react-msaview 8.2.0 → 8.4.0

package/dist/components/MSAViewer.js

@@ -13,28 +13,27 @@ function resolveTheme(theme) {
             ? theme
             : undefined);
 }
+function colorSchemeSnapshot(scheme) {
+    return typeof scheme === 'string'
+        ? { colorSchemeName: scheme }
+        : scheme
+            ? { customColorScheme: scheme.map }
+            : {};
+}
 function sameSource(a, b) {
     return (a.msa === b.msa &&
         a.tree === b.tree &&
-        a.gff === b.gff &&
-        JSON.stringify([a.msaFilehandle, a.treeFilehandle, a.gffFilehandle]) ===
-            JSON.stringify([b.msaFilehandle, b.treeFilehandle, b.gffFilehandle]));
+        JSON.stringify([a.msaFilehandle, a.treeFilehandle]) ===
+            JSON.stringify([b.msaFilehandle, b.treeFilehandle]));
 }
 /**
- * A new alignment, tree or annotation file needs a new model, so the viewer
- * remounts when one of those props changes and keeps its model across every
- * other change.
+ * A new alignment or tree needs a new model, so the viewer remounts when one
+ * of those props changes and keeps its model across every other change,
+ * including a new annotation file.
  */
 export default function MSAViewer(props) {
-    const { msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle } = props;
-    const source = {
-        msa,
-        tree,
-        gff,
-        msaFilehandle,
-        treeFilehandle,
-        gffFilehandle,
-    };
+    const { msa, tree, msaFilehandle, treeFilehandle } = props;
+    const source = { msa, tree, msaFilehandle, treeFilehandle };
     const [shown, setShown] = useState({ source, generation: 0 });
     if (!sameSource(shown.source, source)) {
         setShown({ source, generation: shown.generation + 1 });
@@ -53,7 +52,7 @@ function useModelReaction(model, key, handler) {
         }, { equals: compareStructural })
         : undefined, [model, key, listening]);
 }
-function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle, colorScheme, height, colWidth, rowHeight, allowedGappyness, highlightColumns, highlights, clades, relativeTo, columnTracks, residueMappings, rowData, encodings, rowPanels, drawTree, residueEncoding, treeAreaWidth, autoTreeAreaWidth, showBranchLen, region, hideHeader, theme, onCellHover, onCellClick, onViewportChange, onModel, }) {
+function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle, colorScheme, height, colWidth, rowHeight, allowedGappyness, highlightColumns, highlights, features, clades, relativeTo, columnTracks, residueMappings, rowData, encodings, rowPanels, drawTree, residueEncoding, treeAreaWidth, autoTreeAreaWidth, showBranchLen, treeOrder, treeRoot, region, selection, hideHeader, theme, onCellHover, onCellClick, onViewportChange, onSelectionChange, onModel, }) {
     const [model] = useState(() => MSAModelF().create({
         type: 'MsaView',
         ...(msa || tree || gff || rowData
@@ -71,13 +70,15 @@ function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle,
         ...(msaFilehandle ? { msaFilehandle } : {}),
         ...(treeFilehandle ? { treeFilehandle } : {}),
         ...(gffFilehandle ? { gffFilehandle } : {}),
-        ...(colorScheme ? { colorSchemeName: colorScheme } : {}),
+        ...colorSchemeSnapshot(colorScheme),
         ...(height ? { height } : {}),
         ...(colWidth ? { colWidth } : {}),
         ...(rowHeight ? { rowHeight } : {}),
         ...(allowedGappyness !== undefined ? { allowedGappyness } : {}),
         ...(highlightColumns ? { highlightColumns } : {}),
         ...(highlights ? { highlights } : {}),
+        ...(features ? { features } : {}),
+        ...(selection ? { selection } : {}),
         ...(clades ? { clades } : {}),
         ...(relativeTo ? { relativeTo } : {}),
         ...(columnTracks ? { columnTracks } : {}),
@@ -88,6 +89,8 @@ function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle,
         ...(treeAreaWidth ? { treeAreaWidth } : {}),
         ...(autoTreeAreaWidth ? { autoTreeAreaWidth } : {}),
         ...(showBranchLen !== undefined ? { showBranchLen } : {}),
+        ...(treeOrder ? { treeOrder } : {}),
+        ...(treeRoot ? { treeRoot } : {}),
         ...(residueEncoding !== undefined
             ? { bgColor: residueEncoding === 'fill' }
             : {}),
@@ -106,11 +109,6 @@ function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle,
             model.setHeight(height);
         }
     }, [model, height]);
-    useEffect(() => {
-        if (colorScheme !== undefined) {
-            model.setColorSchemeName(colorScheme);
-        }
-    }, [model, colorScheme]);
     useEffect(() => {
         if (colWidth !== undefined) {
             model.setColWidth(colWidth);
@@ -141,6 +139,11 @@ function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle,
             model.setShowBranchLen(showBranchLen);
         }
     }, [model, showBranchLen]);
+    useEffect(() => {
+        if (treeOrder !== undefined) {
+            model.setTreeOrder(treeOrder);
+        }
+    }, [model, treeOrder]);
     useEffect(() => {
         if (residueEncoding !== undefined) {
             model.setBgColor(residueEncoding === 'fill');
@@ -153,12 +156,58 @@ function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle,
     useEffect(() => {
         model.drawRelativeTo(relativeTo);
     }, [model, relativeTo]);
+    // The snapshot already holds the first gff and gffFilehandle, so these
+    // effects apply only a later change. Removing either one sets the text back
+    // to the gff prop, which clears the annotations when that is absent too.
+    const appliedGff = useRef(gff);
+    const gffFilehandleKey = JSON.stringify(gffFilehandle ?? null);
+    const appliedGffFilehandle = useRef(gffFilehandleKey);
+    useEffect(() => {
+        if (appliedGffFilehandle.current !== gffFilehandleKey) {
+            appliedGffFilehandle.current = gffFilehandleKey;
+            const location = JSON.parse(gffFilehandleKey);
+            if (location) {
+                model.setGFFFilehandle(location);
+            }
+            else {
+                model.setGFF(appliedGff.current);
+            }
+        }
+    }, [model, gffFilehandleKey]);
+    useEffect(() => {
+        if (appliedGff.current !== gff) {
+            appliedGff.current = gff;
+            model.setGFF(gff);
+        }
+    }, [model, gff]);
     // keyed by content, since a host computing a layer inline passes a new array
     // on every render
+    const colorSchemeKey = JSON.stringify(colorScheme ?? null);
+    useEffect(() => {
+        const scheme = JSON.parse(colorSchemeKey);
+        if (typeof scheme === 'string') {
+            model.setColorSchemeName(scheme);
+        }
+        else if (scheme) {
+            model.setCustomColorScheme(scheme.map);
+        }
+    }, [model, colorSchemeKey]);
     const highlightsKey = JSON.stringify(highlights ?? []);
     useEffect(() => {
         model.setHighlights(JSON.parse(highlightsKey));
     }, [model, highlightsKey]);
+    const featuresKey = JSON.stringify(features ?? []);
+    useEffect(() => {
+        model.setFeatures(JSON.parse(featuresKey));
+    }, [model, featuresKey]);
+    const selectionKey = JSON.stringify(selection ?? null);
+    useEffect(() => {
+        model.setSelection(JSON.parse(selectionKey) ?? undefined);
+    }, [model, selectionKey]);
+    const treeRootKey = JSON.stringify(treeRoot ?? null);
+    useEffect(() => {
+        model.setTreeRoot(JSON.parse(treeRootKey) ?? undefined);
+    }, [model, treeRootKey]);
     const cladesKey = JSON.stringify(clades ?? []);
     useEffect(() => {
         model.setClades(JSON.parse(cladesKey));
@@ -203,6 +252,7 @@ function Viewer({ msa, tree, gff, msaFilehandle, treeFilehandle, gffFilehandle,
     useModelReaction(model, 'hoveredCell', onCellHover);
     useModelReaction(model, 'clickedCell', onCellClick);
     useModelReaction(model, 'viewport', onViewportChange);
+    useModelReaction(model, 'selection', onSelectionChange);
     const latestOnModel = useRef(onModel);
     useEffect(() => {
         latestOnModel.current = onModel;

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package/dist/components/MetadataTable.d.ts

@@ -0,0 +1,5 @@
+import React from 'react';
+export declare function isEmpty(value: unknown): boolean;
+export default function MetadataTable({ record, }: {
+    record: Record<string, unknown>;
+}): React.JSX.Element;

package/dist/components/MetadataTable.js

@@ -0,0 +1,29 @@
+import React from 'react';
+import { makeStyles } from '@jbrowse/core/util/tss-react';
+import { Table, TableBody, TableCell, TableRow } from '@mui/material';
+const useStyles = makeStyles()({
+    key: {
+        fontWeight: 'bold',
+        verticalAlign: 'top',
+    },
+    value: {
+        whiteSpace: 'pre-wrap',
+        wordBreak: 'break-word',
+    },
+});
+function isRecord(value) {
+    return typeof value === 'object' && value !== null && !Array.isArray(value);
+}
+export function isEmpty(value) {
+    return isRecord(value) && Object.keys(value).length === 0;
+}
+export default function MetadataTable({ record, }) {
+    const { classes } = useStyles();
+    return (React.createElement(Table, { size: "small" },
+        React.createElement(TableBody, null, Object.entries(record)
+            .filter(([, value]) => value != null && !isEmpty(value))
+            .map(([key, value]) => (React.createElement(TableRow, { key: key },
+            React.createElement(TableCell, { component: "th", className: classes.key }, key),
+            React.createElement(TableCell, { className: classes.value }, isRecord(value) ? (React.createElement(MetadataTable, { record: value })) : Array.isArray(value) ? (value.join('\n')) : (String(value)))))))));
+}
+//# sourceMappingURL=MetadataTable.js.map

package/dist/components/MetadataTable.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"MetadataTable.js","sourceRoot":"","sources":["../../src/components/MetadataTable.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,UAAU,EAAE,MAAM,8BAA8B,CAAA;AACzD,OAAO,EAAE,KAAK,EAAE,SAAS,EAAE,SAAS,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AAErE,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,GAAG,EAAE;QACH,UAAU,EAAE,MAAM;QAClB,aAAa,EAAE,KAAK;KACrB;IACD,KAAK,EAAE;QACL,UAAU,EAAE,UAAU;QACtB,SAAS,EAAE,YAAY;KACxB;CACF,CAAC,CAAA;AAEF,SAAS,QAAQ,CAAC,KAAc;IAC9B,OAAO,OAAO,KAAK,KAAK,QAAQ,IAAI,KAAK,KAAK,IAAI,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;AAC7E,CAAC;AAED,MAAM,UAAU,OAAO,CAAC,KAAc;IACpC,OAAO,QAAQ,CAAC,KAAK,CAAC,IAAI,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,MAAM,KAAK,CAAC,CAAA;AAC3D,CAAC;AAED,MAAM,CAAC,OAAO,UAAU,aAAa,CAAC,EACpC,MAAM,GAGP;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,OAAO,CACL,oBAAC,KAAK,IAAC,IAAI,EAAC,OAAO;QACjB,oBAAC,SAAS,QACP,MAAM,CAAC,OAAO,CAAC,MAAM,CAAC;aACpB,MAAM,CAAC,CAAC,CAAC,EAAE,KAAK,CAAC,EAAE,EAAE,CAAC,KAAK,IAAI,IAAI,IAAI,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC;aACvD,GAAG,CAAC,CAAC,CAAC,GAAG,EAAE,KAAK,CAAC,EAAE,EAAE,CAAC,CACrB,oBAAC,QAAQ,IAAC,GAAG,EAAE,GAAG;YAChB,oBAAC,SAAS,IAAC,SAAS,EAAC,IAAI,EAAC,SAAS,EAAE,OAAO,CAAC,GAAG,IAC7C,GAAG,CACM;YACZ,oBAAC,SAAS,IAAC,SAAS,EAAE,OAAO,CAAC,KAAK,IAChC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CACjB,oBAAC,aAAa,IAAC,MAAM,EAAE,KAAK,GAAI,CACjC,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CACzB,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CACjB,CAAC,CAAC,CAAC,CACF,MAAM,CAAC,KAAK,CAAC,CACd,CACS,CACH,CACZ,CAAC,CACM,CACN,CACT,CAAA;AACH,CAAC"}

package/dist/components/SequenceTextArea.d.ts

@@ -1,4 +1,15 @@
 import React from 'react';
+export declare const maxShownRecords = 100;
+export declare const maxShownChars = 200000;
+/**
+ * The first records of `rows` as FASTA, up to `maxShownRecords` records or
+ * `maxShownChars` characters, whichever comes first. A textarea holding every
+ * row of a large alignment freezes the page.
+ */
+export declare function fastaPreview(rows: [string, string][], showGaps: boolean): {
+    text: string;
+    hidden: number;
+};
 export default function SequenceTextArea({ str }: {
     str: [string, string][];
 }): React.JSX.Element;

package/dist/components/SequenceTextArea.js

@@ -1,7 +1,8 @@
 import React, { useState } from 'react';
 import { makeStyles } from '@jbrowse/core/util/tss-react';
-import { TextField } from '@mui/material';
+import { Button, TextField } from '@mui/material';
 import { getUngappedSequence } from 'msa-parsers';
+import { saveAs } from '../vendor/fileSaver.js';
 import Checkbox2 from './Checkbox2.js';
 import CopyButton from './CopyButton.js';
 const useStyles = makeStyles()(theme => ({
@@ -14,24 +15,55 @@ const useStyles = makeStyles()(theme => ({
         margin: 4,
     },
 }));
+export const maxShownRecords = 100;
+export const maxShownChars = 200_000;
+function fastaRecord([name, seq], showGaps) {
+    return `>${name}\n${showGaps ? seq : getUngappedSequence(seq)}`;
+}
+function isAllGaps(seq) {
+    return !/[^.-]/.test(seq);
+}
+/**
+ * The first records of `rows` as FASTA, up to `maxShownRecords` records or
+ * `maxShownChars` characters, whichever comes first. A textarea holding every
+ * row of a large alignment freezes the page.
+ */
+export function fastaPreview(rows, showGaps) {
+    const shown = [];
+    let chars = 0;
+    for (const row of rows) {
+        if (shown.length >= maxShownRecords || chars >= maxShownChars) {
+            break;
+        }
+        const record = fastaRecord(row, showGaps);
+        shown.push(record);
+        chars += record.length + 1;
+    }
+    return { text: shown.join('\n'), hidden: rows.length - shown.length };
+}
 export default function SequenceTextArea({ str }) {
     const { classes } = useStyles();
     const [showGaps, setShowGaps] = useState(false);
     const [showEmpty, setShowEmpty] = useState(false);
-    const disp = str
-        .map(([s1, s2]) => [s1, showGaps ? s2 : getUngappedSequence(s2)])
-        .filter(([, s2]) => showEmpty || !!s2)
-        .map(([s1, s2]) => `>${s1}\n${s2}`)
-        .join('\n');
+    const rows = showEmpty
+        ? str
+        : str.filter(([, seq]) => (showGaps ? !!seq : !isAllGaps(seq)));
+    const { text, hidden } = fastaPreview(rows, showGaps);
+    const fullText = () => rows.map(row => fastaRecord(row, showGaps)).join('\n');
     return (React.createElement(React.Fragment, null,
-        React.createElement(CopyButton, { text: disp }),
+        React.createElement(CopyButton, { text: fullText }),
+        React.createElement(Button, { onClick: () => {
+                saveAs(new Blob([fullText()], { type: 'text/plain' }), 'sequences.fasta');
+            } }, "Download"),
         React.createElement(Checkbox2, { label: "Show gaps", checked: showGaps, onChange: () => {
                 setShowGaps(!showGaps);
             } }),
         React.createElement(Checkbox2, { label: "Show empty", checked: showEmpty, onChange: () => {
                 setShowEmpty(!showEmpty);
             } }),
-        React.createElement(TextField, { variant: "outlined", multiline: true, className: classes.dialogContent, minRows: 5, maxRows: 10, fullWidth: true, value: disp, slotProps: {
+        React.createElement(TextField, { variant: "outlined", multiline: true, className: classes.dialogContent, minRows: 5, maxRows: 10, fullWidth: true, value: text, helperText: hidden > 0
+                ? `Showing ${rows.length - hidden} of ${rows.length.toLocaleString()} sequences. ${hidden.toLocaleString()} more are in the copy and the download.`
+                : undefined, slotProps: {
                 input: {
                     readOnly: true,
                     className: classes.textAreaFont,

package/dist/components/SequenceTextArea.js.map

@@ -1 +1 @@
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package/dist/components/StatusMessage.d.ts

@@ -0,0 +1,12 @@
+import React from 'react';
+import type { MsaViewModel } from '../model.ts';
+/**
+ * The model's status line with its Cancel button: a spinner and a heading in
+ * place of the view while it loads, or a line in the header afterwards, which
+ * disappears when there is no status.
+ */
+declare const StatusMessage: ({ model, variant, }: {
+    model: MsaViewModel;
+    variant: 'page' | 'header';
+}) => React.JSX.Element | null;
+export default StatusMessage;

package/dist/components/StatusMessage.js

@@ -0,0 +1,43 @@
+import React from 'react';
+import { LoadingEllipses } from '@jbrowse/core/ui';
+import { makeStyles } from '@jbrowse/core/util/tss-react';
+import { Button, CircularProgress, Typography } from '@mui/material';
+import { observer } from 'mobx-react';
+const useStyles = makeStyles()({
+    page: {
+        display: 'flex',
+        alignItems: 'center',
+        gap: 12,
+        padding: 20,
+    },
+    header: {
+        display: 'flex',
+        alignItems: 'center',
+        gap: 4,
+        margin: 'auto',
+        marginLeft: 10,
+    },
+});
+/**
+ * The model's status line with its Cancel button: a spinner and a heading in
+ * place of the view while it loads, or a line in the header afterwards, which
+ * disappears when there is no status.
+ */
+const StatusMessage = observer(function ({ model, variant, }) {
+    const { status } = model;
+    const { classes } = useStyles();
+    if (variant === 'header' && !status) {
+        return null;
+    }
+    const message = status?.msg ?? 'Loading...';
+    const onCancel = status?.onCancel;
+    return (React.createElement("div", { className: classes[variant] },
+        variant === 'page' ? (React.createElement(React.Fragment, null,
+            React.createElement(CircularProgress, { size: 24 }),
+            React.createElement(Typography, { variant: "h6" }, message))) : (React.createElement(LoadingEllipses, { message: message, component: "span" })),
+        onCancel ? (React.createElement(Button, { variant: variant === 'page' ? 'outlined' : 'text', size: "small", onClick: () => {
+                onCancel();
+            } }, "Cancel")) : null));
+});
+export default StatusMessage;
+//# sourceMappingURL=StatusMessage.js.map

package/dist/components/StatusMessage.js.map

@@ -0,0 +1 @@
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package/dist/components/Track.js

@@ -5,6 +5,7 @@ import ArrowDropDownIcon from '@mui/icons-material/ArrowDropDown';
 import { IconButton, Menu, MenuItem } from '@mui/material';
 import { observer } from 'mobx-react';
 import { useWheelScroll } from '../useWheelScroll.js';
+import { onMsaKey } from './msa/msaKeys.js';
 import TrackTooltipContent from './tracks/TrackTooltipContent.js';
 import { useTrackHover } from './tracks/useTrackHover.js';
 const TrackInfoDialog = lazy(() => import('./dialogs/TrackInfoDialog.js'));
@@ -80,23 +81,31 @@ const Track = observer(function ({ model, track, }) {
     }, [model]);
     useWheelScroll({ ref, onScrollX });
     const { classes } = useStyles();
-    const { hover, onMouseMove, onMouseLeave } = useTrackHover({
+    const { anchor, onMouseMove, onMouseDown, onMouseLeave } = useTrackHover({
         model,
         tooltip: showColumnStats,
     });
     return (React.createElement("div", { className: classes.row, style: { height } },
         React.createElement(TrackLabel, { model: model, track: track }),
         React.createElement("div", { style: { width: rowPanelsWidth + resizeHandleWidth, flexShrink: 0 } }),
-        React.createElement("div", { ref: ref, "data-testid": `track_${track.model.id}`, onMouseMove: event => {
+        React.createElement("div", { ref: ref, "data-testid": `track_${track.model.id}`, tabIndex: -1, style: { outline: 'none' }, onKeyDown: event => {
+                if (onMsaKey(model, event)) {
+                    event.preventDefault();
+                }
+            }, onMouseMove: event => {
                 if (ref.current) {
                     onMouseMove(event, ref.current);
                 }
+            }, onMouseDown: event => {
+                if (ref.current) {
+                    onMouseDown(event, ref.current);
+                }
             }, onMouseLeave: () => {
                 onMouseLeave();
             } },
             React.createElement(track.ReactComponent, { model: model, track: track }),
-            hover ? (React.createElement(BaseTooltip, { clientPoint: { x: hover.x, y: hover.y + 15 } },
-                React.createElement(TrackTooltipContent, { model: model, track: track, col: hover.col }))) : null)));
+            anchor ? (React.createElement(BaseTooltip, { clientPoint: anchor.clientPoint },
+                React.createElement(TrackTooltipContent, { model: model, track: track, col: anchor.value }))) : null)));
 });
 export default Track;
 //# sourceMappingURL=Track.js.map

package/dist/components/Track.js.map

@@ -1 +1 @@
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+{"version":3,"file":"Track.js","sourceRoot":"","sources":["../../src/components/Track.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,IAAI,EAAE,WAAW,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAElE,OAAO,WAAW,MAAM,8BAA8B,CAAA;AACtD,OAAO,EAAE,UAAU,EAAE,MAAM,8BAA8B,CAAA;AACzD,OAAO,iBAAiB,MAAM,mCAAmC,CAAA;AACjE,OAAO,EAAE,UAAU,EAAE,IAAI,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AAC1D,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,cAAc,EAAE,MAAM,sBAAsB,CAAA;AACrD,OAAO,EAAE,QAAQ,EAAE,MAAM,kBAAkB,CAAA;AAC3C,OAAO,mBAAmB,MAAM,iCAAkC,CAAA;AAClE,OAAO,EAAE,aAAa,EAAE,MAAM,2BAA2B,CAAA;AAKzD,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,8BAA+B,CAAC,CAAC,CAAA;AAE3E,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,MAAM,EAAE;QACN,OAAO,EAAE,CAAC;KACX;IACD,0EAA0E;IAC1E,2EAA2E;IAC3E,6EAA6E;IAC7E,4EAA4E;IAC5E,8DAA8D;IAC9D,GAAG,EAAE;QACH,OAAO,EAAE,MAAM;QACf,oBAAoB,EAAE;YACpB,SAAS,EAAE,kBAAkB,KAAK,CAAC,OAAO,CAAC,OAAO,EAAE;SACrD;KACF;CACF,CAAC,CAAC,CAAA;AAEH,MAAM,UAAU,GAAG,QAAQ,CAAC,SAAS,UAAU,CAAC,EAC9C,KAAK,EACL,KAAK,GAIN;IACC,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,EAAqB,CAAA;IAC7D,MAAM,SAAS,GAAG,GAAG,EAAE;QACrB,WAAW,CAAC,SAAS,CAAC,CAAA;IACxB,CAAC,CAAA;IACD,MAAM,EAAE,UAAU,EAAE,QAAQ,EAAE,aAAa,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IAC5D,MAAM,EACJ,KAAK,EAAE,EAAE,IAAI,EAAE,MAAM,EAAE,GACxB,GAAG,KAAK,CAAA;IACT,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,gBAAgB,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,EAAE,QAAQ,CAAC,CAAA;IAEnD,OAAO,CAIL,6BACE,KAAK,EAAE;YACL,KAAK;YACL,MAAM;YACN,UAAU,EAAE,CAAC;YACb,OAAO,EAAE,MAAM;YACf,UAAU,EAAE,YAAY;YACxB,cAAc,EAAE,UAAU;YAC1B,GAAG,EAAE,CAAC;YACN,QAAQ,EAAE,gBAAgB;SAC3B;QAED,8BACE,KAAK,EAAE,IAAI,EACX,KAAK,EAAE;gBACL,QAAQ,EAAE,QAAQ;gBAClB,YAAY,EAAE,UAAU;gBACxB,UAAU,EAAE,QAAQ;aACrB,IAEA,UAAU,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAClB;QACP,oBAAC,UAAU,IACT,SAAS,EAAE,OAAO,CAAC,MAAM,gBACb,GAAG,IAAI,aAAa,EAChC,KAAK,EAAE;gBACL,KAAK,EAAE,gBAAgB;gBACvB,MAAM,EAAE,gBAAgB;gBACxB,UAAU,EAAE,CAAC;aACd,EACD,OAAO,EAAE,KAAK,CAAC,EAAE;gBACf,WAAW,CAAC,KAAK,CAAC,aAAa,CAAC,CAAA;YAClC,CAAC;YAED,oBAAC,iBAAiB,OAAG,CACV;QACZ,QAAQ,CAAC,CAAC,CAAC,CACV,oBAAC,IAAI,IACH,QAAQ,EAAE,QAAQ,EAClB,kBAAkB,EAAE,CAAC,EACrB,IAAI,QACJ,OAAO,EAAE,GAAG,EAAE;gBACZ,SAAS,EAAE,CAAA;YACb,CAAC;YAED,oBAAC,QAAQ,IACP,KAAK,QACL,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,KAAK,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;oBACjC,SAAS,EAAE,CAAA;gBACb,CAAC,iBAGQ;YACX,oBAAC,QAAQ,IACP,KAAK,QACL,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,OAAO,CAAC,EAAE,CAAC;wBAC3B,eAAe;wBACf,EAAE,OAAO,EAAE,KAAK,EAAE,KAAK,CAAC,KAAK,EAAE;qBAChC,CAAC,CAAA;oBACF,SAAS,EAAE,CAAA;gBACb,CAAC,eAGQ,CACN,CACR,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,KAAK,GAAG,QAAQ,CAAC,UAAU,EAC/B,KAAK,EACL,KAAK,GAIN;IACC,MAAM,EAAE,iBAAiB,EAAE,cAAc,EAAE,eAAe,EAAE,GAAG,KAAK,CAAA;IACpE,MAAM,EACJ,KAAK,EAAE,EAAE,MAAM,EAAE,GAClB,GAAG,KAAK,CAAA;IACT,MAAM,GAAG,GAAG,MAAM,CAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,SAAS,GAAG,WAAW,CAC3B,CAAC,CAAS,EAAE,EAAE;QACZ,KAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAA;IACpB,CAAC,EACD,CAAC,KAAK,CAAC,CACR,CAAA;IACD,cAAc,CAAC,EAAE,GAAG,EAAE,SAAS,EAAE,CAAC,CAAA;IAClC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,MAAM,EAAE,WAAW,EAAE,WAAW,EAAE,YAAY,EAAE,GAAG,aAAa,CAAC;QACvE,KAAK;QACL,OAAO,EAAE,eAAe;KACzB,CAAC,CAAA;IAEF,OAAO,CACL,6BAAK,SAAS,EAAE,OAAO,CAAC,GAAG,EAAE,KAAK,EAAE,EAAE,MAAM,EAAE;QAC5C,oBAAC,UAAU,IAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,GAAI;QAG1C,6BACE,KAAK,EAAE,EAAE,KAAK,EAAE,cAAc,GAAG,iBAAiB,EAAE,UAAU,EAAE,CAAC,EAAE,GACnE;QACF,6BACE,GAAG,EAAE,GAAG,iBACK,SAAS,KAAK,CAAC,KAAK,CAAC,EAAE,EAAE,EACtC,QAAQ,EAAE,CAAC,CAAC,EACZ,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,EAAE,EAC1B,SAAS,EAAE,KAAK,CAAC,EAAE;gBACjB,IAAI,QAAQ,CAAC,KAAK,EAAE,KAAK,CAAC,EAAE,CAAC;oBAC3B,KAAK,CAAC,cAAc,EAAE,CAAA;gBACxB,CAAC;YACH,CAAC,EACD,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,WAAW,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC,EACD,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,GAAG,CAAC,OAAO,EAAE,CAAC;oBAChB,WAAW,CAAC,KAAK,EAAE,GAAG,CAAC,OAAO,CAAC,CAAA;gBACjC,CAAC;YACH,CAAC,EACD,YAAY,EAAE,GAAG,EAAE;gBACjB,YAAY,EAAE,CAAA;YAChB,CAAC;YAED,oBAAC,KAAK,CAAC,cAAc,IAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,GAAI;YACnD,MAAM,CAAC,CAAC,CAAC,CACR,oBAAC,WAAW,IAAC,WAAW,EAAE,MAAM,CAAC,WAAW;gBAC1C,oBAAC,mBAAmB,IAClB,KAAK,EAAE,KAAK,EACZ,KAAK,EAAE,KAAK,EACZ,GAAG,EAAE,MAAM,CAAC,KAAK,GACjB,CACU,CACf,CAAC,CAAC,CAAC,IAAI,CACJ,CACF,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,KAAK,CAAA"}

package/dist/components/VerticalScrollbar.js

@@ -10,7 +10,12 @@ const VerticalScrollbar = observer(({ model }) => {
     const onDrag = useCallback((delta, startScroll) => {
         model.setScrollY(startScroll - delta / unit);
     }, [model, unit]);
-    return (React.createElement("div", { style: {
+    return (React.createElement("div", { onMouseDown: event => {
+            if (event.button === 0 && event.target === event.currentTarget) {
+                const y = event.clientY - event.currentTarget.getBoundingClientRect().top;
+                model.setScrollY(-y / unit + msaAreaHeight / 2);
+            }
+        }, style: {
             position: 'relative',
             width,
             height: msaAreaHeight,

package/dist/components/VerticalScrollbar.js.map

@@ -1 +1 @@
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package/dist/components/dialogs/ExportSVGDialog.d.ts

@@ -1,6 +1,7 @@
 import React from 'react';
 import type { MsaViewModel } from '../../model.ts';
-export default function ExportSVGDialog({ model, onClose, }: {
+declare const ExportSVGDialog: ({ model, onClose, }: {
     model: MsaViewModel;
     onClose: () => void;
-}): React.JSX.Element;
+}) => React.JSX.Element;
+export default ExportSVGDialog;

package/dist/components/dialogs/ExportSVGDialog.js

@@ -1,6 +1,7 @@
 import React, { useState } from 'react';
 import { Dialog, ErrorMessage } from '@jbrowse/core/ui';
 import { Alert, Button, CircularProgress, DialogActions, DialogContent, FormControl, FormControlLabel, FormLabel, Radio, RadioGroup, Typography, useTheme, } from '@mui/material';
+import { observer } from 'mobx-react';
 import Checkbox2 from '../Checkbox2.js';
 // Run after the browser has painted. A requestAnimationFrame callback still
 // runs *before* the frame it was queued for, so one alone hands the main thread
@@ -11,7 +12,7 @@ function afterPaint(fn) {
         requestAnimationFrame(fn);
     });
 }
-export default function ExportSVGDialog({ model, onClose, }) {
+const ExportSVGDialog = observer(function ({ model, onClose, }) {
     const [includeMinimap, setIncludeMinimap] = useState(true);
     const [includeTracks, setIncludeTracks] = useState(true);
     const [exportType, setExportType] = useState('viewport');
@@ -92,5 +93,6 @@ export default function ExportSVGDialog({ model, onClose, }) {
             React.createElement(Button, { variant: "contained", color: "secondary", onClick: () => {
                     onClose();
                 } }, "Cancel"))));
-}
+});
+export default ExportSVGDialog;
 //# sourceMappingURL=ExportSVGDialog.js.map

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

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