@jbrowse/plugin-linear-comparative-view 2.6.1

package/esm/LinearSyntenyDisplay/components/LinearSyntenyRendering.js

@@ -0,0 +1,132 @@
+import React, { useState, useCallback } from 'react';
+import { observer } from 'mobx-react';
+import { assembleLocString, getContainingView, getSession, isSessionModelWithWidgets, } from '@jbrowse/core/util';
+// locals
+import SyntenyTooltip from './SyntenyTooltip';
+import { getId, MAX_COLOR_RANGE } from '../drawSynteny';
+export default observer(function LinearSyntenyRendering({ model, }) {
+    const highResolutionScaling = 1;
+    const view = getContainingView(model);
+    const height = view.middleComparativeHeight;
+    const width = view.width;
+    const [tooltip, setTooltip] = useState('');
+    const [currX, setCurrX] = useState();
+    const [currY, setCurrY] = useState();
+    // these useCallbacks avoid new refs from being created on any mouseover, etc.
+    const k1 = useCallback((ref) => model.setMouseoverCanvasRef(ref), 
+    // eslint-disable-next-line react-hooks/exhaustive-deps
+    [model, height, width]);
+    const k2 = useCallback((ref) => model.setMainCanvasRef(ref), 
+    // eslint-disable-next-line react-hooks/exhaustive-deps
+    [model, height, width]);
+    const k3 = useCallback((ref) => model.setClickMapCanvasRef(ref), 
+    // eslint-disable-next-line react-hooks/exhaustive-deps
+    [model, height, width]);
+    const k4 = useCallback((ref) => model.setCigarClickMapCanvasRef(ref), 
+    // eslint-disable-next-line react-hooks/exhaustive-deps
+    [model, height, width]);
+    return (React.createElement("div", { style: { position: 'relative' } },
+        React.createElement("canvas", { ref: k1, width: width, height: height, style: { width, height, position: 'absolute', pointerEvents: 'none' } }),
+        React.createElement("canvas", { ref: k2, onMouseMove: event => {
+                var _a;
+                const ref1 = model.clickMapCanvas;
+                const ref2 = model.cigarClickMapCanvas;
+                if (!ref1 || !ref2) {
+                    return;
+                }
+                const rect = ref1.getBoundingClientRect();
+                const ctx1 = ref1.getContext('2d');
+                const ctx2 = ref2.getContext('2d');
+                if (!ctx1 || !ctx2) {
+                    return;
+                }
+                const { clientX, clientY } = event;
+                const x = clientX - rect.left;
+                const y = clientY - rect.top;
+                setCurrX(clientX);
+                setCurrY(clientY);
+                const [r1, g1, b1] = ctx1.getImageData(x, y, 1, 1).data;
+                const [r2, g2, b2] = ctx2.getImageData(x, y, 1, 1).data;
+                const unitMultiplier = Math.floor(MAX_COLOR_RANGE / model.numFeats);
+                const id = getId(r1, g1, b1, unitMultiplier);
+                model.setMouseoverId((_a = model.featPositions[id]) === null || _a === void 0 ? void 0 : _a.f.id());
+                if (id === -1) {
+                    setTooltip('');
+                }
+                else if (model.featPositions[id]) {
+                    const { f, cigar } = model.featPositions[id];
+                    // @ts-expect-error
+                    const f1 = f.toJSON();
+                    const f2 = f1.mate;
+                    const unitMultiplier2 = Math.floor(MAX_COLOR_RANGE / cigar.length);
+                    const cigarIdx = getId(r2, g2, b2, unitMultiplier2);
+                    const l1 = f1.end - f1.start;
+                    const l2 = f2.end - f2.start;
+                    const identity = f1.identity;
+                    const n1 = f1.name;
+                    const n2 = f2.name;
+                    const tooltip = [
+                        `Loc1: ${assembleLocString(f1)}`,
+                        `Loc2: ${assembleLocString(f2)}`,
+                        `Inverted: ${f1.strand === -1}`,
+                        `Query len: ${l1}`,
+                        `Target len: ${l2}`,
+                    ];
+                    if (identity) {
+                        tooltip.push(`Identity: ${identity}`);
+                    }
+                    if (cigar[cigarIdx]) {
+                        tooltip.push(`CIGAR operator: ${cigar[cigarIdx]}${cigar[cigarIdx + 1]}`);
+                    }
+                    if (n1 && n2) {
+                        tooltip.push(`Name 1: ${n1}`, `Name 2: ${n2}`);
+                    }
+                    setTooltip(tooltip.join('<br/>'));
+                }
+            }, onMouseLeave: () => model.setMouseoverId(undefined), onClick: event => {
+                const ref1 = model.clickMapCanvas;
+                const ref2 = model.cigarClickMapCanvas;
+                if (!ref1 || !ref2) {
+                    return;
+                }
+                const rect = ref1.getBoundingClientRect();
+                const ctx1 = ref1.getContext('2d');
+                const ctx2 = ref2.getContext('2d');
+                if (!ctx1 || !ctx2) {
+                    return;
+                }
+                const x = event.clientX - rect.left;
+                const y = event.clientY - rect.top;
+                const [r1, g1, b1] = ctx1.getImageData(x, y, 1, 1).data;
+                const unitMultiplier = Math.floor(MAX_COLOR_RANGE / model.numFeats);
+                const id = getId(r1, g1, b1, unitMultiplier);
+                const f = model.featPositions[id];
+                if (!f) {
+                    return;
+                }
+                model.setClickId(f.f.id());
+                const session = getSession(model);
+                if (isSessionModelWithWidgets(session)) {
+                    session.showWidget(session.addWidget('SyntenyFeatureWidget', 'syntenyFeature', {
+                        featureData: {
+                            feature1: f.f.toJSON(),
+                            feature2: f.f.get('mate'),
+                        },
+                    }));
+                }
+            }, "data-testid": "synteny_canvas", style: { width, height, position: 'absolute' }, width: width * highResolutionScaling, height: height * highResolutionScaling }),
+        React.createElement("canvas", { ref: k3, style: {
+                imageRendering: 'pixelated',
+                pointerEvents: 'none',
+                visibility: 'hidden',
+                position: 'absolute',
+            }, width: width, height: height }),
+        React.createElement("canvas", { ref: k4, style: {
+                imageRendering: 'pixelated',
+                pointerEvents: 'none',
+                visibility: 'hidden',
+                position: 'absolute',
+            }, width: width, height: height }),
+        model.mouseoverId && tooltip && currX && currY ? (React.createElement(SyntenyTooltip, { x: currX, y: currY, title: tooltip })) : null));
+});
+//# sourceMappingURL=LinearSyntenyRendering.js.map

package/esm/LinearSyntenyDisplay/components/LinearSyntenyRendering.js.map

@@ -0,0 +1 @@
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package/esm/LinearSyntenyDisplay/components/SyntenyTooltip.d.ts

@@ -0,0 +1,7 @@
+import React from 'react';
+declare const SyntenyTooltip: ({ x, y, title, }: {
+    x: number;
+    y: number;
+    title: string;
+}) => React.JSX.Element | null;
+export default SyntenyTooltip;

package/esm/LinearSyntenyDisplay/components/SyntenyTooltip.js

@@ -0,0 +1,58 @@
+import React, { useMemo, useState } from 'react';
+import { observer } from 'mobx-react';
+import { Portal, alpha } from '@mui/material';
+import { makeStyles } from 'tss-react/mui';
+import { usePopper } from 'react-popper';
+import { SanitizedHTML } from '@jbrowse/core/ui';
+function round(value) {
+    return Math.round(value * 1e5) / 1e5;
+}
+const useStyles = makeStyles()(theme => ({
+    // these styles come from
+    // https://github.com/mui-org/material-ui/blob/master/packages/material-ui/src/Tooltip/Tooltip.js
+    tooltip: {
+        position: 'absolute',
+        pointerEvents: 'none',
+        backgroundColor: alpha(theme.palette.grey[700], 0.9),
+        borderRadius: theme.shape.borderRadius,
+        color: theme.palette.common.white,
+        fontFamily: theme.typography.fontFamily,
+        padding: '4px 8px',
+        fontSize: theme.typography.pxToRem(12),
+        lineHeight: `${round(14 / 10)}em`,
+        maxWidth: 300,
+        wordWrap: 'break-word',
+    },
+}));
+const SyntenyTooltip = observer(function ({ x, y, title, }) {
+    const [width, setWidth] = useState(0);
+    const [anchorEl, setAnchorEl] = useState(null);
+    const { classes } = useStyles();
+    // must be memoized a la https://github.com/popperjs/react-popper/issues/391
+    const virtElement = useMemo(() => ({
+        getBoundingClientRect: () => {
+            return {
+                top: y,
+                left: x + width / 2,
+                bottom: y,
+                right: x,
+                width: 0,
+                height: 0,
+                x,
+                y,
+                toJSON() { },
+            };
+        },
+    }), [x, y, width]);
+    const { styles, attributes } = usePopper(virtElement, anchorEl);
+    return title ? (React.createElement(Portal, null,
+        React.createElement("div", { ref: ref => {
+                setWidth((ref === null || ref === void 0 ? void 0 : ref.getBoundingClientRect().width) || 0);
+                setAnchorEl(ref);
+            }, className: classes.tooltip, 
+            // zIndex needed to go over widget drawer
+            style: { ...styles.popper, zIndex: 100000 }, ...attributes.popper },
+            React.createElement(SanitizedHTML, { html: title })))) : null;
+});
+export default SyntenyTooltip;
+//# sourceMappingURL=SyntenyTooltip.js.map

package/esm/LinearSyntenyDisplay/components/SyntenyTooltip.js.map

@@ -0,0 +1 @@
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package/esm/LinearSyntenyDisplay/components/util.d.ts

@@ -0,0 +1,27 @@
+import { Feature } from '@jbrowse/core/util';
+interface Pos {
+    offsetPx: number;
+}
+interface FeatPos {
+    p11: Pos;
+    p12: Pos;
+    p21: Pos;
+    p22: Pos;
+    f: Feature;
+    cigar: string[];
+}
+export declare function drawMatchSimple({ feature, ctx, offsets, cb, height, drawCurves, oobLimit, viewWidth, hideTiny, }: {
+    feature: FeatPos;
+    ctx: CanvasRenderingContext2D;
+    offsets: number[];
+    oobLimit: number;
+    viewWidth: number;
+    cb: (ctx: CanvasRenderingContext2D) => void;
+    height: number;
+    drawCurves?: boolean;
+    hideTiny?: boolean;
+}): void;
+export declare function draw(ctx: CanvasRenderingContext2D, x1: number, x2: number, y1: number, x3: number, x4: number, y2: number, mid: number, drawCurves?: boolean): void;
+export declare function drawBox(ctx: CanvasRenderingContext2D, x1: number, x2: number, y1: number, x3: number, x4: number, y2: number): void;
+export declare function drawBezierBox(ctx: CanvasRenderingContext2D, x1: number, x2: number, y1: number, x3: number, x4: number, y2: number, mid: number): void;
+export {};

package/esm/LinearSyntenyDisplay/components/util.js

@@ -0,0 +1,77 @@
+import { doesIntersect2 } from '@jbrowse/core/util';
+export function drawMatchSimple({ feature, ctx, offsets, cb, height, drawCurves, oobLimit, viewWidth, hideTiny, }) {
+    const { p11, p12, p21, p22 } = feature;
+    const x11 = p11.offsetPx - offsets[0];
+    const x12 = p12.offsetPx - offsets[0];
+    const x21 = p21.offsetPx - offsets[1];
+    const x22 = p22.offsetPx - offsets[1];
+    const l1 = Math.abs(x12 - x11);
+    const l2 = Math.abs(x22 - x21);
+    const y1 = 0;
+    const y2 = height;
+    const mid = (y2 - y1) / 2;
+    const minX = Math.min(x21, x22);
+    const maxX = Math.max(x21, x22);
+    if (!doesIntersect2(minX, maxX, -oobLimit, viewWidth + oobLimit)) {
+        return;
+    }
+    // drawing a line if the results are thin: drawing a line results in much
+    // less pixellation than filling in a thin polygon
+    if (l1 <= 1 && l2 <= 1) {
+        // hideTiny can be used to avoid drawing mouseover for thin lines in this
+        // case
+        if (!hideTiny) {
+            ctx.beginPath();
+            ctx.moveTo(x11, y1);
+            if (drawCurves) {
+                ctx.bezierCurveTo(x11, mid, x21, mid, x21, y2);
+            }
+            else {
+                ctx.lineTo(x21, y2);
+            }
+            ctx.stroke();
+        }
+    }
+    else {
+        draw(ctx, x11, x12, y1, x22, x21, y2, mid, drawCurves);
+        cb(ctx);
+    }
+}
+export function draw(ctx, x1, x2, y1, x3, x4, y2, mid, drawCurves) {
+    if (drawCurves) {
+        drawBezierBox(ctx, x1, x2, y1, x3, x4, y2, mid);
+    }
+    else {
+        drawBox(ctx, x1, x2, y1, x3, x4, y2);
+    }
+}
+export function drawBox(ctx, x1, x2, y1, x3, x4, y2) {
+    ctx.beginPath();
+    ctx.moveTo(x1, y1);
+    ctx.lineTo(x2, y1);
+    ctx.lineTo(x3, y2);
+    ctx.lineTo(x4, y2);
+    ctx.closePath();
+    ctx.fill();
+}
+export function drawBezierBox(ctx, x1, x2, y1, x3, x4, y2, mid) {
+    const len1 = Math.abs(x1 - x2);
+    const len2 = Math.abs(x1 - x2);
+    // heuristic to not draw hourglass inversions with bezier curves when they
+    // are thin and far apart because it results in areas that are not drawn well
+    // demo https://codesandbox.io/s/fast-glitter-q3b1or?file=/src/index.js
+    if (len1 < 5 && len2 < 5 && x2 < x1 && Math.abs(x1 - x3) > 100) {
+        const tmp = x1;
+        x1 = x2;
+        x2 = tmp;
+    }
+    ctx.beginPath();
+    ctx.moveTo(x1, y1);
+    ctx.lineTo(x2, y1);
+    ctx.bezierCurveTo(x2, mid, x3, mid, x3, y2);
+    ctx.lineTo(x4, y2);
+    ctx.bezierCurveTo(x4, mid, x1, mid, x1, y1);
+    ctx.closePath();
+    ctx.fill();
+}
+//# sourceMappingURL=util.js.map

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package/esm/LinearSyntenyDisplay/configSchemaF.d.ts

@@ -0,0 +1,23 @@
+import PluginManager from '@jbrowse/core/PluginManager';
+/**
+ * #config LinearSyntenyDisplay
+ */
+declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     * currently unused
+     */
+    trackIds: {
+        type: string;
+        defaultValue: never[];
+    };
+    /**
+     * #slot
+     * currently unused
+     */
+    middle: {
+        type: string;
+        defaultValue: boolean;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>;
+export default configSchemaFactory;

package/esm/LinearSyntenyDisplay/configSchemaF.js

@@ -0,0 +1,31 @@
+import { ConfigurationSchema } from '@jbrowse/core/configuration';
+import baseConfigFactory from '../LinearComparativeDisplay/configSchemaF';
+/**
+ * #config LinearSyntenyDisplay
+ */
+function configSchemaFactory(pluginManager) {
+    return ConfigurationSchema('LinearSyntenyDisplay', {
+        /**
+         * #slot
+         * currently unused
+         */
+        trackIds: {
+            type: 'stringArray',
+            defaultValue: [],
+        },
+        /**
+         * #slot
+         * currently unused
+         */
+        middle: { type: 'boolean', defaultValue: true },
+    }, {
+        /**
+         * #baseConfiguration
+         * this refers to the LinearComparativeDisplay
+         */
+        baseConfiguration: baseConfigFactory(pluginManager),
+        explicitlyTyped: true,
+    });
+}
+export default configSchemaFactory;
+//# sourceMappingURL=configSchemaF.js.map

package/esm/LinearSyntenyDisplay/configSchemaF.js.map

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package/esm/LinearSyntenyDisplay/drawSynteny.d.ts

@@ -0,0 +1,5 @@
+import { LinearSyntenyDisplayModel } from './model';
+export declare const MAX_COLOR_RANGE: number;
+export declare function getId(r: number, g: number, b: number, unitMultiplier: number): number;
+export declare function drawRef(model: LinearSyntenyDisplayModel, ctx1: CanvasRenderingContext2D, ctx3?: CanvasRenderingContext2D): void;
+export declare function drawMouseoverSynteny(model: LinearSyntenyDisplayModel): void;

package/esm/LinearSyntenyDisplay/drawSynteny.js

@@ -0,0 +1,229 @@
+import { doesIntersect2, getContainingView } from '@jbrowse/core/util';
+import { draw, drawMatchSimple } from './components/util';
+export const MAX_COLOR_RANGE = 255 * 255 * 255; // max color range
+function makeColor(idx) {
+    const r = Math.floor(idx / (255 * 255)) % 255;
+    const g = Math.floor(idx / 255) % 255;
+    const b = idx % 255;
+    return `rgb(${r},${g},${b})`;
+}
+const colorMap = {
+    I: '#ff03',
+    N: '#0a03',
+    D: '#00f3',
+    X: 'brown',
+    M: '#f003',
+    '=': '#f003',
+};
+const lineLimit = 3;
+const oobLimit = 1600;
+export function getId(r, g, b, unitMultiplier) {
+    return Math.floor((r * 255 * 255 + g * 255 + b - 1) / unitMultiplier);
+}
+export function drawRef(model, ctx1, ctx3) {
+    var _a;
+    const view = getContainingView(model);
+    const drawCurves = view.drawCurves;
+    const drawCIGAR = view.drawCIGAR;
+    const height = view.middleComparativeHeight;
+    const width = view.width;
+    const bpPerPxs = view.views.map(v => v.bpPerPx);
+    if (ctx3) {
+        ctx3.imageSmoothingEnabled = false;
+    }
+    ctx1.beginPath();
+    const featPos = model.featPositions;
+    const offsets = view.views.map(v => v.offsetPx);
+    const unitMultiplier = Math.floor(MAX_COLOR_RANGE / featPos.length);
+    // this loop is optimized to draw many thin lines with a single ctx.stroke
+    // call, a separate loop below draws larger boxes
+    ctx1.fillStyle = colorMap.M;
+    ctx1.strokeStyle = colorMap.M;
+    for (let i = 0; i < featPos.length; i++) {
+        const { p11, p12, p21, p22 } = featPos[i];
+        const x11 = p11.offsetPx - offsets[0];
+        const x12 = p12.offsetPx - offsets[0];
+        const x21 = p21.offsetPx - offsets[1];
+        const x22 = p22.offsetPx - offsets[1];
+        const l1 = Math.abs(x12 - x11);
+        const l2 = Math.abs(x22 - x21);
+        const y1 = 0;
+        const y2 = height;
+        const mid = (y2 - y1) / 2;
+        // drawing a line if the results are thin results in much less pixellation
+        // than filling in a thin polygon
+        if (l1 <= lineLimit &&
+            l2 <= lineLimit &&
+            x21 < width + oobLimit &&
+            x21 > -oobLimit) {
+            ctx1.moveTo(x11, y1);
+            if (drawCurves) {
+                ctx1.bezierCurveTo(x11, mid, x21, mid, x21, y2);
+            }
+            else {
+                ctx1.lineTo(x21, y2);
+            }
+        }
+    }
+    ctx1.stroke();
+    // this loop only draws small lines as a polyline, the polyline calls
+    // ctx.stroke once is much more efficient than calling stroke() many times
+    ctx1.fillStyle = colorMap.M;
+    ctx1.strokeStyle = colorMap.M;
+    for (let i = 0; i < featPos.length; i++) {
+        const { p11, p12, p21, p22, f, cigar } = featPos[i];
+        const x11 = p11.offsetPx - offsets[0];
+        const x12 = p12.offsetPx - offsets[0];
+        const x21 = p21.offsetPx - offsets[1];
+        const x22 = p22.offsetPx - offsets[1];
+        const l1 = Math.abs(x12 - x11);
+        const l2 = Math.abs(x22 - x21);
+        const minX = Math.min(x21, x22);
+        const maxX = Math.max(x21, x22);
+        const y1 = 0;
+        const y2 = height;
+        const mid = (y2 - y1) / 2;
+        if (!(l1 <= lineLimit && l2 <= lineLimit) &&
+            doesIntersect2(minX, maxX, -oobLimit, view.width + oobLimit)) {
+            const s1 = f.get('strand');
+            const k1 = s1 === -1 ? x12 : x11;
+            const k2 = s1 === -1 ? x11 : x12;
+            // rev1/rev2 flip the direction of the CIGAR drawing in horizontally flipped
+            // modes. somewhat heuristically determined, but tested for
+            const rev1 = k1 < k2 ? 1 : -1;
+            const rev2 = (x21 < x22 ? 1 : -1) * s1;
+            // cx1/cx2 are the current x positions on top and bottom rows
+            let cx1 = k1;
+            let cx2 = s1 === -1 ? x22 : x21;
+            if ((cigar === null || cigar === void 0 ? void 0 : cigar.length) && drawCIGAR) {
+                // continuingFlag skips drawing commands on very small CIGAR features
+                let continuingFlag = false;
+                // px1/px2 are the previous x positions on the top and bottom rows
+                let px1 = 0;
+                let px2 = 0;
+                const unitMultiplier2 = Math.floor(MAX_COLOR_RANGE / cigar.length);
+                for (let j = 0; j < cigar.length; j += 2) {
+                    const idx = j * unitMultiplier2 + 1;
+                    const len = +cigar[j];
+                    const op = cigar[j + 1];
+                    if (!continuingFlag) {
+                        px1 = cx1;
+                        px2 = cx2;
+                    }
+                    const d1 = len / bpPerPxs[0];
+                    const d2 = len / bpPerPxs[1];
+                    if (op === 'M' || op === '=' || op === 'X') {
+                        cx1 += d1 * rev1;
+                        cx2 += d2 * rev2;
+                    }
+                    else if (op === 'D' || op === 'N') {
+                        cx1 += d1 * rev1;
+                    }
+                    else if (op === 'I') {
+                        cx2 += d2 * rev2;
+                    }
+                    // check that we are even drawing in view here, e.g. that all
+                    // points are not all less than 0 or greater than width
+                    if (!(Math.max(px1, px2, cx1, cx2) < 0 ||
+                        Math.min(px1, px2, cx1, cx2) > width)) {
+                        // if it is a small feature and not the last element of the
+                        // CIGAR (which could skip rendering it entire if we did turn
+                        // it on), then turn on continuing flag
+                        const isNotLast = j < cigar.length - 2;
+                        if (Math.abs(cx1 - px1) <= 1 &&
+                            Math.abs(cx2 - px2) <= 1 &&
+                            isNotLast) {
+                            continuingFlag = true;
+                        }
+                        else {
+                            continuingFlag = false;
+                            // allow rendering the dominant color when using continuing
+                            // flag if the last element of continuing was a large
+                            // feature, else just use match
+                            ctx1.fillStyle =
+                                colorMap[(continuingFlag && d1 > 1) || d2 > 1 ? op : 'M'];
+                            draw(ctx1, px1, cx1, y1, cx2, px2, y2, mid, drawCurves);
+                            if (ctx3) {
+                                ctx3.fillStyle = makeColor(idx);
+                                draw(ctx3, px1, cx1, y1, cx2, px2, y2, mid, drawCurves);
+                            }
+                        }
+                    }
+                }
+            }
+            else {
+                draw(ctx1, x11, x12, y1, x22, x21, y2, mid, drawCurves);
+            }
+        }
+    }
+    // draw click map
+    const ctx2 = (_a = model.clickMapCanvas) === null || _a === void 0 ? void 0 : _a.getContext('2d');
+    if (!ctx2) {
+        return;
+    }
+    ctx2.imageSmoothingEnabled = false;
+    ctx2.clearRect(0, 0, width, height);
+    for (let i = 0; i < featPos.length; i++) {
+        const feature = featPos[i];
+        const idx = i * unitMultiplier + 1;
+        ctx2.fillStyle = makeColor(idx);
+        // too many click map false positives with colored stroked lines
+        drawMatchSimple({
+            cb: ctx => ctx.fill(),
+            feature,
+            ctx: ctx2,
+            drawCurves,
+            offsets,
+            oobLimit,
+            viewWidth: view.width,
+            hideTiny: true,
+            height,
+        });
+    }
+}
+export function drawMouseoverSynteny(model) {
+    var _a;
+    const { clickId, mouseoverId } = model;
+    const highResolutionScaling = 1;
+    const view = getContainingView(model);
+    const drawCurves = view.drawCurves;
+    const height = view.middleComparativeHeight;
+    const width = view.width;
+    const ctx = (_a = model.mouseoverCanvas) === null || _a === void 0 ? void 0 : _a.getContext('2d');
+    const offsets = view.views.map(v => v.offsetPx);
+    if (!ctx) {
+        return;
+    }
+    ctx.resetTransform();
+    ctx.scale(highResolutionScaling, highResolutionScaling);
+    ctx.clearRect(0, 0, width, height);
+    const feature1 = model.featMap[mouseoverId || ''];
+    if (feature1) {
+        ctx.fillStyle = 'rgb(0,0,0,0.1)';
+        drawMatchSimple({
+            cb: ctx => ctx.fill(),
+            feature: feature1,
+            ctx,
+            oobLimit,
+            viewWidth: view.width,
+            drawCurves,
+            offsets,
+            height,
+        });
+    }
+    const feature2 = model.featMap[clickId || ''];
+    if (feature2) {
+        ctx.strokeStyle = 'rgb(0, 0, 0, 0.9)';
+        drawMatchSimple({
+            cb: ctx => ctx.stroke(),
+            feature: feature2,
+            ctx,
+            oobLimit,
+            viewWidth: view.width,
+            drawCurves,
+            offsets,
+            height,
+        });
+    }
+}
+//# sourceMappingURL=drawSynteny.js.map

package/esm/LinearSyntenyDisplay/drawSynteny.js.map

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package/esm/LinearSyntenyDisplay/index.d.ts

@@ -0,0 +1,3 @@
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;