react-msaview 3.0.3 → 3.1.1

package/dist/calculateBlocks.d.ts

@@ -0,0 +1,12 @@
+export declare function blocksY({ mapHeight, blockSize, viewportY, viewportHeight, }: {
+    mapHeight: number;
+    blockSize: number;
+    viewportY: number;
+    viewportHeight: number;
+}): number[];
+export declare function blocksX({ mapWidth, blockSize, viewportX, viewportWidth, }: {
+    mapWidth: number;
+    blockSize: number;
+    viewportX: number;
+    viewportWidth: number;
+}): number[];

package/dist/calculateBlocks.js

@@ -0,0 +1,23 @@
+export function blocksY({ mapHeight, blockSize, viewportY, viewportHeight, }) {
+    const clampedViewportY = Math.max(0, Math.min(viewportY, mapHeight * blockSize - viewportHeight));
+    // Calculate visible tile ranges
+    const minTileY = Math.floor(clampedViewportY / blockSize);
+    const maxTileY = Math.floor((clampedViewportY + viewportHeight - 1) / blockSize);
+    // Generate list of visible tiles
+    const blocksY = [];
+    for (let tileY = minTileY; tileY <= maxTileY; tileY++) {
+        blocksY.push(tileY * blockSize);
+    }
+    return blocksY;
+}
+export function blocksX({ mapWidth, blockSize, viewportX, viewportWidth, }) {
+    const clampedViewportX = Math.max(0, Math.min(viewportX, mapWidth - viewportWidth));
+    const minTileX = Math.floor(clampedViewportX / blockSize);
+    const maxTileX = Math.floor((clampedViewportX + viewportWidth - 1) / blockSize);
+    const blocksX = [];
+    for (let tileX = minTileX; tileX <= maxTileX; tileX++) {
+        blocksX.push(tileX * blockSize);
+    }
+    return blocksX;
+}
+//# sourceMappingURL=calculateBlocks.js.map

package/dist/calculateBlocks.js.map

@@ -0,0 +1 @@
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package/dist/components/ExportSVGDialog.d.ts

@@ -0,0 +1,6 @@
+import React from 'react';
+import { MsaViewModel } from '../model';
+export default function ExportSVGDialog({ model, onClose, }: {
+    model: MsaViewModel;
+    onClose: () => void;
+}): React.JSX.Element;

package/dist/components/ExportSVGDialog.js

@@ -0,0 +1,26 @@
+import React, { useState } from 'react';
+import { Dialog, ErrorMessage } from '@jbrowse/core/ui';
+import { DialogContent, DialogActions, Button, Checkbox, FormControlLabel, useTheme, Typography, } from '@mui/material';
+export default function ExportSVGDialog({ model, onClose, }) {
+    const [includeMinimap, setIncludeMinimap] = useState(true);
+    const [error, setError] = useState();
+    const theme = useTheme();
+    return (React.createElement(Dialog, { onClose: () => onClose(), open: true, title: "Export SVG" },
+        React.createElement(DialogContent, null,
+            React.createElement(Typography, null, "Export SVG of current view"),
+            error ? React.createElement(ErrorMessage, { error: error }) : null,
+            React.createElement(FormControlLabel, { control: React.createElement(Checkbox, { checked: includeMinimap, onChange: event => setIncludeMinimap(event.target.checked) }), label: "Include minimap?" })),
+        React.createElement(DialogActions, null,
+            React.createElement(Button, { variant: "contained", color: "primary", onClick: async () => {
+                    try {
+                        await model.exportSVG({ theme, includeMinimap });
+                    }
+                    catch (e) {
+                        console.error(e);
+                        setError(e);
+                    }
+                    onClose();
+                } }, "Submit"),
+            React.createElement(Button, { variant: "contained", color: "secondary", onClick: () => onClose() }, "Cancel"))));
+}
+//# sourceMappingURL=ExportSVGDialog.js.map

package/dist/components/ExportSVGDialog.js.map

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

@@ -3,7 +3,7 @@ import { autorun } from 'mobx';
 import { useTheme } from '@mui/material';
 import { observer } from 'mobx-react';
 // locals
-import { renderBlock } from './renderMSABlock';
+import { renderMSABlock } from './renderMSABlock';
 import { colorContrast } from '../../util';
 const MSABlock = observer(function ({ model, offsetX, offsetY, }) {
     const { colWidth, rowHeight, scrollY, scrollX, colorScheme, blockSize, highResScaleFactor, } = model;
@@ -17,7 +17,7 @@ const MSABlock = observer(function ({ model, offsetX, offsetY, }) {
             return;
         }
         return autorun(() => {
-            renderBlock({
+            renderMSABlock({
                 ctx,
                 offsetX,
                 offsetY,

package/dist/components/MSAPanel/MSABlock.js.map

@@ -1 +1 @@
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+{"version":3,"file":"MSABlock.js","sourceRoot":"","sources":["../../../src/components/MSAPanel/MSABlock.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,OAAO,CAAA;AACzD,OAAO,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC9B,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,SAAS;AACT,OAAO,EAAE,cAAc,EAAE,MAAM,kBAAkB,CAAA;AAEjD,OAAO,EAAE,aAAa,EAAE,MAAM,YAAY,CAAA;AAE1C,MAAM,QAAQ,GAAG,QAAQ,CAAC,UAAU,EAClC,KAAK,EACL,OAAO,EACP,OAAO,GAKR;IACC,MAAM,EACJ,QAAQ,EACR,SAAS,EACT,OAAO,EACP,OAAO,EACP,WAAW,EACX,SAAS,EACT,kBAAkB,GACnB,GAAG,KAAK,CAAA;IACT,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IAExB,MAAM,cAAc,GAAG,OAAO,CAC5B,GAAG,EAAE,CAAC,aAAa,CAAC,WAAW,EAAE,KAAK,CAAC,EACvC,CAAC,WAAW,EAAE,KAAK,CAAC,CACrB,CAAA;IAED,MAAM,GAAG,GAAG,MAAM,CAAoB,IAAI,CAAC,CAAA;IAC3C,SAAS,CAAC,GAAG,EAAE;;QACb,MAAM,GAAG,GAAG,MAAA,GAAG,CAAC,OAAO,0CAAE,UAAU,CAAC,IAAI,CAAC,CAAA;QACzC,IAAI,CAAC,GAAG,EAAE,CAAC;YACT,OAAM;QACR,CAAC;QACD,OAAO,OAAO,CAAC,GAAG,EAAE;YAClB,cAAc,CAAC;gBACb,GAAG;gBACH,OAAO;gBACP,OAAO;gBACP,cAAc;gBACd,KAAK;aACN,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;IACJ,CAAC,EAAE,CAAC,KAAK,EAAE,OAAO,EAAE,OAAO,EAAE,cAAc,CAAC,CAAC,CAAA;IAC7C,OAAO,CACL,gCACE,GAAG,EAAE,GAAG,EACR,WAAW,EAAE,KAAK,CAAC,EAAE;YACnB,IAAI,CAAC,GAAG,CAAC,OAAO,EAAE,CAAC;gBACjB,OAAM;YACR,CAAC;YACD,MAAM,EAAE,IAAI,EAAE,GAAG,EAAE,GAAG,GAAG,CAAC,OAAO,CAAC,qBAAqB,EAAE,CAAA;YACzD,MAAM,MAAM,GAAG,KAAK,CAAC,OAAO,GAAG,IAAI,GAAG,OAAO,CAAA;YAC7C,MAAM,MAAM,GAAG,KAAK,CAAC,OAAO,GAAG,GAAG,GAAG,OAAO,CAAA;YAC5C,KAAK,CAAC,WAAW,CACf,IAAI,CAAC,KAAK,CAAC,MAAM,GAAG,QAAQ,CAAC,GAAG,CAAC,EACjC,IAAI,CAAC,KAAK,CAAC,MAAM,GAAG,SAAS,CAAC,CAC/B,CAAA;QACH,CAAC,EACD,YAAY,EAAE,GAAG,EAAE,CAAC,KAAK,CAAC,WAAW,EAAE,EACvC,KAAK,EAAE,SAAS,GAAG,kBAAkB,EACrC,MAAM,EAAE,SAAS,GAAG,kBAAkB,EACtC,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,GAAG,EAAE,OAAO,GAAG,OAAO;YACtB,IAAI,EAAE,OAAO,GAAG,OAAO;YACvB,KAAK,EAAE,SAAS;YAChB,MAAM,EAAE,SAAS;SAClB,GACD,CACH,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,QAAQ,CAAA"}

package/dist/components/MSAPanel/renderMSABlock.d.ts

@@ -1,8 +1,11 @@
 import { MsaViewModel } from '../../model';
-export declare function renderBlock({ model, offsetX, offsetY, contrastScheme, ctx, }: {
+export declare function renderMSABlock({ model, offsetX, offsetY, contrastScheme, ctx, highResScaleFactorOverride, blockSizeXOverride, blockSizeYOverride, }: {
     offsetX: number;
     offsetY: number;
     model: MsaViewModel;
     contrastScheme: Record<string, string>;
     ctx: CanvasRenderingContext2D;
+    highResScaleFactorOverride?: number;
+    blockSizeXOverride?: number;
+    blockSizeYOverride?: number;
 }): void;

package/dist/components/MSAPanel/renderMSABlock.js

@@ -1,18 +1,20 @@
 import { getClustalXColor, getPercentIdentityColor } from '../../colorSchemes';
-export function renderBlock({ model, offsetX, offsetY, contrastScheme, ctx, }) {
+export function renderMSABlock({ model, offsetX, offsetY, contrastScheme, ctx, highResScaleFactorOverride, blockSizeXOverride, blockSizeYOverride, }) {
     const { hierarchy, colWidth, blockSize, rowHeight, fontSize, highResScaleFactor, } = model;
+    const k = highResScaleFactorOverride || highResScaleFactor;
+    const bx = blockSizeXOverride || blockSize;
+    const by = blockSizeYOverride || blockSize;
     ctx.resetTransform();
-    ctx.scale(highResScaleFactor, highResScaleFactor);
-    ctx.clearRect(0, 0, blockSize, blockSize);
+    ctx.scale(k, k);
+    ctx.clearRect(0, 0, bx, by);
     ctx.translate(-offsetX, rowHeight / 2 - offsetY);
     ctx.textAlign = 'center';
     ctx.font = ctx.font.replace(/\d+px/, `${fontSize}px`);
     const leaves = hierarchy.leaves();
-    const b = blockSize;
     const yStart = Math.max(0, Math.floor((offsetY - rowHeight) / rowHeight));
-    const yEnd = Math.max(0, Math.ceil((offsetY + b + rowHeight) / rowHeight));
+    const yEnd = Math.max(0, Math.ceil((offsetY + by + rowHeight) / rowHeight));
     const xStart = Math.max(0, Math.floor(offsetX / colWidth));
-    const xEnd = Math.max(0, Math.ceil((offsetX + b) / colWidth));
+    const xEnd = Math.max(0, Math.ceil((offsetX + bx) / colWidth));
     const visibleLeaves = leaves.slice(yStart, yEnd);
     drawTiles({
         model,

package/dist/components/MSAPanel/renderMSABlock.js.map

@@ -1 +1 @@
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+{"version":3,"file":"renderMSABlock.js","sourceRoot":"","sources":["../../../src/components/MSAPanel/renderMSABlock.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,gBAAgB,EAAE,uBAAuB,EAAE,MAAM,oBAAoB,CAAA;AAI9E,MAAM,UAAU,cAAc,CAAC,EAC7B,KAAK,EACL,OAAO,EACP,OAAO,EACP,cAAc,EACd,GAAG,EACH,0BAA0B,EAC1B,kBAAkB,EAClB,kBAAkB,GAUnB;IACC,MAAM,EACJ,SAAS,EACT,QAAQ,EACR,SAAS,EACT,SAAS,EACT,QAAQ,EACR,kBAAkB,GACnB,GAAG,KAAK,CAAA;IACT,MAAM,CAAC,GAAG,0BAA0B,IAAI,kBAAkB,CAAA;IAC1D,MAAM,EAAE,GAAG,kBAAkB,IAAI,SAAS,CAAA;IAC1C,MAAM,EAAE,GAAG,kBAAkB,IAAI,SAAS,CAAA;IAC1C,GAAG,CAAC,cAAc,EAAE,CAAA;IACpB,GAAG,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;IACf,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;IAC3B,GAAG,CAAC,SAAS,CAAC,CAAC,OAAO,EAAE,SAAS,GAAG,CAAC,GAAG,OAAO,CAAC,CAAA;IAChD,GAAG,CAAC,SAAS,GAAG,QAAQ,CAAA;IACxB,GAAG,CAAC,IAAI,GAAG,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,QAAQ,IAAI,CAAC,CAAA;IAErD,MAAM,MAAM,GAAG,SAAS,CAAC,MAAM,EAAE,CAAA;IAEjC,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,CAAC,CAAC,OAAO,GAAG,SAAS,CAAC,GAAG,SAAS,CAAC,CAAC,CAAA;IACzE,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC,OAAO,GAAG,EAAE,GAAG,SAAS,CAAC,GAAG,SAAS,CAAC,CAAC,CAAA;IAC3E,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAC,CAAA;IAC1D,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC,OAAO,GAAG,EAAE,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAA;IAC9D,MAAM,aAAa,GAAG,MAAM,CAAC,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;IAEhD,SAAS,CAAC;QACR,KAAK;QACL,GAAG;QACH,OAAO;QACP,OAAO;QACP,MAAM;QACN,IAAI;QACJ,aAAa;KACd,CAAC,CAAA;IACF,QAAQ,CAAC;QACP,KAAK;QACL,GAAG;QACH,OAAO;QACP,cAAc;QACd,MAAM;QACN,IAAI;QACJ,aAAa;KACd,CAAC,CAAA;AACJ,CAAC;AAED,SAAS,SAAS,CAAC,EACjB,KAAK,EACL,OAAO,EACP,GAAG,EACH,aAAa,EACb,MAAM,EACN,IAAI,GASL;;IACC,MAAM,EACJ,OAAO,EACP,eAAe,EACf,WAAW,EACX,QAAQ,EACR,OAAO,EACP,QAAQ,EACR,SAAS,GACV,GAAG,KAAK,CAAA;IAET,KAAK,MAAM,IAAI,IAAI,aAAa,EAAE,CAAC;QACjC,MAAM;QACJ,mBAAmB;QACnB,CAAC,EAAE,CAAC,EACJ,IAAI,EAAE,EAAE,IAAI,EAAE,GACf,GAAG,IAAI,CAAA;QAER,MAAM,GAAG,GAAG,MAAA,OAAO,CAAC,IAAI,CAAC,0CAAE,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;QAC9C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,IAAG,GAAG,aAAH,GAAG,uBAAH,GAAG,CAAE,MAAM,CAAA,EAAE,CAAC,EAAE,EAAE,CAAC;YACrC,MAAM,MAAM,GAAG,GAAG,CAAC,CAAC,CAAC,CAAA;YACrB,MAAM,KAAK,GACT,eAAe,KAAK,0BAA0B;gBAC5C,CAAC,CAAC,gBAAgB,CAAC,QAAQ,CAAC,MAAM,GAAG,CAAC,CAAC,EAAE,KAAK,EAAE,IAAI,EAAE,MAAM,GAAG,CAAC,CAAC;gBACjE,CAAC,CAAC,eAAe,KAAK,0BAA0B;oBAC9C,CAAC,CAAC,uBAAuB,CACrB,QAAQ,CAAC,MAAM,GAAG,CAAC,CAAC,EACpB,KAAK,EACL,IAAI,EACJ,MAAM,GAAG,CAAC,CACX;oBACH,CAAC,CAAC,WAAW,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,CAAA;YACzC,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,GAAG,SAAS,EAAE,QAAQ,EAAE,SAAS,CAAC,CAAA;YACrD,CAAC;QACH,CAAC;IACH,CAAC;AACH,CAAC;AAED,SAAS,QAAQ,CAAC,EAChB,KAAK,EACL,OAAO,EACP,cAAc,EACd,GAAG,EACH,aAAa,EACb,MAAM,EACN,IAAI,GASL;;IACC,MAAM,EAAE,OAAO,EAAE,WAAW,EAAE,OAAO,EAAE,QAAQ,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IACpE,IAAI,SAAS,IAAI,CAAC,IAAI,QAAQ,GAAG,SAAS,GAAG,CAAC,EAAE,CAAC;QAC/C,KAAK,MAAM,IAAI,IAAI,aAAa,EAAE,CAAC;YACjC,MAAM;YACJ,mBAAmB;YACnB,CAAC,EAAE,CAAC,EACJ,IAAI,EAAE,EAAE,IAAI,EAAE,GACf,GAAG,IAAI,CAAA;YACR,MAAM,GAAG,GAAG,MAAA,OAAO,CAAC,IAAI,CAAC,0CAAE,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;YAC9C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,IAAG,GAAG,aAAH,GAAG,uBAAH,GAAG,CAAE,MAAM,CAAA,EAAE,CAAC,EAAE,EAAE,CAAC;gBACrC,MAAM,MAAM,GAAG,GAAG,CAAC,CAAC,CAAC,CAAA;gBACrB,MAAM,KAAK,GAAG,WAAW,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,CAAA;gBAC/C,MAAM,QAAQ,GAAG,cAAc,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,IAAI,OAAO,CAAA;gBAChE,MAAM,CAAC,GAAG,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAA;gBAEvD,kDAAkD;gBAClD,GAAG,CAAC,SAAS,GAAG,OAAO,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,KAAK,IAAI,OAAO,CAAA;gBACrD,GAAG,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,GAAG,QAAQ,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,GAAG,CAAC,CAAC,CAAA;YAC3D,CAAC;QACH,CAAC;IACH,CAAC;AACH,CAAC"}

package/dist/components/MSAPanel/renderMSAMouseover.js

@@ -4,7 +4,6 @@ export function renderMouseover({ ctx, model, }) {
     mouseCol2, minimapHeight, totalTrackAreaHeight, } = model;
     ctx.resetTransform();
     ctx.clearRect(0, 0, width, height);
-    console.log({ mouseCol });
     if (mouseCol !== undefined) {
         ctx.fillStyle = 'rgba(0,0,0,0.15)';
         const x = (mouseCol - 1) * colWidth + scrollX + treeAreaWidth + resizeHandleWidth;

package/dist/components/MSAPanel/renderMSAMouseover.js.map

@@ -1 +1 @@
-{"version":3,"file":"renderMSAMouseover.js","sourceRoot":"","sources":["../../../src/components/MSAPanel/renderMSAMouseover.ts"],"names":[],"mappings":"AAEA,MAAM,UAAU,eAAe,CAAC,EAC9B,GAAG,EACH,KAAK,GAIN;IACC,MAAM,EACJ,QAAQ,EACR,QAAQ,EACR,aAAa,EACb,iBAAiB,EACjB,KAAK,EACL,MAAM,EACN,SAAS,EACT,OAAO,EACP,OAAO,EACP,QAAQ;IACR,mBAAmB;IACnB,SAAS,EACT,aAAa,EACb,oBAAoB,GACrB,GAAG,KAAK,CAAA;IACT,GAAG,CAAC,cAAc,EAAE,CAAA;IACpB,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,CAAA;IAClC,OAAO,CAAC,GAAG,CAAC,EAAE,QAAQ,EAAE,CAAC,CAAA;IAEzB,IAAI,QAAQ,KAAK,SAAS,EAAE,CAAC;QAC3B,GAAG,CAAC,SAAS,GAAG,kBAAkB,CAAA;QAClC,MAAM,CAAC,GACL,CAAC,QAAQ,GAAG,CAAC,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,aAAa,GAAG,iBAAiB,CAAA;QAEzE,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,aAAa,EAAE,QAAQ,EAAE,MAAM,CAAC,CAAA;IAClD,CAAC;IAED,IAAI,QAAQ,KAAK,SAAS,EAAE,CAAC;QAC3B,GAAG,CAAC,SAAS,GAAG,kBAAkB,CAAA;QAClC,MAAM,CAAC,GACL,QAAQ,GAAG,SAAS,GAAG,OAAO,GAAG,aAAa,GAAG,oBAAoB,CAAA;QACvE,GAAG,CAAC,QAAQ,CAAC,aAAa,GAAG,iBAAiB,EAAE,CAAC,EAAE,KAAK,EAAE,SAAS,CAAC,CAAA;IACtE,CAAC;IACD,IAAI,SAAS,KAAK,SAAS,EAAE,CAAC;QAC5B,GAAG,CAAC,SAAS,GAAG,qBAAqB,CAAA;QACrC,MAAM,CAAC,GACL,CAAC,SAAS,GAAG,CAAC,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,aAAa,GAAG,iBAAiB,CAAA;QAE1E,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,QAAQ,EAAE,MAAM,CAAC,CAAA;IACtC,CAAC;AACH,CAAC"}
+{"version":3,"file":"renderMSAMouseover.js","sourceRoot":"","sources":["../../../src/components/MSAPanel/renderMSAMouseover.ts"],"names":[],"mappings":"AAEA,MAAM,UAAU,eAAe,CAAC,EAC9B,GAAG,EACH,KAAK,GAIN;IACC,MAAM,EACJ,QAAQ,EACR,QAAQ,EACR,aAAa,EACb,iBAAiB,EACjB,KAAK,EACL,MAAM,EACN,SAAS,EACT,OAAO,EACP,OAAO,EACP,QAAQ;IACR,mBAAmB;IACnB,SAAS,EACT,aAAa,EACb,oBAAoB,GACrB,GAAG,KAAK,CAAA;IACT,GAAG,CAAC,cAAc,EAAE,CAAA;IACpB,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,CAAA;IAElC,IAAI,QAAQ,KAAK,SAAS,EAAE,CAAC;QAC3B,GAAG,CAAC,SAAS,GAAG,kBAAkB,CAAA;QAClC,MAAM,CAAC,GACL,CAAC,QAAQ,GAAG,CAAC,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,aAAa,GAAG,iBAAiB,CAAA;QAEzE,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,aAAa,EAAE,QAAQ,EAAE,MAAM,CAAC,CAAA;IAClD,CAAC;IAED,IAAI,QAAQ,KAAK,SAAS,EAAE,CAAC;QAC3B,GAAG,CAAC,SAAS,GAAG,kBAAkB,CAAA;QAClC,MAAM,CAAC,GACL,QAAQ,GAAG,SAAS,GAAG,OAAO,GAAG,aAAa,GAAG,oBAAoB,CAAA;QACvE,GAAG,CAAC,QAAQ,CAAC,aAAa,GAAG,iBAAiB,EAAE,CAAC,EAAE,KAAK,EAAE,SAAS,CAAC,CAAA;IACtE,CAAC;IACD,IAAI,SAAS,KAAK,SAAS,EAAE,CAAC;QAC5B,GAAG,CAAC,SAAS,GAAG,qBAAqB,CAAA;QACrC,MAAM,CAAC,GACL,CAAC,SAAS,GAAG,CAAC,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,aAAa,GAAG,iBAAiB,CAAA;QAE1E,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,QAAQ,EAAE,MAAM,CAAC,CAAA;IACtC,CAAC;AACH,CAAC"}

package/dist/components/MinimapSVG.d.ts

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

package/dist/components/MinimapSVG.js

@@ -0,0 +1,25 @@
+import React from 'react';
+import { observer } from 'mobx-react';
+const MinimapSVG = observer(function ({ model }) {
+    const { scrollX, msaAreaWidth: W, minimapHeight: H, colWidth, numColumns, } = model;
+    const BAR_HEIGHT = 12;
+    const H2 = H - 12;
+    const unit = W / numColumns / colWidth;
+    const left = -scrollX;
+    const right = left + W;
+    const s = left * unit;
+    const e = right * unit;
+    const fill = 'rgba(66, 119, 127, 0.3)';
+    return (React.createElement(React.Fragment, null,
+        React.createElement("rect", { x: 0, y: 0, width: W, height: BAR_HEIGHT, stroke: "#555", fill: "none" }),
+        React.createElement("rect", { x: Math.max(0, s), y: 0, width: e - s, height: BAR_HEIGHT, fill: fill, stroke: "#555" }),
+        React.createElement("g", { transform: `translate(0 ${BAR_HEIGHT})` },
+            React.createElement("polygon", { fill: fill, points: [
+                    [e, 0],
+                    [s, 0],
+                    [0, H2],
+                    [W, H2],
+                ].toString() }))));
+});
+export default MinimapSVG;
+//# sourceMappingURL=MinimapSVG.js.map

package/dist/components/MinimapSVG.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"MinimapSVG.js","sourceRoot":"","sources":["../../src/components/MinimapSVG.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAGrC,MAAM,UAAU,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAA2B;IACtE,MAAM,EACJ,OAAO,EACP,YAAY,EAAE,CAAC,EACf,aAAa,EAAE,CAAC,EAChB,QAAQ,EACR,UAAU,GACX,GAAG,KAAK,CAAA;IAET,MAAM,UAAU,GAAG,EAAE,CAAA;IACrB,MAAM,EAAE,GAAG,CAAC,GAAG,EAAE,CAAA;IAEjB,MAAM,IAAI,GAAG,CAAC,GAAG,UAAU,GAAG,QAAQ,CAAA;IACtC,MAAM,IAAI,GAAG,CAAC,OAAO,CAAA;IACrB,MAAM,KAAK,GAAG,IAAI,GAAG,CAAC,CAAA;IACtB,MAAM,CAAC,GAAG,IAAI,GAAG,IAAI,CAAA;IACrB,MAAM,CAAC,GAAG,KAAK,GAAG,IAAI,CAAA;IACtB,MAAM,IAAI,GAAG,yBAAyB,CAAA;IAEtC,OAAO,CACL;QACE,8BACE,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,CAAC,EACR,MAAM,EAAE,UAAU,EAClB,MAAM,EAAC,MAAM,EACb,IAAI,EAAC,MAAM,GACX;QACF,8BACE,CAAC,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,EACjB,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,CAAC,GAAG,CAAC,EACZ,MAAM,EAAE,UAAU,EAClB,IAAI,EAAE,IAAI,EACV,MAAM,EAAC,MAAM,GACb;QACF,2BAAG,SAAS,EAAE,eAAe,UAAU,GAAG;YACxC,iCACE,IAAI,EAAE,IAAI,EACV,MAAM,EAAE;oBACN,CAAC,CAAC,EAAE,CAAC,CAAC;oBACN,CAAC,CAAC,EAAE,CAAC,CAAC;oBACN,CAAC,CAAC,EAAE,EAAE,CAAC;oBACP,CAAC,CAAC,EAAE,EAAE,CAAC;iBACR,CAAC,QAAQ,EAAE,GACZ,CACA,CACH,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,UAAU,CAAA"}

package/dist/components/TreePanel/TreeCanvasBlock.js

@@ -97,7 +97,6 @@ const TreeCanvasBlock = observer(function ({ model, offsetY, }) {
                     return;
                 }
                 const ret = hoverNameClickMap(event) || hoverBranchClickMap(event);
-                console.log({ ret });
                 ref.current.style.cursor = ret ? 'pointer' : 'default';
                 setHoverElt(hoverNameClickMap(event));
             }, onClick: event => {

package/dist/components/TreePanel/TreeCanvasBlock.js.map

@@ -1 +1 @@
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package/dist/components/TreePanel/renderTreeCanvas.d.ts

@@ -1,6 +1,6 @@
 import RBush from 'rbush';
-import { MsaViewModel } from '../../model';
 import { Theme } from '@mui/material';
+import { MsaViewModel } from '../../model';
 export declare const padding = 600;
 interface ClickEntry {
     name: string;
@@ -11,31 +11,36 @@ interface ClickEntry {
     minY: number;
     maxY: number;
 }
-export declare function renderTree({ offsetY, ctx, model, theme, }: {
+export declare function renderTree({ offsetY, ctx, model, theme, blockSizeYOverride, }: {
     offsetY: number;
     ctx: CanvasRenderingContext2D;
     model: MsaViewModel;
     theme: Theme;
+    blockSizeYOverride?: number;
 }): void;
-export declare function renderNodeBubbles({ ctx, clickMap, offsetY, model, }: {
+export declare function renderNodeBubbles({ ctx, clickMap, offsetY, model, blockSizeYOverride, }: {
     ctx: CanvasRenderingContext2D;
-    clickMap: RBush<ClickEntry>;
+    clickMap?: RBush<ClickEntry>;
     offsetY: number;
     model: MsaViewModel;
     theme: Theme;
+    blockSizeYOverride?: number;
 }): void;
-export declare function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }: {
+export declare function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, blockSizeYOverride, }: {
     model: MsaViewModel;
     offsetY: number;
     ctx: CanvasRenderingContext2D;
-    clickMap: RBush<ClickEntry>;
+    clickMap?: RBush<ClickEntry>;
     theme: Theme;
+    blockSizeYOverride?: number;
 }): void;
-export declare function renderTreeCanvas({ model, clickMap, ctx, offsetY, theme, }: {
+export declare function renderTreeCanvas({ model, clickMap, ctx, offsetY, theme, highResScaleFactorOverride, blockSizeYOverride, }: {
     model: MsaViewModel;
     offsetY: number;
     ctx: CanvasRenderingContext2D;
-    clickMap: RBush<ClickEntry>;
+    clickMap?: RBush<ClickEntry>;
     theme: Theme;
+    highResScaleFactorOverride?: number;
+    blockSizeYOverride?: number;
 }): void;
 export {};

package/dist/components/TreePanel/renderTreeCanvas.js

@@ -2,8 +2,9 @@ export const padding = 600;
 const extendBounds = 5;
 const radius = 2.5;
 const d = radius * 2;
-export function renderTree({ offsetY, ctx, model, theme, }) {
+export function renderTree({ offsetY, ctx, model, theme, blockSizeYOverride, }) {
     const { hierarchy, showBranchLen, blockSize } = model;
+    const by = blockSizeYOverride || blockSize;
     ctx.strokeStyle = theme.palette.text.primary;
     for (const { source, target } of hierarchy.links()) {
         const y = showBranchLen ? 'len' : 'y';
@@ -16,7 +17,7 @@ export function renderTree({ offsetY, ctx, model, theme, }) {
         // 1d line intersection to check if line crosses block at all, this is
         // an optimization that allows us to skip drawing most tree links
         // outside the block
-        if (offsetY + blockSize >= y1 && y2 >= offsetY) {
+        if (offsetY + by >= y1 && y2 >= offsetY) {
             ctx.beginPath();
             ctx.moveTo(sx, sy);
             ctx.lineTo(sx, ty);
@@ -25,8 +26,9 @@ export function renderTree({ offsetY, ctx, model, theme, }) {
         }
     }
 }
-export function renderNodeBubbles({ ctx, clickMap, offsetY, model, }) {
+export function renderNodeBubbles({ ctx, clickMap, offsetY, model, blockSizeYOverride, }) {
     const { hierarchy, showBranchLen, collapsed, blockSize } = model;
+    const by = blockSizeYOverride || blockSize;
     for (const node of hierarchy.descendants()) {
         const val = showBranchLen ? 'len' : 'y';
         const { 
@@ -37,14 +39,14 @@ export function renderNodeBubbles({ ctx, clickMap, offsetY, model, }) {
         const { branchset, id = '', name = '' } = data;
         if (branchset.length &&
             y > offsetY - extendBounds &&
-            y < offsetY + blockSize + extendBounds) {
+            y < offsetY + by + extendBounds) {
             ctx.strokeStyle = 'black';
             ctx.fillStyle = collapsed.includes(id) ? 'black' : 'white';
             ctx.beginPath();
             ctx.arc(x, y, radius, 0, 2 * Math.PI);
             ctx.fill();
             ctx.stroke();
-            clickMap.insert({
+            clickMap === null || clickMap === void 0 ? void 0 : clickMap.insert({
                 minX: x - radius,
                 maxX: x - radius + d,
                 minY: y - radius,
@@ -56,9 +58,10 @@ export function renderNodeBubbles({ ctx, clickMap, offsetY, model, }) {
         }
     }
 }
-export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }) {
+export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, blockSizeYOverride, }) {
     var _a;
     const { rowHeight, showBranchLen, treeMetadata, hierarchy, blockSize, labelsAlignRight, drawTree, structures, treeAreaWidth, margin, noTree, } = model;
+    const by = blockSizeYOverride || blockSize;
     if (labelsAlignRight) {
         ctx.textAlign = 'right';
         ctx.setLineDash([1, 3]);
@@ -75,7 +78,7 @@ export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }) {
         // @ts-expect-error
         len, } = node;
         const displayName = ((_a = treeMetadata[name]) === null || _a === void 0 ? void 0 : _a.genome) || name;
-        if (y > offsetY - extendBounds && y < offsetY + blockSize + extendBounds) {
+        if (y > offsetY - extendBounds && y < offsetY + by + extendBounds) {
             // note: +rowHeight/4 matches with -rowHeight/4 in msa
             const yp = y + rowHeight / 4;
             const xp = showBranchLen ? len : x;
@@ -85,7 +88,7 @@ export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }) {
             ctx.fillStyle = hasStructure ? 'blue' : theme.palette.text.primary;
             if (!drawTree && !labelsAlignRight) {
                 ctx.fillText(displayName, 0, yp);
-                clickMap.insert({
+                clickMap === null || clickMap === void 0 ? void 0 : clickMap.insert({
                     minX: 0,
                     maxX: width,
                     minY: yp - height,
@@ -104,7 +107,7 @@ export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }) {
                     ctx.stroke();
                 }
                 ctx.fillText(displayName, offset, yp);
-                clickMap.insert({
+                clickMap === null || clickMap === void 0 ? void 0 : clickMap.insert({
                     minX: treeAreaWidth - margin.left - width,
                     maxX: treeAreaWidth - margin.left,
                     minY: yp - height,
@@ -115,7 +118,7 @@ export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }) {
             }
             else {
                 ctx.fillText(displayName, xp + d, yp);
-                clickMap.insert({
+                clickMap === null || clickMap === void 0 ? void 0 : clickMap.insert({
                     minX: xp + d,
                     maxX: xp + d + width,
                     minY: yp - height,
@@ -128,27 +131,50 @@ export function renderTreeLabels({ theme, model, offsetY, ctx, clickMap, }) {
     }
     ctx.setLineDash([]);
 }
-export function renderTreeCanvas({ model, clickMap, ctx, offsetY, theme, }) {
-    clickMap.clear();
+export function renderTreeCanvas({ model, clickMap, ctx, offsetY, theme, highResScaleFactorOverride, blockSizeYOverride, }) {
+    clickMap === null || clickMap === void 0 ? void 0 : clickMap.clear();
     const { noTree, drawTree, drawNodeBubbles, treeWidth, highResScaleFactor, margin, blockSize, fontSize, rowHeight, 
     // nref has to be kept as a unused var or at least reference to force
     // redraw after canvas ref change
     // eslint-disable-next-line @typescript-eslint/no-unused-vars
     nref, } = model;
+    const by = blockSizeYOverride || blockSize;
     ctx.resetTransform();
-    ctx.scale(highResScaleFactor, highResScaleFactor);
-    ctx.clearRect(0, 0, treeWidth + padding, blockSize);
+    const k = highResScaleFactorOverride || highResScaleFactor;
+    ctx.scale(k, k);
+    ctx.clearRect(0, 0, treeWidth + padding, by);
     ctx.translate(margin.left, -offsetY);
+    // console.log(ctx.font)
     const font = ctx.font;
     ctx.font = font.replace(/\d+px/, `${fontSize}px`);
     if (!noTree && drawTree) {
-        renderTree({ ctx, offsetY, model, theme });
+        renderTree({
+            ctx,
+            offsetY,
+            model,
+            theme,
+            blockSizeYOverride,
+        });
         if (drawNodeBubbles) {
-            renderNodeBubbles({ ctx, offsetY, clickMap, model, theme });
+            renderNodeBubbles({
+                ctx,
+                offsetY,
+                clickMap,
+                model,
+                theme,
+                blockSizeYOverride,
+            });
         }
     }
     if (rowHeight >= 5) {
-        renderTreeLabels({ ctx, offsetY, model, clickMap, theme });
+        renderTreeLabels({
+            ctx,
+            offsetY,
+            model,
+            clickMap,
+            theme,
+            blockSizeYOverride,
+        });
     }
 }
 //# sourceMappingURL=renderTreeCanvas.js.map

package/dist/components/TreePanel/renderTreeCanvas.js.map

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

@@ -1,4 +1,4 @@
-import React from 'react';
+import React, { Suspense, lazy, useState } from 'react';
 import { IconButton } from '@mui/material';
 import { observer } from 'mobx-react';
 import CascadingMenuButton from '@jbrowse/core/ui/CascadingMenuButton';
@@ -6,8 +6,11 @@ import CascadingMenuButton from '@jbrowse/core/ui/CascadingMenuButton';
 import MoreVert from '@mui/icons-material/MoreVert';
 import ZoomIn from '@mui/icons-material/ZoomIn';
 import ZoomOut from '@mui/icons-material/ZoomOut';
+// lazies
+const ExportSVGDialog = lazy(() => import('./ExportSVGDialog'));
 const ZoomControls = observer(function ZoomControls({ model, }) {
     const { colWidth, rowHeight } = model;
+    const [exportSvgDialogOpen, setExportSvgDialogOpen] = useState(false);
     return (React.createElement(React.Fragment, null,
         React.createElement(IconButton, { onClick: () => {
                 model.setColWidth(Math.ceil(colWidth * 1.5));
@@ -22,27 +25,19 @@ const ZoomControls = observer(function ZoomControls({ model, }) {
         React.createElement(CascadingMenuButton, { menuItems: [
                 {
                     label: 'Decrease row height',
-                    onClick: () => {
-                        model.setRowHeight(Math.max(1.5, rowHeight * 0.75));
-                    },
+                    onClick: () => model.setRowHeight(Math.max(1.5, rowHeight * 0.75)),
                 },
                 {
                     label: 'Increase row height',
-                    onClick: () => {
-                        model.setRowHeight(rowHeight * 1.5);
-                    },
+                    onClick: () => model.setRowHeight(rowHeight * 1.5),
                 },
                 {
                     label: 'Decrease col width',
-                    onClick: () => {
-                        model.setColWidth(Math.max(1, colWidth * 0.75));
-                    },
+                    onClick: () => model.setColWidth(Math.max(1, colWidth * 0.75)),
                 },
                 {
                     label: 'Increase col width',
-                    onClick: () => {
-                        model.setColWidth(colWidth * 1.5);
-                    },
+                    onClick: () => model.setColWidth(colWidth * 1.5),
                 },
                 {
                     label: 'Reset zoom to default',
@@ -51,8 +46,14 @@ const ZoomControls = observer(function ZoomControls({ model, }) {
                         model.setRowHeight(20);
                     },
                 },
+                {
+                    label: 'Export SVG',
+                    onClick: () => setExportSvgDialogOpen(true),
+                },
             ] },
-            React.createElement(MoreVert, null))));
+            React.createElement(MoreVert, null)),
+        exportSvgDialogOpen ? (React.createElement(Suspense, { fallback: null },
+            React.createElement(ExportSVGDialog, { model: model, onClose: () => setExportSvgDialogOpen(false) }))) : null));
 });
 export default ZoomControls;
 //# sourceMappingURL=ZoomControls.js.map

package/dist/components/ZoomControls.js.map

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