@jbrowse/plugin-breakpoint-split-view 2.18.0 → 3.0.1

package/dist/BreakpointAlignmentsFeatureDetail/BreakpointAlignmentsFeatureDetail.d.ts

@@ -1,4 +1,3 @@
-import React from 'react';
 import type { SimpleFeatureSerialized } from '@jbrowse/core/util';
 declare const BreakpointAlignmentsFeatureDetail: ({ model, }: {
     model: {
@@ -7,5 +6,5 @@ declare const BreakpointAlignmentsFeatureDetail: ({ model, }: {
             feature2: SimpleFeatureSerialized;
         };
     };
-}) => React.JSX.Element;
+}) => import("react/jsx-runtime").JSX.Element;
 export default BreakpointAlignmentsFeatureDetail;

package/dist/BreakpointAlignmentsFeatureDetail/BreakpointAlignmentsFeatureDetail.js

@@ -1,19 +1,12 @@
 "use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
 Object.defineProperty(exports, "__esModule", { value: true });
-const react_1 = __importDefault(require("react"));
+const jsx_runtime_1 = require("react/jsx-runtime");
 const BaseFeatureDetail_1 = require("@jbrowse/core/BaseFeatureWidget/BaseFeatureDetail");
 const material_1 = require("@mui/material");
 const mobx_react_1 = require("mobx-react");
 const BreakpointAlignmentsFeatureDetail = (0, mobx_react_1.observer)(function ({ model, }) {
     const { featureData } = model;
     const { feature1, feature2 } = structuredClone(featureData);
-    return (react_1.default.createElement(material_1.Paper, null,
-        react_1.default.createElement(BaseFeatureDetail_1.BaseCoreDetails, { title: "Feature 1", feature: feature1 }),
-        react_1.default.createElement(BaseFeatureDetail_1.BaseCoreDetails, { title: "Feature 2", feature: feature2 }),
-        react_1.default.createElement(BaseFeatureDetail_1.BaseAttributes, { title: "Feature 1 attributes", feature: feature1 }),
-        react_1.default.createElement(BaseFeatureDetail_1.BaseAttributes, { title: "Feature 2 attributes", feature: feature2 })));
+    return ((0, jsx_runtime_1.jsxs)(material_1.Paper, { children: [(0, jsx_runtime_1.jsx)(BaseFeatureDetail_1.BaseCoreDetails, { title: "Feature 1", feature: feature1 }), (0, jsx_runtime_1.jsx)(BaseFeatureDetail_1.BaseCoreDetails, { title: "Feature 2", feature: feature2 }), (0, jsx_runtime_1.jsx)(BaseFeatureDetail_1.BaseAttributes, { title: "Feature 1 attributes", feature: feature1 }), (0, jsx_runtime_1.jsx)(BaseFeatureDetail_1.BaseAttributes, { title: "Feature 2 attributes", feature: feature2 })] }));
 });
 exports.default = BreakpointAlignmentsFeatureDetail;

package/dist/BreakpointAlignmentsFeatureDetail/index.js

@@ -15,13 +15,23 @@ var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (
 }) : function(o, v) {
     o["default"] = v;
 });
-var __importStar = (this && this.__importStar) || function (mod) {
-    if (mod && mod.__esModule) return mod;
-    var result = {};
-    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
-    __setModuleDefault(result, mod);
-    return result;
-};
+var __importStar = (this && this.__importStar) || (function () {
+    var ownKeys = function(o) {
+        ownKeys = Object.getOwnPropertyNames || function (o) {
+            var ar = [];
+            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
+            return ar;
+        };
+        return ownKeys(o);
+    };
+    return function (mod) {
+        if (mod && mod.__esModule) return mod;
+        var result = {};
+        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
+        __setModuleDefault(result, mod);
+        return result;
+    };
+})();
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.default = BreakpointAlignmentsFeatureDetailF;
 const react_1 = require("react");

package/dist/BreakpointSplitView/components/AlignmentConnections.d.ts

@@ -1,9 +1,8 @@
-import React from 'react';
 import type { BreakpointViewModel } from '../model';
 declare const AlignmentConnections: ({ model, trackId, parentRef, getTrackYPosOverride, }: {
     model: BreakpointViewModel;
     trackId: string;
-    parentRef: React.RefObject<SVGSVGElement>;
+    parentRef: React.RefObject<SVGSVGElement | null>;
     getTrackYPosOverride?: (trackId: string, level: number) => number;
-}) => React.JSX.Element | null;
+}) => import("react/jsx-runtime").JSX.Element | null;
 export default AlignmentConnections;

package/dist/BreakpointSplitView/components/AlignmentConnections.js

@@ -1,29 +1,7 @@
 "use strict";
-var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    var desc = Object.getOwnPropertyDescriptor(m, k);
-    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
-      desc = { enumerable: true, get: function() { return m[k]; } };
-    }
-    Object.defineProperty(o, k2, desc);
-}) : (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    o[k2] = m[k];
-}));
-var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || function (mod) {
-    if (mod && mod.__esModule) return mod;
-    var result = {};
-    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
-    __setModuleDefault(result, mod);
-    return result;
-};
 Object.defineProperty(exports, "__esModule", { value: true });
-const react_1 = __importStar(require("react"));
+const jsx_runtime_1 = require("react/jsx-runtime");
+const react_1 = require("react");
 const util_1 = require("@jbrowse/core/util");
 const material_1 = require("@mui/material");
 const mobx_react_1 = require("mobx-react");
@@ -33,7 +11,7 @@ const util_3 = require("../util");
 const getOrientationColor_1 = require("./getOrientationColor");
 const [LEFT, , RIGHT] = [0, 1, 2, 3];
 const AlignmentConnections = (0, mobx_react_1.observer)(function ({ model, trackId, parentRef, getTrackYPosOverride, }) {
-    const { views, showIntraviewLinks } = model;
+    const { interactiveOverlay, views, showIntraviewLinks } = model;
     const theme = (0, material_1.useTheme)();
     const session = (0, util_1.getSession)(model);
     const snap = (0, mobx_state_tree_1.getSnapshot)(model);
@@ -60,96 +38,96 @@ const AlignmentConnections = (0, mobx_react_1.observer)(function ({ model, track
         const rect = parentRef.current.getBoundingClientRect();
         yOffset = rect.top;
     }
-    return assembly ? (react_1.default.createElement("g", { fill: "none", "data-testid": layoutMatches.length ? `${trackId}-loaded` : trackId }, layoutMatches.map(chunk => {
-        const ret = [];
-        for (let i = 0; i < chunk.length - 1; i++) {
-            const { layout: c1, feature: f1, level: level1 } = chunk[i];
-            const { layout: c2, feature: f2, level: level2 } = chunk[i + 1];
-            if (!c1 || !c2) {
-                console.warn('received null layout for a overlay feature');
-                return null;
-            }
-            if (!showIntraviewLinks && level1 === level2) {
-                return null;
-            }
-            const f1ref = assembly.getCanonicalRefName(f1.get('refName'));
-            const f2ref = assembly.getCanonicalRefName(f2.get('refName'));
-            if (!f1ref || !f2ref) {
-                throw new Error(`unable to find ref for ${f1ref || f2ref}`);
-            }
-            const r = {
-                pair_orientation: f1.get('pair_orientation'),
-            };
-            const s1 = f1.get('strand');
-            const s2 = f2.get('strand');
-            const sameRef = f1ref === f2ref;
-            const checkOrientation = sameRef;
-            let orientationColor = '';
-            let isAbnormal = false;
-            if (checkOrientation) {
-                if (hasPaired) {
-                    orientationColor = (0, getOrientationColor_1.getPairedOrientationColor)(r);
-                    isAbnormal = (0, getOrientationColor_1.isAbnormalOrientation)(r);
+    return assembly ? ((0, jsx_runtime_1.jsx)("g", { fill: "none", "data-testid": layoutMatches.length ? `${trackId}-loaded` : trackId, children: layoutMatches.map(chunk => {
+            const ret = [];
+            for (let i = 0; i < chunk.length - 1; i++) {
+                const { layout: c1, feature: f1, level: level1 } = chunk[i];
+                const { layout: c2, feature: f2, level: level2 } = chunk[i + 1];
+                if (!c1 || !c2) {
+                    console.warn('received null layout for a overlay feature');
+                    return null;
+                }
+                if (!showIntraviewLinks && level1 === level2) {
+                    return null;
                 }
-                else {
-                    orientationColor = (0, getOrientationColor_1.getLongReadOrientationColorOrDefault)(s1, s2);
-                    isAbnormal = (0, getOrientationColor_1.getLongReadOrientationAbnormal)(s1, s2);
+                const f1ref = assembly.getCanonicalRefName(f1.get('refName'));
+                const f2ref = assembly.getCanonicalRefName(f2.get('refName'));
+                if (!f1ref || !f2ref) {
+                    throw new Error(`unable to find ref for ${f1ref || f2ref}`);
                 }
+                const r = {
+                    pair_orientation: f1.get('pair_orientation'),
+                };
+                const s1 = f1.get('strand');
+                const s2 = f2.get('strand');
+                const sameRef = f1ref === f2ref;
+                const checkOrientation = sameRef;
+                let orientationColor = '';
+                let isAbnormal = false;
+                if (checkOrientation) {
+                    if (hasPaired) {
+                        orientationColor = (0, getOrientationColor_1.getPairedOrientationColor)(r);
+                        isAbnormal = (0, getOrientationColor_1.isAbnormalOrientation)(r);
+                    }
+                    else {
+                        orientationColor = (0, getOrientationColor_1.getLongReadOrientationColorOrDefault)(s1, s2);
+                        isAbnormal = (0, getOrientationColor_1.getLongReadOrientationAbnormal)(s1, s2);
+                    }
+                }
+                const p1 = c1[s1 === -1 ? LEFT : RIGHT];
+                const sn1 = s2 === -1;
+                const p2 = hasPaired ? c2[sn1 ? LEFT : RIGHT] : c2[sn1 ? RIGHT : LEFT];
+                const x1 = (0, util_3.getPxFromCoordinate)(views[level1], f1ref, p1);
+                const x2 = (0, util_3.getPxFromCoordinate)(views[level2], f2ref, p2);
+                const reversed1 = views[level1].pxToBp(x1).reversed;
+                const reversed2 = views[level2].pxToBp(x2).reversed;
+                const rf1 = reversed1 ? -1 : 1;
+                const rf2 = reversed2 ? -1 : 1;
+                const tracks = views.map(v => v.getTrack(trackId));
+                const y1 = (0, util_3.yPos)(trackId, level1, views, tracks, c1, getTrackYPosOverride) -
+                    yOffset;
+                const y2 = (0, util_3.yPos)(trackId, level2, views, tracks, c2, getTrackYPosOverride) -
+                    yOffset;
+                const sameLevel = level1 === level2;
+                const abnormalSpecialRenderFlag = sameLevel && isAbnormal;
+                const trackHeight = abnormalSpecialRenderFlag
+                    ? tracks[level1].displays[0].height
+                    : 0;
+                const pf1 = hasPaired ? -1 : 1;
+                const y0 = (0, util_3.heightFromSpecificLevel)(views, trackId, level1, getTrackYPosOverride);
+                const path = [
+                    'M',
+                    x1,
+                    y1,
+                    'C',
+                    x1 + 200 * f1.get('strand') * rf1,
+                    abnormalSpecialRenderFlag
+                        ? Math.min(y0 - yOffset + trackHeight, y1 + trackHeight)
+                        : y1,
+                    x2 - 200 * f2.get('strand') * rf2 * pf1,
+                    abnormalSpecialRenderFlag
+                        ? Math.min(y0 - yOffset + trackHeight, y2 + trackHeight)
+                        : y2,
+                    x2,
+                    y2,
+                ].join(' ');
+                const id = `${f1.id()}-${f2.id()}`;
+                ret.push((0, jsx_runtime_1.jsx)("path", { d: path, "data-testid": "r1", pointerEvents: interactiveOverlay ? 'auto' : undefined, strokeWidth: mouseoverElt === id ? 5 : 1, ...(0, util_1.getStrokeProps)(orientationColor || theme.palette.text.disabled), onClick: () => {
+                        var _a, _b;
+                        const featureWidget = (_a = session.addWidget) === null || _a === void 0 ? void 0 : _a.call(session, 'BreakpointAlignmentsWidget', 'breakpointAlignments', {
+                            featureData: {
+                                feature1: (allFeatures.get(f1.id()) || { toJSON: () => { } }).toJSON(),
+                                feature2: (allFeatures.get(f2.id()) || { toJSON: () => { } }).toJSON(),
+                            },
+                        });
+                        (_b = session.showWidget) === null || _b === void 0 ? void 0 : _b.call(session, featureWidget);
+                    }, onMouseOver: () => {
+                        setMouseoverElt(id);
+                    }, onMouseOut: () => {
+                        setMouseoverElt(undefined);
+                    } }, id));
             }
-            const p1 = c1[s1 === -1 ? LEFT : RIGHT];
-            const sn1 = s2 === -1;
-            const p2 = hasPaired ? c2[sn1 ? LEFT : RIGHT] : c2[sn1 ? RIGHT : LEFT];
-            const x1 = (0, util_3.getPxFromCoordinate)(views[level1], f1ref, p1);
-            const x2 = (0, util_3.getPxFromCoordinate)(views[level2], f2ref, p2);
-            const reversed1 = views[level1].pxToBp(x1).reversed;
-            const reversed2 = views[level2].pxToBp(x2).reversed;
-            const rf1 = reversed1 ? -1 : 1;
-            const rf2 = reversed2 ? -1 : 1;
-            const tracks = views.map(v => v.getTrack(trackId));
-            const y1 = (0, util_3.yPos)(trackId, level1, views, tracks, c1, getTrackYPosOverride) -
-                yOffset;
-            const y2 = (0, util_3.yPos)(trackId, level2, views, tracks, c2, getTrackYPosOverride) -
-                yOffset;
-            const sameLevel = level1 === level2;
-            const abnormalSpecialRenderFlag = sameLevel && isAbnormal;
-            const trackHeight = abnormalSpecialRenderFlag
-                ? tracks[level1].displays[0].height
-                : 0;
-            const pf1 = hasPaired ? -1 : 1;
-            const y0 = (0, util_3.heightFromSpecificLevel)(views, trackId, level1, getTrackYPosOverride);
-            const path = [
-                'M',
-                x1,
-                y1,
-                'C',
-                x1 + 200 * f1.get('strand') * rf1,
-                abnormalSpecialRenderFlag
-                    ? Math.min(y0 - yOffset + trackHeight, y1 + trackHeight)
-                    : y1,
-                x2 - 200 * f2.get('strand') * rf2 * pf1,
-                abnormalSpecialRenderFlag
-                    ? Math.min(y0 - yOffset + trackHeight, y2 + trackHeight)
-                    : y2,
-                x2,
-                y2,
-            ].join(' ');
-            const id = `${f1.id()}-${f2.id()}`;
-            ret.push(react_1.default.createElement("path", { d: path, key: id, "data-testid": "r1", strokeWidth: mouseoverElt === id ? 5 : 1, ...(0, util_1.getStrokeProps)(orientationColor || theme.palette.text.disabled), onClick: () => {
-                    var _a, _b;
-                    const featureWidget = (_a = session.addWidget) === null || _a === void 0 ? void 0 : _a.call(session, 'BreakpointAlignmentsWidget', 'breakpointAlignments', {
-                        featureData: {
-                            feature1: (allFeatures.get(f1.id()) || { toJSON: () => { } }).toJSON(),
-                            feature2: (allFeatures.get(f2.id()) || { toJSON: () => { } }).toJSON(),
-                        },
-                    });
-                    (_b = session.showWidget) === null || _b === void 0 ? void 0 : _b.call(session, featureWidget);
-                }, onMouseOver: () => {
-                    setMouseoverElt(id);
-                }, onMouseOut: () => {
-                    setMouseoverElt(undefined);
-                } }));
-        }
-        return ret;
-    }))) : null;
+            return ret;
+        }) })) : null;
 });
 exports.default = AlignmentConnections;

package/dist/BreakpointSplitView/components/Breakends.d.ts

@@ -1,9 +1,8 @@
-import React from 'react';
 import type { BreakpointViewModel } from '../model';
 declare const Breakends: ({ model, trackId, parentRef: ref, getTrackYPosOverride, }: {
     model: BreakpointViewModel;
     trackId: string;
-    parentRef: React.RefObject<SVGSVGElement>;
+    parentRef: React.RefObject<SVGSVGElement | null>;
     getTrackYPosOverride?: (trackId: string, level: number) => number;
-}) => React.JSX.Element | null;
+}) => import("react/jsx-runtime").JSX.Element | null;
 export default Breakends;

package/dist/BreakpointSplitView/components/Breakends.js

@@ -1,29 +1,7 @@
 "use strict";
-var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    var desc = Object.getOwnPropertyDescriptor(m, k);
-    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
-      desc = { enumerable: true, get: function() { return m[k]; } };
-    }
-    Object.defineProperty(o, k2, desc);
-}) : (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    o[k2] = m[k];
-}));
-var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || function (mod) {
-    if (mod && mod.__esModule) return mod;
-    var result = {};
-    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
-    __setModuleDefault(result, mod);
-    return result;
-};
 Object.defineProperty(exports, "__esModule", { value: true });
-const react_1 = __importStar(require("react"));
+const jsx_runtime_1 = require("react/jsx-runtime");
+const react_1 = require("react");
 const util_1 = require("@jbrowse/core/util");
 const mobx_react_1 = require("mobx-react");
 const mobx_state_tree_1 = require("mobx-state-tree");
@@ -31,7 +9,7 @@ const util_2 = require("./util");
 const util_3 = require("../util");
 const [LEFT] = [0, 1, 2, 3];
 const Breakends = (0, mobx_react_1.observer)(function ({ model, trackId, parentRef: ref, getTrackYPosOverride, }) {
-    const { views } = model;
+    const { interactiveOverlay, views } = model;
     const session = (0, util_1.getSession)(model);
     const { assemblyManager } = session;
     const totalFeatures = model.getTrackFeatures(trackId);
@@ -48,70 +26,70 @@ const Breakends = (0, mobx_react_1.observer)(function ({ model, trackId, parentR
         const rect = ref.current.getBoundingClientRect();
         yoff = rect.top;
     }
-    return (react_1.default.createElement("g", { stroke: "green", strokeWidth: 5, fill: "none", "data-testid": layoutMatches.length ? `${trackId}-loaded` : trackId }, layoutMatches.map(chunk => {
-        const ret = [];
-        for (let i = 0; i < chunk.length - 1; i += 1) {
-            const { layout: c1, feature: f1, level: level1 } = chunk[i];
-            const { layout: c2, feature: f2, level: level2 } = chunk[i + 1];
-            const id = f1.id();
-            const relevantAlt = (0, util_2.findMatchingAlt)(f1, f2);
-            if (!c1 || !c2) {
-                return null;
-            }
-            const f1origref = f1.get('refName');
-            const f2origref = f2.get('refName');
-            const f1ref = assembly.getCanonicalRefName(f1origref);
-            const f2ref = assembly.getCanonicalRefName(f2origref);
-            if (!f1ref || !f2ref) {
-                throw new Error(`unable to find ref for ${f1ref || f2ref}`);
-            }
-            const x1 = (0, util_3.getPxFromCoordinate)(views[level1], f1ref, c1[LEFT]);
-            const x2 = (0, util_3.getPxFromCoordinate)(views[level2], f2ref, c2[LEFT]);
-            const reversed1 = views[level1].pxToBp(x1).reversed;
-            const reversed2 = views[level2].pxToBp(x2).reversed;
-            const tracks = views.map(v => v.getTrack(trackId));
-            const y1 = (0, util_3.yPos)(trackId, level1, views, tracks, c1, getTrackYPosOverride) -
-                yoff;
-            const y2 = (0, util_3.yPos)(trackId, level2, views, tracks, c2, getTrackYPosOverride) -
-                yoff;
-            if (!relevantAlt) {
-                console.warn('the relevant ALT allele was not found, cannot render');
-            }
-            else {
-                const path = [
-                    'M',
-                    x1 -
-                        20 *
-                            (relevantAlt.Join === 'left' ? -1 : 1) *
-                            (reversed1 ? -1 : 1),
-                    y1,
-                    'L',
-                    x1,
-                    y1,
-                    'L',
-                    x2,
-                    y2,
-                    'L',
-                    x2 -
-                        20 *
-                            (relevantAlt.MateDirection === 'left' ? 1 : -1) *
-                            (reversed2 ? -1 : 1),
-                    y2,
-                ].join(' ');
-                ret.push(react_1.default.createElement("path", { d: path, "data-testid": "r2", key: JSON.stringify(path), strokeWidth: id === mouseoverElt ? 10 : 5, onClick: () => {
-                        var _a, _b, _c;
-                        const featureWidget = (_a = session.addWidget) === null || _a === void 0 ? void 0 : _a.call(session, 'VariantFeatureWidget', 'variantFeature', {
-                            featureData: (_b = totalFeatures.get(id)) === null || _b === void 0 ? void 0 : _b.toJSON(),
-                        });
-                        (_c = session.showWidget) === null || _c === void 0 ? void 0 : _c.call(session, featureWidget);
-                    }, onMouseOver: () => {
-                        setMouseoverElt(id);
-                    }, onMouseOut: () => {
-                        setMouseoverElt(undefined);
-                    } }));
+    return ((0, jsx_runtime_1.jsx)("g", { stroke: "green", strokeWidth: 5, fill: "none", "data-testid": layoutMatches.length ? `${trackId}-loaded` : trackId, children: layoutMatches.map(chunk => {
+            const ret = [];
+            for (let i = 0; i < chunk.length - 1; i += 1) {
+                const { layout: c1, feature: f1, level: level1 } = chunk[i];
+                const { layout: c2, feature: f2, level: level2 } = chunk[i + 1];
+                const id = f1.id();
+                const relevantAlt = (0, util_2.findMatchingAlt)(f1, f2);
+                if (!c1 || !c2) {
+                    return null;
+                }
+                const f1origref = f1.get('refName');
+                const f2origref = f2.get('refName');
+                const f1ref = assembly.getCanonicalRefName(f1origref);
+                const f2ref = assembly.getCanonicalRefName(f2origref);
+                if (!f1ref || !f2ref) {
+                    throw new Error(`unable to find ref for ${f1ref || f2ref}`);
+                }
+                const x1 = (0, util_3.getPxFromCoordinate)(views[level1], f1ref, c1[LEFT]);
+                const x2 = (0, util_3.getPxFromCoordinate)(views[level2], f2ref, c2[LEFT]);
+                const reversed1 = views[level1].pxToBp(x1).reversed;
+                const reversed2 = views[level2].pxToBp(x2).reversed;
+                const tracks = views.map(v => v.getTrack(trackId));
+                const y1 = (0, util_3.yPos)(trackId, level1, views, tracks, c1, getTrackYPosOverride) -
+                    yoff;
+                const y2 = (0, util_3.yPos)(trackId, level2, views, tracks, c2, getTrackYPosOverride) -
+                    yoff;
+                if (!relevantAlt) {
+                    console.warn('the relevant ALT allele was not found, cannot render');
+                }
+                else {
+                    const path = [
+                        'M',
+                        x1 -
+                            20 *
+                                (relevantAlt.Join === 'left' ? -1 : 1) *
+                                (reversed1 ? -1 : 1),
+                        y1,
+                        'L',
+                        x1,
+                        y1,
+                        'L',
+                        x2,
+                        y2,
+                        'L',
+                        x2 -
+                            20 *
+                                (relevantAlt.MateDirection === 'left' ? 1 : -1) *
+                                (reversed2 ? -1 : 1),
+                        y2,
+                    ].join(' ');
+                    ret.push((0, jsx_runtime_1.jsx)("path", { d: path, "data-testid": "r2", pointerEvents: interactiveOverlay ? 'auto' : undefined, strokeWidth: id === mouseoverElt ? 10 : 5, onClick: () => {
+                            var _a, _b, _c;
+                            const featureWidget = (_a = session.addWidget) === null || _a === void 0 ? void 0 : _a.call(session, 'VariantFeatureWidget', 'variantFeature', {
+                                featureData: (_b = totalFeatures.get(id)) === null || _b === void 0 ? void 0 : _b.toJSON(),
+                            });
+                            (_c = session.showWidget) === null || _c === void 0 ? void 0 : _c.call(session, featureWidget);
+                        }, onMouseOver: () => {
+                            setMouseoverElt(id);
+                        }, onMouseOut: () => {
+                            setMouseoverElt(undefined);
+                        } }, JSON.stringify(path)));
+                }
             }
-        }
-        return ret;
-    })));
+            return ret;
+        }) }));
 });
 exports.default = Breakends;

package/dist/BreakpointSplitView/components/BreakpointSplitView.d.ts

@@ -1,6 +1,5 @@
-import React from 'react';
 import type { BreakpointViewModel } from '../model';
 declare const BreakpointSplitView: ({ model, }: {
     model: BreakpointViewModel;
-}) => React.JSX.Element;
+}) => import("react/jsx-runtime").JSX.Element;
 export default BreakpointSplitView;

package/dist/BreakpointSplitView/components/BreakpointSplitView.js

@@ -3,7 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const react_1 = __importDefault(require("react"));
+const jsx_runtime_1 = require("react/jsx-runtime");
 const util_1 = require("@jbrowse/core/util");
 const mobx_react_1 = require("mobx-react");
 const mui_1 = require("tss-react/mui");
@@ -27,23 +27,19 @@ const BreakpointSplitViewLevels = (0, mobx_react_1.observer)(function ({ model,
     const { classes } = useStyles();
     const { views } = model;
     const { pluginManager } = (0, util_1.getEnv)(model);
-    return (react_1.default.createElement("div", { className: classes.content },
-        react_1.default.createElement("div", { className: classes.rel }, views.map((view, idx) => {
-            const { ReactComponent } = pluginManager.getViewType(view.type);
-            const viewComponent = react_1.default.createElement(ReactComponent, { key: view.id, model: view });
-            return idx === views.length - 1
-                ? viewComponent
-                : [
-                    viewComponent,
-                    react_1.default.createElement("div", { key: `${view.id}-divider`, className: classes.viewDivider }),
-                ];
-        }))));
+    return ((0, jsx_runtime_1.jsx)("div", { className: classes.content, children: (0, jsx_runtime_1.jsx)("div", { className: classes.rel, children: views.map((view, idx) => {
+                const { ReactComponent } = pluginManager.getViewType(view.type);
+                const viewComponent = (0, jsx_runtime_1.jsx)(ReactComponent, { model: view }, view.id);
+                return idx === views.length - 1
+                    ? viewComponent
+                    : [
+                        viewComponent,
+                        (0, jsx_runtime_1.jsx)("div", { className: classes.viewDivider }, `${view.id}-divider`),
+                    ];
+            }) }) }));
 });
 const BreakpointSplitView = (0, mobx_react_1.observer)(function ({ model, }) {
     const { classes } = useStyles();
-    return (react_1.default.createElement("div", null,
-        react_1.default.createElement("div", { className: classes.container },
-            react_1.default.createElement(BreakpointSplitViewLevels, { model: model }),
-            react_1.default.createElement(BreakpointSplitViewOverlay_1.default, { model: model }))));
+    return ((0, jsx_runtime_1.jsx)("div", { children: (0, jsx_runtime_1.jsxs)("div", { className: classes.container, children: [(0, jsx_runtime_1.jsx)(BreakpointSplitViewLevels, { model: model }), (0, jsx_runtime_1.jsx)(BreakpointSplitViewOverlay_1.default, { model: model })] }) }));
 });
 exports.default = BreakpointSplitView;

package/dist/BreakpointSplitView/components/BreakpointSplitViewOverlay.d.ts

@@ -1,6 +1,5 @@
-import React from 'react';
 import type { BreakpointViewModel } from '../model';
 declare const BreakpointSplitViewOverlay: ({ model, }: {
     model: BreakpointViewModel;
-}) => React.JSX.Element;
+}) => import("react/jsx-runtime").JSX.Element;
 export default BreakpointSplitViewOverlay;

package/dist/BreakpointSplitView/components/BreakpointSplitViewOverlay.js

@@ -1,32 +1,10 @@
 "use strict";
-var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    var desc = Object.getOwnPropertyDescriptor(m, k);
-    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
-      desc = { enumerable: true, get: function() { return m[k]; } };
-    }
-    Object.defineProperty(o, k2, desc);
-}) : (function(o, m, k, k2) {
-    if (k2 === undefined) k2 = k;
-    o[k2] = m[k];
-}));
-var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || function (mod) {
-    if (mod && mod.__esModule) return mod;
-    var result = {};
-    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
-    __setModuleDefault(result, mod);
-    return result;
-};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const react_1 = __importStar(require("react"));
+const jsx_runtime_1 = require("react/jsx-runtime");
+const react_1 = require("react");
 const mobx_react_1 = require("mobx-react");
 const mui_1 = require("tss-react/mui");
 const Overlay_1 = __importDefault(require("./Overlay"));
@@ -40,16 +18,16 @@ const useStyles = (0, mui_1.makeStyles)()({
             fill: 'none',
         },
     },
+    base: {
+        pointerEvents: 'none',
+        width: '100%',
+        zIndex: 10,
+    },
 });
 const BreakpointSplitViewOverlay = (0, mobx_react_1.observer)(function ({ model, }) {
     const { classes } = useStyles();
-    const { matchedTracks, interactToggled } = model;
+    const { matchedTracks } = model;
     const ref = (0, react_1.useRef)(null);
-    return (react_1.default.createElement("div", { className: classes.overlay },
-        react_1.default.createElement("svg", { ref: ref, style: {
-                width: '100%',
-                zIndex: 10,
-                pointerEvents: interactToggled ? undefined : 'none',
-            } }, matchedTracks.map(track => (react_1.default.createElement(Overlay_1.default, { parentRef: ref, key: track.configuration.trackId, model: model, trackId: track.configuration.trackId }))))));
+    return ((0, jsx_runtime_1.jsx)("div", { className: classes.overlay, children: (0, jsx_runtime_1.jsx)("svg", { ref: ref, className: classes.base, children: matchedTracks.map(track => ((0, jsx_runtime_1.jsx)(Overlay_1.default, { parentRef: ref, model: model, trackId: track.configuration.trackId }, track.configuration.trackId))) }) }));
 });
 exports.default = BreakpointSplitViewOverlay;

package/dist/BreakpointSplitView/components/ExportSvgDialog.d.ts

@@ -1,8 +1,7 @@
-import React from 'react';
-import type { ExportSvgOptions } from '../model';
+import type { ExportSvgOptions } from '../types';
 export default function ExportSvgDialog({ model, handleClose, }: {
     model: {
         exportSvg(opts: ExportSvgOptions): Promise<void>;
     };
     handleClose: () => void;
-}): React.JSX.Element;
+}): import("react/jsx-runtime").JSX.Element;