SACF;QAED,oBAAC,QAAQ,OAAG,CACQ,CACvB,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,QAAQ,CAAA"}

package/dist/components/msa/MSAMouseoverCanvas.js

@@ -1,6 +1,7 @@
 import React, { useEffect, useRef } from 'react';
 import { autorun } from 'mobx';
 import { observer } from 'mobx-react';
+import { isAlive } from 'mobx-state-tree';
 import { renderMouseover } from './renderMSAMouseover';
 const MSAMouseoverCanvas = observer(function ({ model, }) {
     const ref = useRef(null);
@@ -9,7 +10,9 @@ const MSAMouseoverCanvas = observer(function ({ model, }) {
         const ctx = ref.current?.getContext('2d');
         return ctx
             ? autorun(() => {
-                renderMouseover({ ctx, model });
+                if (isAlive(model)) {
+                    renderMouseover({ ctx, model });
+                }
             })
             : undefined;
     }, [model]);

package/dist/components/msa/MSAMouseoverCanvas.js.map

@@ -1 +1 @@
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+{"version":3,"file":"MSAMouseoverCanvas.js","sourceRoot":"","sources":["../../../src/components/msa/MSAMouseoverCanvas.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,MAAM,EAAE,MAAM,OAAO,CAAA;AAEhD,OAAO,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC9B,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,OAAO,EAAE,MAAM,iBAAiB,CAAA;AAEzC,OAAO,EAAE,eAAe,EAAE,MAAM,sBAAsB,CAAA;AAItD,MAAM,kBAAkB,GAAG,QAAQ,CAAC,UAAU,EAC5C,KAAK,GAGN;IACC,MAAM,GAAG,GAAG,MAAM,CAAoB,IAAI,CAAC,CAAA;IAC3C,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IAC/B,SAAS,CAAC,GAAG,EAAE;QACb,MAAM,GAAG,GAAG,GAAG,CAAC,OAAO,EAAE,UAAU,CAAC,IAAI,CAAC,CAAA;QACzC,OAAO,GAAG;YACR,CAAC,CAAC,OAAO,CAAC,GAAG,EAAE;gBACX,IAAI,OAAO,CAAC,KAAK,CAAC,EAAE,CAAC;oBACnB,eAAe,CAAC,EAAE,GAAG,EAAE,KAAK,EAAE,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC,CAAC;YACJ,CAAC,CAAC,SAAS,CAAA;IACf,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAA;IAEX,OAAO,CACL,gCACE,GAAG,EAAE,GAAG,EACR,EAAE,EAAC,WAAW,EACd,KAAK,EAAE,KAAK,EACZ,MAAM,EAAE,MAAM,EACd,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,GAAG,EAAE,CAAC;YACN,IAAI,EAAE,CAAC;YACP,KAAK;YACL,MAAM;YACN,MAAM,EAAE,IAAI;YACZ,aAAa,EAAE,MAAM;SACtB,GACD,CACH,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,kBAAkB,CAAA"}