react-msaview 4.4.6 → 4.6.0

package/dist/colorSchemes.d.ts

@@ -2,9 +2,3 @@ declare const _default: {
     [k: string]: Record<string, string>;
 };
 export default _default;
-export declare function getClustalXColor(stats: Record<string, number>, total: number, model: {
-    columns: Record<string, string>;
-}, row: string, col: number): "rgb(128,179,230)" | "#d88" | "rgb(192, 72, 192)" | "rgb(204, 77, 204)" | "#8f8" | "rgb(26,204,26)" | "rgb(240, 128, 128)" | "rgb(240, 144, 72)" | "rgb(204, 204, 0)" | "rgb(26, 179, 179)" | undefined;
-export declare function getPercentIdentityColor(stats: Record<string, number>, total: number, model: {
-    columns: Record<string, string>;
-}, row: string, col: number): string | undefined;

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 { isBlank, transform } from './util';
+import { transform } from './util';
 extend([namesPlugin]);
 const colorSchemes = {
     none: {},
@@ -338,122 +338,4 @@ export default transform(colorSchemes, ([key, val]) => [
     key,
     transform(val, ([letter, color]) => [letter, colord(color).toHex()]),
 ]);
-// info http://www.jalview.org/help/html/colourSchemes/clustal.html
-// modifications:
-// reference to clustalX source code scheme modifies what the jalview.org
-// scheme says there the jalview.org colorscheme says WLVIMAFCHP but it
-// should be WLVIMAFCHPY, colprot.xml says e.g. %#ACFHILMVWYPp" which has Y
-export function getClustalXColor(stats, total, model, row, col) {
-    const l = model.columns[row][col];
-    const { W = 0, L = 0, V = 0, I = 0, M = 0, A = 0, F = 0, C = 0, H = 0, P = 0, R = 0, K = 0, Q = 0, E = 0, D = 0, T = 0, S = 0, G = 0, Y = 0, N = 0, } = stats;
-    const WLVIMAFCHP = W + L + V + I + M + A + F + C + H + P + Y;
-    const KR = K + R;
-    const QE = Q + E;
-    const ED = E + D;
-    const TS = T + S;
-    if (WLVIMAFCHP / total > 0.6) {
-        if (l === 'W' ||
-            l === 'L' ||
-            l === 'V' ||
-            l === 'A' ||
-            l === 'I' ||
-            l === 'M' ||
-            l === 'F' ||
-            l === 'C') {
-            // blue from jalview.org docs
-            return 'rgb(128,179,230)';
-        }
-    }
-    if ((l === 'K' || l === 'R') &&
-        (KR / total > 0.6 || K / total > 0.8 || R / total > 0.8 || Q / total > 0.8)) {
-        return '#d88';
-    }
-    if (l === 'E' &&
-        (KR / total > 0.6 ||
-            QE / total > 0.5 ||
-            E / total > 0.8 ||
-            Q / total > 0.8 ||
-            D / total > 0.8)) {
-        return 'rgb(192, 72, 192)';
-    }
-    if (l === 'D' &&
-        (KR / total > 0.6 ||
-            ED / total > 0.5 ||
-            K / total > 0.8 ||
-            R / total > 0.8 ||
-            Q / total > 0.8)) {
-        return 'rgb(204, 77, 204)';
-    }
-    if (l === 'N' && (N / total > 0.5 || Y / total > 0.85)) {
-        return '#8f8';
-    }
-    if (l === 'Q' &&
-        (KR / total > 0.6 ||
-            QE / total > 0.6 ||
-            Q / total > 0.85 ||
-            E / total > 0.85 ||
-            K / total > 0.85 ||
-            R / total > 0.85)) {
-        return '#8f8';
-    }
-    if ((l === 'S' || l === 'T') &&
-        // WLVIMAFCHP modified from 0.6 to 0.55 on page to match what i see in jalview
-        (WLVIMAFCHP / total > 0.6 ||
-            TS / total > 0.5 ||
-            S / total > 0.85 ||
-            T / total > 0.85)) {
-        return 'rgb(26,204,26)';
-    }
-    if (l === 'C' && C / total > 0.85) {
-        return 'rgb(240, 128, 128)';
-    }
-    if (l === 'G' && G / total > 0) {
-        return 'rgb(240, 144, 72)';
-    }
-    if (l === 'P' && P / total > 0) {
-        return 'rgb(204, 204, 0)';
-    }
-    if ((l === 'H' || l === 'Y') &&
-        (WLVIMAFCHP / total > 0.6 ||
-            W > 0.85 ||
-            Y > 0.85 ||
-            A > 0.85 ||
-            C > 0.85 ||
-            P > 0.85 ||
-            Q > 0.85 ||
-            F > 0.85 ||
-            H > 0.85 ||
-            I > 0.85 ||
-            L > 0.85 ||
-            M > 0.85 ||
-            V > 0.85)) {
-        // cyan from jalview.org docs
-        return 'rgb(26, 179, 179)';
-    }
-    return undefined;
-}
-// info http://www.jalview.org/help/html/colourSchemes/clustal.html
-// modifications:
-// reference to clustalX source code scheme modifies what the jalview.org
-// scheme says there the jalview.org colorscheme says WLVIMAFCHP but it should
-// be WLVIMAFCHPY, colprot.xml says e.g. %#ACFHILMVWYPp" which has Y
-export function getPercentIdentityColor(stats, total, model, row, col) {
-    const l = model.columns[row][col];
-    const entries = Object.entries(stats);
-    let ent = 0;
-    let letter = '';
-    for (const entry of entries) {
-        if (entry[1] > ent && !isBlank(entry[0])) {
-            letter = entry[0];
-            ent = entry[1];
-        }
-    }
-    const proportion = ent / total;
-    const thresh = `hsl(240, 30%, ${100 * Math.max(1 - ent / total / 3, 0.3)}%)`;
-    if (proportion > 0.4) {
-        if (l === letter) {
-            return thresh;
-        }
-    }
-}
 //# sourceMappingURL=colorSchemes.js.map

package/dist/colorSchemes.js.map

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package/dist/components/ConservationTrack.d.ts

@@ -0,0 +1,8 @@
+import React from 'react';
+import type { MsaViewModel } from '../model';
+import type { BasicTrack } from '../types';
+declare const ConservationTrack: ({ model, track, }: {
+    model: MsaViewModel;
+    track: BasicTrack;
+}) => React.JSX.Element;
+export default ConservationTrack;

package/dist/components/ConservationTrack.js

@@ -0,0 +1,54 @@
+import React, { useEffect, useRef } from 'react';
+import { observer } from 'mobx-react';
+const ConservationBlock = observer(function ({ model, offsetX, trackHeight, }) {
+    const { blockSize, scrollX, colWidth, highResScaleFactor, conservation } = model;
+    const ref = useRef(null);
+    useEffect(() => {
+        if (!ref.current) {
+            return;
+        }
+        const ctx = ref.current.getContext('2d');
+        if (!ctx) {
+            return;
+        }
+        ctx.resetTransform();
+        ctx.scale(highResScaleFactor, highResScaleFactor);
+        ctx.clearRect(0, 0, blockSize, trackHeight);
+        ctx.translate(-offsetX, 0);
+        const xStart = Math.max(0, Math.floor(offsetX / colWidth));
+        const xEnd = Math.max(0, Math.ceil((offsetX + blockSize) / colWidth));
+        for (let i = xStart; i < xEnd && i < conservation.length; i++) {
+            const value = conservation[i];
+            const barHeight = value * trackHeight;
+            const x = i * colWidth;
+            const hue = value * 120;
+            ctx.fillStyle = `hsl(${hue}, 70%, 50%)`;
+            ctx.fillRect(x, trackHeight - barHeight, colWidth, barHeight);
+        }
+    }, [
+        blockSize,
+        colWidth,
+        trackHeight,
+        offsetX,
+        highResScaleFactor,
+        conservation,
+    ]);
+    return (React.createElement("canvas", { ref: ref, height: trackHeight * highResScaleFactor, width: blockSize * highResScaleFactor, style: {
+            position: 'absolute',
+            left: scrollX + offsetX,
+            width: blockSize,
+            height: trackHeight,
+        } }));
+});
+const ConservationTrack = observer(function ({ model, track, }) {
+    const { blocksX, msaAreaWidth } = model;
+    const trackHeight = track.model.height;
+    return (React.createElement("div", { style: {
+            position: 'relative',
+            height: trackHeight,
+            width: msaAreaWidth,
+            overflow: 'hidden',
+        } }, blocksX.map(bx => (React.createElement(ConservationBlock, { key: bx, model: model, offsetX: bx, trackHeight: trackHeight })))));
+});
+export default ConservationTrack;
+//# sourceMappingURL=ConservationTrack.js.map

package/dist/components/ConservationTrack.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"ConservationTrack.js","sourceRoot":"","sources":["../../src/components/ConservationTrack.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,MAAM,EAAE,MAAM,OAAO,CAAA;AAEhD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAKrC,MAAM,iBAAiB,GAAG,QAAQ,CAAC,UAAU,EAC3C,KAAK,EACL,OAAO,EACP,WAAW,GAKZ;IACC,MAAM,EAAE,SAAS,EAAE,OAAO,EAAE,QAAQ,EAAE,kBAAkB,EAAE,YAAY,EAAE,GACtE,KAAK,CAAA;IAEP,MAAM,GAAG,GAAG,MAAM,CAAoB,IAAI,CAAC,CAAA;IAE3C,SAAS,CAAC,GAAG,EAAE;QACb,IAAI,CAAC,GAAG,CAAC,OAAO,EAAE,CAAC;YACjB,OAAM;QACR,CAAC;QAED,MAAM,GAAG,GAAG,GAAG,CAAC,OAAO,CAAC,UAAU,CAAC,IAAI,CAAC,CAAA;QACxC,IAAI,CAAC,GAAG,EAAE,CAAC;YACT,OAAM;QACR,CAAC;QAED,GAAG,CAAC,cAAc,EAAE,CAAA;QACpB,GAAG,CAAC,KAAK,CAAC,kBAAkB,EAAE,kBAAkB,CAAC,CAAA;QACjD,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,SAAS,EAAE,WAAW,CAAC,CAAA;QAC3C,GAAG,CAAC,SAAS,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,CAAA;QAE1B,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAC,CAAA;QAC1D,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC,OAAO,GAAG,SAAS,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAA;QAErE,KAAK,IAAI,CAAC,GAAG,MAAM,EAAE,CAAC,GAAG,IAAI,IAAI,CAAC,GAAG,YAAY,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;YAC9D,MAAM,KAAK,GAAG,YAAY,CAAC,CAAC,CAAE,CAAA;YAC9B,MAAM,SAAS,GAAG,KAAK,GAAG,WAAW,CAAA;YACrC,MAAM,CAAC,GAAG,CAAC,GAAG,QAAQ,CAAA;YAEtB,MAAM,GAAG,GAAG,KAAK,GAAG,GAAG,CAAA;YACvB,GAAG,CAAC,SAAS,GAAG,OAAO,GAAG,aAAa,CAAA;YACvC,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,WAAW,GAAG,SAAS,EAAE,QAAQ,EAAE,SAAS,CAAC,CAAA;QAC/D,CAAC;IACH,CAAC,EAAE;QACD,SAAS;QACT,QAAQ;QACR,WAAW;QACX,OAAO;QACP,kBAAkB;QAClB,YAAY;KACb,CAAC,CAAA;IAEF,OAAO,CACL,gCACE,GAAG,EAAE,GAAG,EACR,MAAM,EAAE,WAAW,GAAG,kBAAkB,EACxC,KAAK,EAAE,SAAS,GAAG,kBAAkB,EACrC,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,IAAI,EAAE,OAAO,GAAG,OAAO;YACvB,KAAK,EAAE,SAAS;YAChB,MAAM,EAAE,WAAW;SACpB,GACD,CACH,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,iBAAiB,GAAG,QAAQ,CAAC,UAAU,EAC3C,KAAK,EACL,KAAK,GAIN;IACC,MAAM,EAAE,OAAO,EAAE,YAAY,EAAE,GAAG,KAAK,CAAA;IACvC,MAAM,WAAW,GAAG,KAAK,CAAC,KAAK,CAAC,MAAM,CAAA;IAEtC,OAAO,CACL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM,EAAE,WAAW;YACnB,KAAK,EAAE,YAAY;YACnB,QAAQ,EAAE,QAAQ;SACnB,IAEA,OAAO,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CACjB,oBAAC,iBAAiB,IAChB,GAAG,EAAE,EAAE,EACP,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,EAAE,EACX,WAAW,EAAE,WAAW,GACxB,CACH,CAAC,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,iBAAiB,CAAA"}

package/dist/components/Loading.js

@@ -5,6 +5,17 @@ import { Button, Typography } from '@mui/material';
 import { observer } from 'mobx-react';
 import MSAView from './MSAView';
 import ImportForm from './import/ImportForm';
+function LoadingSpinner() {
+    return (React.createElement("div", { style: { display: 'flex', alignItems: 'center', gap: 12, padding: 20 } },
+        React.createElement("svg", { width: "24", height: "24", viewBox: "0 0 24 24", xmlns: "http://www.w3.org/2000/svg" },
+            React.createElement("style", null, `@keyframes spinner { to { transform: rotate(360deg); } }`),
+            React.createElement("circle", { cx: "12", cy: "12", r: "10", stroke: "#ccc", strokeWidth: "3", fill: "none" }),
+            React.createElement("path", { d: "M12 2a10 10 0 0 1 10 10", stroke: "#1976d2", strokeWidth: "3", fill: "none", strokeLinecap: "round", style: {
+                    animation: 'spinner 1s linear infinite',
+                    transformOrigin: 'center',
+                } })),
+        React.createElement(Typography, { variant: "h6" }, "Loading...")));
+}
 const Reset = observer(function ({ model, error, }) {
     return (React.createElement("div", null,
         React.createElement(ErrorMessage, { error: error }),
@@ -13,9 +24,10 @@ const Reset = observer(function ({ model, error, }) {
             } }, "Return to import form")));
 });
 const Loading = observer(function ({ model }) {
-    const { isLoading, dataInitialized } = model;
+    const { isLoading, dataInitialized, msaFilehandle, treeFilehandle } = model;
+    const hasPendingFilehandle = !!(msaFilehandle || treeFilehandle);
     return (React.createElement("div", null,
-        React.createElement(ErrorBoundary, { FallbackComponent: e => React.createElement(Reset, { model: model, error: e.error }) }, dataInitialized ? (isLoading ? (React.createElement(Typography, { variant: "h4" }, "Loading...")) : (React.createElement(MSAView, { model: model }))) : (React.createElement(ImportForm, { model: model })))));
+        React.createElement(ErrorBoundary, { FallbackComponent: e => React.createElement(Reset, { model: model, error: e.error }) }, dataInitialized ? (isLoading ? (React.createElement(LoadingSpinner, null)) : (React.createElement(MSAView, { model: model }))) : hasPendingFilehandle || isLoading ? (React.createElement(LoadingSpinner, null)) : (React.createElement(ImportForm, { model: model })))));
 });
 export default Loading;
 //# sourceMappingURL=Loading.js.map

package/dist/components/Loading.js.map

@@ -1 +1 @@
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+{"version":3,"file":"Loading.js","sourceRoot":"","sources":["../../src/components/Loading.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,YAAY,EAAE,MAAM,kBAAkB,CAAA;AAC/C,OAAO,EAAE,aAAa,EAAE,MAAM,gCAAgC,CAAA;AAC9D,OAAO,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAClD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,OAAO,MAAM,WAAW,CAAA;AAC/B,OAAO,UAAU,MAAM,qBAAqB,CAAA;AAI5C,SAAS,cAAc;IACrB,OAAO,CACL,6BACE,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,EAAE,UAAU,EAAE,QAAQ,EAAE,GAAG,EAAE,EAAE,EAAE,OAAO,EAAE,EAAE,EAAE;QAEtE,6BACE,KAAK,EAAC,IAAI,EACV,MAAM,EAAC,IAAI,EACX,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,4BAA4B;YAElC,mCACG,0DAA0D,CACrD;YACR,gCACE,EAAE,EAAC,IAAI,EACP,EAAE,EAAC,IAAI,EACP,CAAC,EAAC,IAAI,EACN,MAAM,EAAC,MAAM,EACb,WAAW,EAAC,GAAG,EACf,IAAI,EAAC,MAAM,GACX;YACF,8BACE,CAAC,EAAC,yBAAyB,EAC3B,MAAM,EAAC,SAAS,EAChB,WAAW,EAAC,GAAG,EACf,IAAI,EAAC,MAAM,EACX,aAAa,EAAC,OAAO,EACrB,KAAK,EAAE;oBACL,SAAS,EAAE,4BAA4B;oBACvC,eAAe,EAAE,QAAQ;iBAC1B,GACD,CACE;QACN,oBAAC,UAAU,IAAC,OAAO,EAAC,IAAI,iBAAwB,CAC5C,CACP,CAAA;AACH,CAAC;AAED,MAAM,KAAK,GAAG,QAAQ,CAAC,UAAU,EAC/B,KAAK,EACL,KAAK,GAIN;IACC,OAAO,CACL;QACE,oBAAC,YAAY,IAAC,KAAK,EAAE,KAAK,GAAI;QAC9B,oBAAC,MAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,OAAO,EAAE,GAAG,EAAE;gBACZ,KAAK,CAAC,KAAK,EAAE,CAAA;YACf,CAAC,4BAGM,CACL,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,OAAO,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACnE,MAAM,EAAE,SAAS,EAAE,eAAe,EAAE,aAAa,EAAE,cAAc,EAAE,GAAG,KAAK,CAAA;IAC3E,MAAM,oBAAoB,GAAG,CAAC,CAAC,CAAC,aAAa,IAAI,cAAc,CAAC,CAAA;IAEhE,OAAO,CACL;QACE,oBAAC,aAAa,IACZ,iBAAiB,EAAE,CAAC,CAAC,EAAE,CAAC,oBAAC,KAAK,IAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,CAAC,CAAC,KAAK,GAAI,IAE9D,eAAe,CAAC,CAAC,CAAC,CACjB,SAAS,CAAC,CAAC,CAAC,CACV,oBAAC,cAAc,OAAG,CACnB,CAAC,CAAC,CAAC,CACF,oBAAC,OAAO,IAAC,KAAK,EAAE,KAAK,GAAI,CAC1B,CACF,CAAC,CAAC,CAAC,oBAAoB,IAAI,SAAS,CAAC,CAAC,CAAC,CACtC,oBAAC,cAAc,OAAG,CACnB,CAAC,CAAC,CAAC,CACF,oBAAC,UAAU,IAAC,KAAK,EAAE,KAAK,GAAI,CAC7B,CACa,CACZ,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,OAAO,CAAA"}

package/dist/components/MSAView.js

@@ -1,6 +1,7 @@
 import React, { Suspense } from 'react';
 import { observer } from 'mobx-react';
 import { HorizontalResizeHandle, VerticalResizeHandle } from './ResizeHandles';
+import Track from './Track';
 import VerticalScrollbar from './VerticalScrollbar';
 import Header from './header/Header';
 import Minimap from './minimap/Minimap';
@@ -13,6 +14,40 @@ const TopArea = observer(function ({ model }) {
         React.createElement(TreeRuler, { model: model }),
         showHorizontalScrollbar ? React.createElement(Minimap, { model: model }) : null));
 });
+const TrackColumnIndicator = observer(function ({ model, }) {
+    const { mouseCol, mouseClickCol, colWidth, scrollX, treeAreaWidth, resizeHandleWidth, totalTrackAreaHeight, } = model;
+    const left = treeAreaWidth + resizeHandleWidth;
+    return (React.createElement(React.Fragment, null,
+        mouseCol !== undefined ? (React.createElement("div", { style: {
+                position: 'absolute',
+                left: left + mouseCol * colWidth + scrollX,
+                top: 0,
+                width: colWidth,
+                height: totalTrackAreaHeight,
+                backgroundColor: 'rgba(0,0,0,0.15)',
+                pointerEvents: 'none',
+                zIndex: 100,
+            } })) : null,
+        mouseClickCol !== undefined ? (React.createElement("div", { style: {
+                position: 'absolute',
+                left: left + mouseClickCol * colWidth + scrollX,
+                top: 0,
+                width: colWidth,
+                height: totalTrackAreaHeight,
+                backgroundColor: 'rgba(128,128,0,0.2)',
+                pointerEvents: 'none',
+                zIndex: 100,
+            } })) : null));
+});
+const TrackArea = observer(function ({ model }) {
+    const { turnedOnTracks } = model;
+    if (turnedOnTracks.length === 0) {
+        return null;
+    }
+    return (React.createElement("div", { style: { position: 'relative' } },
+        React.createElement(TrackColumnIndicator, { model: model }),
+        turnedOnTracks.map(track => (React.createElement(Track, { key: track.model.id, model: model, track: track })))));
+});
 const MainArea = observer(function ({ model }) {
     const { showVerticalScrollbar } = model;
     return (React.createElement("div", { style: { display: 'flex' } },
@@ -24,6 +59,7 @@ const MainArea = observer(function ({ model }) {
 const View = observer(function ({ model }) {
     return (React.createElement("div", { style: { position: 'relative' } },
         React.createElement(TopArea, { model: model }),
+        React.createElement(TrackArea, { model: model }),
         React.createElement(MainArea, { model: model })));
 });
 const MSAView = observer(function ({ model }) {

package/dist/components/MSAView.js.map

@@ -1 +1 @@
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+{"version":3,"file":"MSAView.js","sourceRoot":"","sources":["../../src/components/MSAView.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEvC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,sBAAsB,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAA;AAC9E,OAAO,KAAK,MAAM,SAAS,CAAA;AAC3B,OAAO,iBAAiB,MAAM,qBAAqB,CAAA;AACnD,OAAO,MAAM,MAAM,iBAAiB,CAAA;AACpC,OAAO,OAAO,MAAM,mBAAmB,CAAA;AACvC,OAAO,QAAQ,MAAM,gBAAgB,CAAA;AACrC,OAAO,SAAS,MAAM,kBAAkB,CAAA;AACxC,OAAO,SAAS,MAAM,kBAAkB,CAAA;AAIxC,MAAM,OAAO,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACnE,MAAM,EAAE,uBAAuB,EAAE,GAAG,KAAK,CAAA;IACzC,OAAO,CACL,6BAAK,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,EAAE;QAC7B,oBAAC,SAAS,IAAC,KAAK,EAAE,KAAK,GAAI;QAC1B,uBAAuB,CAAC,CAAC,CAAC,oBAAC,OAAO,IAAC,KAAK,EAAE,KAAK,GAAI,CAAC,CAAC,CAAC,IAAI,CACvD,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,oBAAoB,GAAG,QAAQ,CAAC,UAAU,EAC9C,KAAK,GAGN;IACC,MAAM,EACJ,QAAQ,EACR,aAAa,EACb,QAAQ,EACR,OAAO,EACP,aAAa,EACb,iBAAiB,EACjB,oBAAoB,GACrB,GAAG,KAAK,CAAA;IAET,MAAM,IAAI,GAAG,aAAa,GAAG,iBAAiB,CAAA;IAE9C,OAAO,CACL;QACG,QAAQ,KAAK,SAAS,CAAC,CAAC,CAAC,CACxB,6BACE,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,IAAI,EAAE,IAAI,GAAG,QAAQ,GAAG,QAAQ,GAAG,OAAO;gBAC1C,GAAG,EAAE,CAAC;gBACN,KAAK,EAAE,QAAQ;gBACf,MAAM,EAAE,oBAAoB;gBAC5B,eAAe,EAAE,kBAAkB;gBACnC,aAAa,EAAE,MAAM;gBACrB,MAAM,EAAE,GAAG;aACZ,GACD,CACH,CAAC,CAAC,CAAC,IAAI;QACP,aAAa,KAAK,SAAS,CAAC,CAAC,CAAC,CAC7B,6BACE,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,IAAI,EAAE,IAAI,GAAG,aAAa,GAAG,QAAQ,GAAG,OAAO;gBAC/C,GAAG,EAAE,CAAC;gBACN,KAAK,EAAE,QAAQ;gBACf,MAAM,EAAE,oBAAoB;gBAC5B,eAAe,EAAE,qBAAqB;gBACtC,aAAa,EAAE,MAAM;gBACrB,MAAM,EAAE,GAAG;aACZ,GACD,CACH,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,SAAS,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACrE,MAAM,EAAE,cAAc,EAAE,GAAG,KAAK,CAAA;IAChC,IAAI,cAAc,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QAChC,OAAO,IAAI,CAAA;IACb,CAAC;IACD,OAAO,CACL,6BAAK,KAAK,EAAE,EAAE,QAAQ,EAAE,UAAU,EAAE;QAClC,oBAAC,oBAAoB,IAAC,KAAK,EAAE,KAAK,GAAI;QACrC,cAAc,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CAC3B,oBAAC,KAAK,IAAC,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,GAAI,CAC3D,CAAC,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,QAAQ,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACpE,MAAM,EAAE,qBAAqB,EAAE,GAAG,KAAK,CAAA;IAEvC,OAAO,CACL,6BAAK,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,EAAE;QAC7B,oBAAC,SAAS,IAAC,KAAK,EAAE,KAAK,GAAI;QAC3B,oBAAC,oBAAoB,IAAC,KAAK,EAAE,KAAK,GAAI;QACtC,oBAAC,QAAQ,IAAC,KAAK,EAAE,KAAK,GAAI;QACzB,qBAAqB,CAAC,CAAC,CAAC,oBAAC,iBAAiB,IAAC,KAAK,EAAE,KAAK,GAAI,CAAC,CAAC,CAAC,IAAI,CAC/D,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,IAAI,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IAChE,OAAO,CACL,6BAAK,KAAK,EAAE,EAAE,QAAQ,EAAE,UAAU,EAAE;QAClC,oBAAC,OAAO,IAAC,KAAK,EAAE,KAAK,GAAI;QACzB,oBAAC,SAAS,IAAC,KAAK,EAAE,KAAK,GAAI;QAC3B,oBAAC,QAAQ,IAAC,KAAK,EAAE,KAAK,GAAI,CACtB,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,MAAM,OAAO,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACnE,MAAM,EAAE,MAAM,EAAE,eAAe,EAAE,eAAe,EAAE,WAAW,EAAE,GAAG,KAAK,CAAA;IACvE,OAAO,CACL,iCACG,eAAe,CAAC,CAAC,CAAC,CACjB;QACE,6BAAK,KAAK,EAAE,EAAE,MAAM,EAAE,QAAQ,EAAE,QAAQ,EAAE;YACxC,oBAAC,MAAM,IAAC,KAAK,EAAE,KAAK,GAAI;YACxB,oBAAC,IAAI,IAAC,KAAK,EAAE,KAAK,GAAI,CAClB;QACN,oBAAC,sBAAsB,IAAC,KAAK,EAAE,KAAK,GAAI;QAEvC,eAAe,CAAC,CAAC,CAAC,CACjB,oBAAC,QAAQ,IAAC,QAAQ,EAAE,IAAI;YACtB,oBAAC,eAAe,OAAK,WAAW,GAAI,CAC3B,CACZ,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAC,CAAC,CAAC,IAAI,CACJ,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,OAAO,CAAA"}

package/dist/components/SequenceTextArea.js

@@ -19,10 +19,11 @@ export default function SequenceTextArea({ str }) {
     const [copied, setCopied] = useState(false);
     const [showGaps, setShowGaps] = useState(false);
     const [showEmpty, setShowEmpty] = useState(false);
+    const removeGaps = (s) => s.replaceAll('-', '').replaceAll('.', '');
     const disp = str
-        .map(([s1, s2]) => [s1, showGaps ? s2 : s2.replaceAll('-', '')])
+        .map(([s1, s2]) => [s1, showGaps ? s2 : removeGaps(s2)])
         .filter(f => (showEmpty ? true : !!f[1]))
-        .map(([s1, s2]) => `>${s1}\n${showGaps ? s2 : s2.replaceAll('-', '')}`)
+        .map(([s1, s2]) => `>${s1}\n${showGaps ? s2 : removeGaps(s2)}`)
         .join('\n');
     return (React.createElement(React.Fragment, null,
         React.createElement(Button, { color: "primary", variant: "contained", onClick: () => {

package/dist/components/SequenceTextArea.js.map

@@ -1 +1 @@
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+{"version":3,"file":"SequenceTextArea.js","sourceRoot":"","sources":["../../src/components/SequenceTextArea.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEvC,OAAO,EAAE,MAAM,EAAE,SAAS,EAAE,MAAM,eAAe,CAAA;AACjD,OAAO,IAAI,MAAM,mBAAmB,CAAA;AACpC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAE1C,OAAO,SAAS,MAAM,aAAa,CAAA;AAEnC,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,YAAY,EAAE;QACZ,UAAU,EAAE,aAAa;QACzB,QAAQ,EAAE,YAAY;KACvB;IACD,aAAa,EAAE;QACb,UAAU,EAAE,WAAW;QACvB,MAAM,EAAE,CAAC;QACT,QAAQ,EAAE,MAAM;KACjB;CACF,CAAC,CAAA;AAEF,MAAM,CAAC,OAAO,UAAU,gBAAgB,CAAC,EAAE,GAAG,EAA+B;IAC3E,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC3C,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC/C,MAAM,CAAC,SAAS,EAAE,YAAY,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAEjD,MAAM,UAAU,GAAG,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,GAAG,EAAE,EAAE,CAAC,CAAC,UAAU,CAAC,GAAG,EAAE,EAAE,CAAC,CAAA;IAC3E,MAAM,IAAI,GAAG,GAAG;SACb,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,EAAE,QAAQ,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,EAAE,CAAC,CAAU,CAAC;SAChE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;SACxC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,IAAI,EAAE,KAAK,QAAQ,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,EAAE,CAAC,EAAE,CAAC;SAC9D,IAAI,CAAC,IAAI,CAAC,CAAA;IACb,OAAO,CACL;QACE,oBAAC,MAAM,IACL,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,EACnB,OAAO,EAAE,GAAG,EAAE;gBACZ,IAAI,CAAC,IAAI,CAAC,CAAA;gBACV,SAAS,CAAC,IAAI,CAAC,CAAA;gBACf,UAAU,CAAC,GAAG,EAAE;oBACd,SAAS,CAAC,KAAK,CAAC,CAAA;gBAClB,CAAC,EAAE,GAAG,CAAC,CAAA;YACT,CAAC,IAEA,MAAM,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,mBAAmB,CAClC;QACT,oBAAC,SAAS,IACR,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,QAAQ,EACjB,QAAQ,EAAE,GAAG,EAAE;gBACb,WAAW,CAAC,CAAC,QAAQ,CAAC,CAAA;YACxB,CAAC,GACD;QACF,oBAAC,SAAS,IACR,KAAK,EAAC,YAAY,EAClB,OAAO,EAAE,SAAS,EAClB,QAAQ,EAAE,GAAG,EAAE;gBACb,YAAY,CAAC,CAAC,SAAS,CAAC,CAAA;YAC1B,CAAC,GACD;QACF,oBAAC,SAAS,IACR,OAAO,EAAC,UAAU,EAClB,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,aAAa,EAChC,OAAO,EAAE,CAAC,EACV,OAAO,EAAE,EAAE,EACX,SAAS,QACT,KAAK,EAAE,IAAI,EACX,UAAU,EAAE;gBACV,QAAQ,EAAE,IAAI;gBACd,OAAO,EAAE;oBACP,KAAK,EAAE,OAAO,CAAC,YAAY;iBAC5B;aACF,GACD,CACD,CACJ,CAAA;AACH,CAAC"}

package/dist/components/TextTrack.d.ts

@@ -1,8 +1,8 @@
 import React from 'react';
 import type { MsaViewModel } from '../model';
-import type { ITextTrack } from '../types';
+import type { BasicTrack } from '../types';
 declare const AnnotationTrack: ({ track, model, }: {
-    track: ITextTrack;
+    track: BasicTrack;
     model: MsaViewModel;
-}) => React.JSX.Element;
+}) => React.JSX.Element | null;
 export default AnnotationTrack;

package/dist/components/TextTrack.js

@@ -26,7 +26,7 @@ const AnnotationBlock = observer(function ({ track, model, offsetX, }) {
         ctx.font = ctx.font.replace(/\d+px/, `${fontSize}px`);
         const xStart = Math.max(0, Math.floor(offsetX / colWidth));
         const xEnd = Math.max(0, Math.ceil((offsetX + blockSize) / colWidth));
-        const str = data.slice(xStart, xEnd);
+        const str = data?.slice(xStart, xEnd);
         for (let i = 0; str && i < str.length; i++) {
             const letter = str[i];
             const color = colorScheme[letter.toUpperCase()];
@@ -61,6 +61,9 @@ const AnnotationBlock = observer(function ({ track, model, offsetX, }) {
 });
 const AnnotationTrack = observer(function ({ track, model, }) {
     const { blocksX, msaAreaWidth, rowHeight } = model;
+    if (!track.model.data) {
+        return null;
+    }
     return (React.createElement("div", { style: {
             position: 'relative',
             height: rowHeight,

package/dist/components/TextTrack.js.map

@@ -1 +1 @@
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+{"version":3,"file":"TextTrack.js","sourceRoot":"","sources":["../../src/components/TextTrack.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,OAAO,CAAA;AAEzD,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,aAAa,EAAE,MAAM,SAAS,CAAA;AAKvC,MAAM,eAAe,GAAG,QAAQ,CAAC,UAAU,EACzC,KAAK,EACL,KAAK,EACL,OAAO,GAKR;IACC,MAAM,EACJ,SAAS,EACT,OAAO,EACP,OAAO,EACP,WAAW,EAAE,gBAAgB,EAC7B,QAAQ,EACR,QAAQ,EACR,SAAS,EACT,kBAAkB,GACnB,GAAG,KAAK,CAAA;IACT,MAAM,EACJ,KAAK,EAAE,EAAE,iBAAiB,EAAE,IAAI,EAAE,GACnC,GAAG,KAAK,CAAA;IAET,MAAM,WAAW,GAAG,iBAAiB,IAAI,gBAAgB,CAAA;IACzD,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,GAAG,GAAG,MAAM,CAAoB,IAAI,CAAC,CAAA;IAC3C,MAAM,cAAc,GAAG,OAAO,CAC5B,GAAG,EAAE,CAAC,aAAa,CAAC,WAAW,EAAE,KAAK,CAAC,EACvC,CAAC,WAAW,EAAE,KAAK,CAAC,CACrB,CAAA;IACD,SAAS,CAAC,GAAG,EAAE;QACb,IAAI,CAAC,GAAG,CAAC,OAAO,EAAE,CAAC;YACjB,OAAM;QACR,CAAC;QAED,MAAM,GAAG,GAAG,GAAG,CAAC,OAAO,CAAC,UAAU,CAAC,IAAI,CAAC,CAAA;QACxC,IAAI,CAAC,GAAG,EAAE,CAAC;YACT,OAAM;QACR,CAAC;QAED,0CAA0C;QAC1C,GAAG,CAAC,cAAc,EAAE,CAAA;QACpB,GAAG,CAAC,KAAK,CAAC,kBAAkB,EAAE,kBAAkB,CAAC,CAAA;QACjD,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,SAAS,EAAE,SAAS,CAAC,CAAA;QACzC,GAAG,CAAC,SAAS,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,CAAA;QAC1B,GAAG,CAAC,SAAS,GAAG,QAAQ,CAAA;QACxB,GAAG,CAAC,IAAI,GAAG,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,QAAQ,IAAI,CAAC,CAAA;QAErD,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAC,CAAA;QAC1D,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC,OAAO,GAAG,SAAS,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAA;QACrE,MAAM,GAAG,GAAG,IAAI,EAAE,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;QACrC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,GAAG,IAAI,CAAC,GAAG,GAAG,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;YAC3C,MAAM,MAAM,GAAG,GAAG,CAAC,CAAC,CAAE,CAAA;YACtB,MAAM,KAAK,GAAG,WAAW,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,CAAA;YAC/C,IAAI,OAAO,EAAE,CAAC;gBACZ,MAAM,CAAC,GAAG,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAA;gBACvD,GAAG,CAAC,SAAS,GAAG,KAAK,IAAI,OAAO,CAAA;gBAChC,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,QAAQ,EAAE,SAAS,CAAC,CAAA;gBACvC,IAAI,SAAS,IAAI,EAAE,IAAI,QAAQ,IAAI,SAAS,GAAG,CAAC,EAAE,CAAC;oBACjD,GAAG,CAAC,SAAS,GAAG,cAAc,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,IAAI,OAAO,CAAA;oBAC/D,GAAG,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,GAAG,QAAQ,GAAG,CAAC,EAAE,SAAS,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA,CAAC,kCAAkC;gBAC9F,CAAC;YACH,CAAC;QACH,CAAC;IACH,CAAC,EAAE;QACD,QAAQ;QACR,OAAO;QACP,SAAS;QACT,QAAQ;QACR,SAAS;QACT,OAAO;QACP,cAAc;QACd,WAAW;QACX,kBAAkB;QAClB,IAAI;KACL,CAAC,CAAA;IACF,OAAO,CACL,gCACE,GAAG,EAAE,GAAG,EACR,MAAM,EAAE,SAAS,GAAG,kBAAkB,EACtC,KAAK,EAAE,SAAS,GAAG,kBAAkB,EACrC,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,IAAI,EAAE,OAAO,GAAG,OAAO;YACvB,KAAK,EAAE,SAAS;YAChB,MAAM,EAAE,SAAS;SAClB,GACD,CACH,CAAA;AACH,CAAC,CAAC,CAAA;AACF,MAAM,eAAe,GAAG,QAAQ,CAAC,UAAU,EACzC,KAAK,EACL,KAAK,GAIN;IACC,MAAM,EAAE,OAAO,EAAE,YAAY,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IAClD,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;QACtB,OAAO,IAAI,CAAA;IACb,CAAC;IACD,OAAO,CACL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM,EAAE,SAAS;YACjB,KAAK,EAAE,YAAY;YACnB,QAAQ,EAAE,QAAQ;SACnB,IAEA,OAAO,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CACjB,oBAAC,eAAe,IAAC,GAAG,EAAE,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,OAAO,EAAE,EAAE,GAAI,CACtE,CAAC,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,eAAe,CAAA"}

package/dist/components/Track.js

@@ -2,7 +2,6 @@ import React, { lazy, useEffect, useRef, useState } from 'react';
 import ArrowDropDownIcon from '@mui/icons-material/ArrowDropDown';
 import { IconButton, Menu, MenuItem } from '@mui/material';
 import { observer } from 'mobx-react';
-import normalizeWheel from 'normalize-wheel';
 import { makeStyles } from 'tss-react/mui';
 // lazies
 const TrackInfoDialog = lazy(() => import('./dialogs/TrackInfoDialog'));
@@ -14,7 +13,7 @@ const useStyles = makeStyles()({
 export const TrackLabel = observer(function ({ model, track, }) {
     const [anchorEl, setAnchorEl] = useState();
     const { drawLabels, rowHeight, treeAreaWidth: width } = model;
-    const { height, model: { name }, } = track;
+    const { model: { name, height }, } = track;
     const { classes } = useStyles();
     const trackLabelHeight = Math.max(8, rowHeight - 8);
     return (React.createElement("div", { style: {
@@ -49,7 +48,7 @@ export const TrackLabel = observer(function ({ model, track, }) {
                 } }, "Get info"))) : null));
 });
 const Track = observer(function ({ model, track, }) {
-    const { resizeHandleWidth } = model;
+    const { resizeHandleWidth, colWidth, scrollX, numColumns } = model;
     const { model: { height, error }, } = track;
     const ref = useRef(null);
     const scheduled = useRef(false);
@@ -59,9 +58,8 @@ const Track = observer(function ({ model, track, }) {
         if (!curr) {
             return;
         }
-        function onWheel(origEvent) {
-            const event = normalizeWheel(origEvent);
-            deltaX.current += event.pixelX;
+        function onWheel(event) {
+            deltaX.current += event.deltaX;
             if (!scheduled.current) {
                 scheduled.current = true;
                 requestAnimationFrame(() => {
@@ -70,7 +68,7 @@ const Track = observer(function ({ model, track, }) {
                     scheduled.current = false;
                 });
             }
-            origEvent.preventDefault();
+            event.preventDefault();
         }
         curr.addEventListener('wheel', onWheel);
         return () => {
@@ -80,7 +78,22 @@ const Track = observer(function ({ model, track, }) {
     return (React.createElement("div", { key: track.id, style: { display: 'flex', height } },
         React.createElement(TrackLabel, { model: model, track: track }),
         React.createElement("div", { style: { width: resizeHandleWidth, flexShrink: 0 } }),
-        React.createElement("div", { ref: ref }, error ? (React.createElement("div", { style: { color: 'red', fontSize: 10 } }, `${error}`)) : (React.createElement(track.ReactComponent, { model: model, track: track })))));
+        React.createElement("div", { ref: ref, onMouseMove: event => {
+                if (!ref.current) {
+                    return;
+                }
+                const { left } = ref.current.getBoundingClientRect();
+                const mouseX = event.clientX - left - scrollX;
+                const col = Math.floor(mouseX / colWidth);
+                if (col >= 0 && col < numColumns) {
+                    model.setMousePos(col, undefined);
+                }
+                else {
+                    model.setMousePos(undefined, undefined);
+                }
+            }, onMouseLeave: () => {
+                model.setMousePos(undefined, undefined);
+            } }, error ? (React.createElement("div", { style: { color: 'red', fontSize: 10 } }, `${error}`)) : (React.createElement(track.ReactComponent, { model: model, track: track })))));
 });
 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,SAAS,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAEhE,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;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAI1C,SAAS;AACT,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,2BAA2B,CAAC,CAAC,CAAA;AAEvE,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,MAAM,EAAE;QACN,OAAO,EAAE,CAAC;KACX;CACF,CAAC,CAAA;AAEF,MAAM,CAAC,MAAM,UAAU,GAAG,QAAQ,CAAC,UAAU,EAC3C,KAAK,EACL,KAAK,GAKN;IACC,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,EAAqB,CAAA;IAC7D,MAAM,EAAE,UAAU,EAAE,SAAS,EAAE,aAAa,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IAC7D,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,CAAC,EAAE,SAAS,GAAG,CAAC,CAAC,CAAA;IAEnD,OAAO,CACL,6BACE,KAAK,EAAE;YACL,KAAK;YACL,MAAM;YACN,UAAU,EAAE,CAAC;YACb,SAAS,EAAE,OAAO;YAClB,QAAQ,EAAE,gBAAgB;SAC3B;QAEA,UAAU,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE;QAAE,GAAG;QAC5B,oBAAC,UAAU,IACT,SAAS,EAAE,OAAO,CAAC,MAAM,EACzB,KAAK,EAAE;gBACL,KAAK,EAAE,gBAAgB;gBACvB,MAAM,EAAE,gBAAgB;aACzB,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,WAAW,CAAC,SAAS,CAAC,CAAA;YACxB,CAAC;YAED,oBAAC,QAAQ,IACP,KAAK,QACL,OAAO,EAAE,GAAG,EAAE;oBACZ,KAAK,CAAC,WAAW,CAAC,KAAK,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;oBACjC,WAAW,CAAC,SAAS,CAAC,CAAA;gBACxB,CAAC,YAGQ;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,WAAW,CAAC,SAAS,CAAC,CAAA;gBACxB,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,GAKN;IACC,MAAM,EAAE,iBAAiB,EAAE,QAAQ,EAAE,OAAO,EAAE,UAAU,EAAE,GAAG,KAAK,CAAA;IAClE,MAAM,EACJ,KAAK,EAAE,EAAE,MAAM,EAAE,KAAK,EAAE,GACzB,GAAG,KAAK,CAAA;IACT,MAAM,GAAG,GAAG,MAAM,CAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,SAAS,GAAG,MAAM,CAAC,KAAK,CAAC,CAAA;IAC/B,MAAM,MAAM,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;IACxB,SAAS,CAAC,GAAG,EAAE;QACb,MAAM,IAAI,GAAG,GAAG,CAAC,OAAO,CAAA;QACxB,IAAI,CAAC,IAAI,EAAE,CAAC;YACV,OAAM;QACR,CAAC;QACD,SAAS,OAAO,CAAC,KAAiB;YAChC,MAAM,CAAC,OAAO,IAAI,KAAK,CAAC,MAAM,CAAA;YAE9B,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,CAAC;gBACvB,SAAS,CAAC,OAAO,GAAG,IAAI,CAAA;gBACxB,qBAAqB,CAAC,GAAG,EAAE;oBACzB,KAAK,CAAC,SAAS,CAAC,CAAC,MAAM,CAAC,OAAO,CAAC,CAAA;oBAChC,MAAM,CAAC,OAAO,GAAG,CAAC,CAAA;oBAClB,SAAS,CAAC,OAAO,GAAG,KAAK,CAAA;gBAC3B,CAAC,CAAC,CAAA;YACJ,CAAC;YACD,KAAK,CAAC,cAAc,EAAE,CAAA;QACxB,CAAC;QACD,IAAI,CAAC,gBAAgB,CAAC,OAAO,EAAE,OAAO,CAAC,CAAA;QACvC,OAAO,GAAG,EAAE;YACV,IAAI,CAAC,mBAAmB,CAAC,OAAO,EAAE,OAAO,CAAC,CAAA;QAC5C,CAAC,CAAA;IACH,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAA;IAEX,OAAO,CACL,6BAAK,GAAG,EAAE,KAAK,CAAC,EAAE,EAAE,KAAK,EAAE,EAAE,OAAO,EAAE,MAAM,EAAE,MAAM,EAAE;QACpD,oBAAC,UAAU,IAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,GAAI;QAC1C,6BAAK,KAAK,EAAE,EAAE,KAAK,EAAE,iBAAiB,EAAE,UAAU,EAAE,CAAC,EAAE,GAAI;QAC3D,6BACE,GAAG,EAAE,GAAG,EACR,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,IAAI,CAAC,GAAG,CAAC,OAAO,EAAE,CAAC;oBACjB,OAAM;gBACR,CAAC;gBACD,MAAM,EAAE,IAAI,EAAE,GAAG,GAAG,CAAC,OAAO,CAAC,qBAAqB,EAAE,CAAA;gBACpD,MAAM,MAAM,GAAG,KAAK,CAAC,OAAO,GAAG,IAAI,GAAG,OAAO,CAAA;gBAC7C,MAAM,GAAG,GAAG,IAAI,CAAC,KAAK,CAAC,MAAM,GAAG,QAAQ,CAAC,CAAA;gBACzC,IAAI,GAAG,IAAI,CAAC,IAAI,GAAG,GAAG,UAAU,EAAE,CAAC;oBACjC,KAAK,CAAC,WAAW,CAAC,GAAG,EAAE,SAAS,CAAC,CAAA;gBACnC,CAAC;qBAAM,CAAC;oBACN,KAAK,CAAC,WAAW,CAAC,SAAS,EAAE,SAAS,CAAC,CAAA;gBACzC,CAAC;YACH,CAAC,EACD,YAAY,EAAE,GAAG,EAAE;gBACjB,KAAK,CAAC,WAAW,CAAC,SAAS,EAAE,SAAS,CAAC,CAAA;YACzC,CAAC,IAEA,KAAK,CAAC,CAAC,CAAC,CACP,6BAAK,KAAK,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,QAAQ,EAAE,EAAE,EAAE,IAAG,GAAG,KAAK,EAAE,CAAO,CAC/D,CAAC,CAAC,CAAC,CACF,oBAAC,KAAK,CAAC,cAAc,IAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,GAAI,CACrD,CACG,CACF,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,KAAK,CAAA"}

package/dist/components/dialogs/ExportSVGDialog.js

@@ -1,12 +1,18 @@
 import React, { useState } from 'react';
 import { Dialog, ErrorMessage } from '@jbrowse/core/ui';
-import { Button, DialogActions, DialogContent, FormControl, FormControlLabel, FormLabel, Radio, RadioGroup, Typography, useTheme, } from '@mui/material';
+import { Alert, Button, DialogActions, DialogContent, FormControl, FormControlLabel, FormLabel, Radio, RadioGroup, Typography, useTheme, } from '@mui/material';
 import Checkbox2 from '../Checkbox2';
 export default function ExportSVGDialog({ model, onClose, }) {
     const [includeMinimap, setIncludeMinimap] = useState(true);
+    const [includeTracks, setIncludeTracks] = useState(true);
     const [exportType, setExportType] = useState('viewport');
     const [error, setError] = useState();
     const theme = useTheme();
+    const { totalWidth, totalHeight, treeAreaWidth, turnedOnTracks } = model;
+    const hasTracks = turnedOnTracks.length > 0;
+    const entireWidth = totalWidth + treeAreaWidth;
+    const entireHeight = totalHeight;
+    const isLargeExport = exportType === 'entire' && (entireWidth > 10000 || entireHeight > 10000);
     return (React.createElement(Dialog, { onClose: () => {
             onClose();
         }, open: true, title: "Export SVG" },
@@ -16,6 +22,9 @@ export default function ExportSVGDialog({ model, onClose, }) {
             React.createElement(Checkbox2, { label: "Include minimap?", disabled: exportType === 'entire', checked: includeMinimap, onChange: () => {
                     setIncludeMinimap(!includeMinimap);
                 } }),
+            hasTracks ? (React.createElement(Checkbox2, { label: "Include tracks?", checked: includeTracks, onChange: () => {
+                    setIncludeTracks(!includeTracks);
+                } })) : null,
             React.createElement("div", null,
                 React.createElement(FormControl, null,
                     React.createElement(FormLabel, null, "Export type"),
@@ -23,7 +32,13 @@ export default function ExportSVGDialog({ model, onClose, }) {
                             setExportType(event.target.value);
                         } },
                         React.createElement(FormControlLabel, { value: "entire", control: React.createElement(Radio, null), label: "Entire MSA" }),
-                        React.createElement(FormControlLabel, { value: "viewport", control: React.createElement(Radio, null), label: "Current viewport only" }))))),
+                        React.createElement(FormControlLabel, { value: "viewport", control: React.createElement(Radio, null), label: "Current viewport only" })))),
+            isLargeExport ? (React.createElement(Alert, { severity: "warning", style: { marginTop: 8 } },
+                "The entire MSA is very large (",
+                Math.round(entireWidth),
+                "x",
+                Math.round(entireHeight),
+                " pixels). Export may be slow or fail.")) : null),
         React.createElement(DialogActions, null,
             React.createElement(Button, { variant: "contained", color: "primary", onClick: () => {
                     // eslint-disable-next-line @typescript-eslint/no-floating-promises
@@ -33,14 +48,15 @@ export default function ExportSVGDialog({ model, onClose, }) {
                             await model.exportSVG({
                                 theme,
                                 includeMinimap: exportType === 'entire' ? false : includeMinimap,
+                                includeTracks: hasTracks && includeTracks,
                                 exportType,
                             });
+                            onClose();
                         }
                         catch (e) {
                             console.error(e);
                             setError(e);
                         }
-                        onClose();
                     })();
                 } }, "Submit"),
             React.createElement(Button, { variant: "contained", color: "secondary", onClick: () => {

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

@@ -1 +1 @@
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package/dist/components/header/GappynessSlider.d.ts

@@ -0,0 +1,6 @@
+import React from 'react';
+import type { MsaViewModel } from '../../model';
+declare const GappynessSlider: ({ model, }: {
+    model: MsaViewModel;
+}) => React.JSX.Element | null;
+export default GappynessSlider;