@jbrowse/plugin-alignments 1.7.9 → 2.0.0

package/dist/PileupRenderer/PileupRenderer.js.map

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

@@ -1,5 +1,5 @@
-import { Region } from '@jbrowse/core/util/types';
 import React from 'react';
+import { Region } from '@jbrowse/core/util/types';
 import type { BaseLinearDisplayModel } from '@jbrowse/plugin-linear-genome-view';
 declare function PileupRendering(props: {
     blockKey: string;

package/dist/PileupRenderer/components/PileupRendering.js

@@ -1,270 +1,190 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-var _typeof = require("@babel/runtime/helpers/typeof");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
+var __assign = (this && this.__assign) || function () {
+    __assign = Object.assign || function(t) {
+        for (var s, i = 1, n = arguments.length; i < n; i++) {
+            s = arguments[i];
+            for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p))
+                t[p] = s[p];
+        }
+        return t;
+    };
+    return __assign.apply(this, arguments);
+};
+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;
 });
-exports.default = void 0;
-
-var _extends2 = _interopRequireDefault(require("@babel/runtime/helpers/extends"));
-
-var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime/helpers/slicedToArray"));
-
-var _ui = require("@jbrowse/core/ui");
-
-var _util = require("@jbrowse/core/util");
-
-var _mobxReact = require("mobx-react");
-
-var _react = _interopRequireWildcard(require("react"));
-
-function _getRequireWildcardCache(nodeInterop) { if (typeof WeakMap !== "function") return null; var cacheBabelInterop = new WeakMap(); var cacheNodeInterop = new WeakMap(); return (_getRequireWildcardCache = function _getRequireWildcardCache(nodeInterop) { return nodeInterop ? cacheNodeInterop : cacheBabelInterop; })(nodeInterop); }
-
-function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj && obj.__esModule) { return obj; } if (obj === null || _typeof(obj) !== "object" && typeof obj !== "function") { return { default: obj }; } var cache = _getRequireWildcardCache(nodeInterop); if (cache && cache.has(obj)) { return cache.get(obj); } var newObj = {}; var hasPropertyDescriptor = Object.defineProperty && Object.getOwnPropertyDescriptor; for (var key in obj) { if (key !== "default" && Object.prototype.hasOwnProperty.call(obj, key)) { var desc = hasPropertyDescriptor ? Object.getOwnPropertyDescriptor(obj, key) : null; if (desc && (desc.get || desc.set)) { Object.defineProperty(newObj, key, desc); } else { newObj[key] = obj[key]; } } } newObj.default = obj; if (cache) { cache.set(obj, newObj); } return newObj; }
-
+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 __read = (this && this.__read) || function (o, n) {
+    var m = typeof Symbol === "function" && o[Symbol.iterator];
+    if (!m) return o;
+    var i = m.call(o), r, ar = [], e;
+    try {
+        while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
+    }
+    catch (error) { e = { error: error }; }
+    finally {
+        try {
+            if (r && !r.done && (m = i["return"])) m.call(i);
+        }
+        finally { if (e) throw e.error; }
+    }
+    return ar;
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+var react_1 = __importStar(require("react"));
+var ui_1 = require("@jbrowse/core/ui");
+var util_1 = require("@jbrowse/core/util");
+var mobx_react_1 = require("mobx-react");
 // used so that user can click-away-from-feature below the laid out features
 // (issue #1248)
 var canvasPadding = 100;
-
 function PileupRendering(props) {
-  var onMouseMove = props.onMouseMove,
-      blockKey = props.blockKey,
-      displayModel = props.displayModel,
-      width = props.width,
-      height = props.height,
-      regions = props.regions,
-      bpPerPx = props.bpPerPx,
-      sortedBy = props.sortedBy,
-      colorBy = props.colorBy;
-  var selectedFeatureId = displayModel.selectedFeatureId,
-      featureIdUnderMouse = displayModel.featureIdUnderMouse,
-      contextMenuFeature = displayModel.contextMenuFeature;
-
-  var _regions = (0, _slicedToArray2.default)(regions, 1),
-      region = _regions[0];
-
-  var highlightOverlayCanvas = (0, _react.useRef)(null);
-
-  var _useState = (0, _react.useState)(false),
-      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
-      mouseIsDown = _useState2[0],
-      setMouseIsDown = _useState2[1];
-
-  var _useState3 = (0, _react.useState)(false),
-      _useState4 = (0, _slicedToArray2.default)(_useState3, 2),
-      movedDuringLastMouseDown = _useState4[0],
-      setMovedDuringLastMouseDown = _useState4[1];
-
-  (0, _react.useEffect)(function () {
-    var _displayModel$getFeat, _displayModel$getFeat2;
-
-    var canvas = highlightOverlayCanvas.current;
-
-    if (!canvas) {
-      return;
-    }
-
-    var ctx = canvas.getContext('2d');
-
-    if (!ctx) {
-      return;
+    var onMouseMove = props.onMouseMove, blockKey = props.blockKey, displayModel = props.displayModel, width = props.width, height = props.height, regions = props.regions, bpPerPx = props.bpPerPx, sortedBy = props.sortedBy, colorBy = props.colorBy;
+    var selectedFeatureId = displayModel.selectedFeatureId, featureIdUnderMouse = displayModel.featureIdUnderMouse, contextMenuFeature = displayModel.contextMenuFeature;
+    var _a = __read(regions, 1), region = _a[0];
+    var highlightOverlayCanvas = (0, react_1.useRef)(null);
+    var _b = __read((0, react_1.useState)(false), 2), mouseIsDown = _b[0], setMouseIsDown = _b[1];
+    var _c = __read((0, react_1.useState)(false), 2), movedDuringLastMouseDown = _c[0], setMovedDuringLastMouseDown = _c[1];
+    (0, react_1.useEffect)(function () {
+        var _a, _b;
+        var canvas = highlightOverlayCanvas.current;
+        if (!canvas) {
+            return;
+        }
+        var ctx = canvas.getContext('2d');
+        if (!ctx) {
+            return;
+        }
+        ctx.clearRect(0, 0, canvas.width, canvas.height);
+        var selectedRect = selectedFeatureId
+            ? (_a = displayModel.getFeatureByID) === null || _a === void 0 ? void 0 : _a.call(displayModel, blockKey, selectedFeatureId)
+            : undefined;
+        if (selectedRect) {
+            var _c = __read(selectedRect, 4), leftBp = _c[0], topPx = _c[1], rightBp = _c[2], bottomPx = _c[3];
+            var _d = __read((0, util_1.bpSpanPx)(leftBp, rightBp, region, bpPerPx), 2), leftPx = _d[0], rightPx = _d[1];
+            var rectTop = Math.round(topPx);
+            var rectHeight = Math.round(bottomPx - topPx);
+            ctx.shadowColor = '#222266';
+            ctx.shadowBlur = 10;
+            ctx.lineJoin = 'bevel';
+            ctx.lineWidth = 2;
+            ctx.strokeStyle = '#00b8ff';
+            ctx.strokeRect(leftPx - 2, rectTop - 2, rightPx - leftPx + 4, rectHeight + 4);
+            ctx.clearRect(leftPx, rectTop, rightPx - leftPx, rectHeight);
+        }
+        var highlightedFeature = featureIdUnderMouse || (contextMenuFeature === null || contextMenuFeature === void 0 ? void 0 : contextMenuFeature.id());
+        var highlightedRect = highlightedFeature
+            ? (_b = displayModel.getFeatureByID) === null || _b === void 0 ? void 0 : _b.call(displayModel, blockKey, highlightedFeature)
+            : undefined;
+        if (highlightedRect) {
+            var _e = __read(highlightedRect, 4), leftBp = _e[0], topPx = _e[1], rightBp = _e[2], bottomPx = _e[3];
+            var _f = __read((0, util_1.bpSpanPx)(leftBp, rightBp, region, bpPerPx), 2), leftPx = _f[0], rightPx = _f[1];
+            var rectTop = Math.round(topPx);
+            var rectHeight = Math.round(bottomPx - topPx);
+            ctx.fillStyle = '#0003';
+            ctx.fillRect(leftPx, rectTop, rightPx - leftPx, rectHeight);
+        }
+    }, [
+        bpPerPx,
+        region,
+        blockKey,
+        selectedFeatureId,
+        displayModel,
+        featureIdUnderMouse,
+        contextMenuFeature,
+    ]);
+    function onMouseDown(event) {
+        setMouseIsDown(true);
+        setMovedDuringLastMouseDown(false);
+        callMouseHandler('MouseDown', event);
     }
-
-    ctx.clearRect(0, 0, canvas.width, canvas.height);
-    var selectedRect = selectedFeatureId ? (_displayModel$getFeat = displayModel.getFeatureByID) === null || _displayModel$getFeat === void 0 ? void 0 : _displayModel$getFeat.call(displayModel, blockKey, selectedFeatureId) : undefined;
-
-    if (selectedRect) {
-      var _selectedRect = (0, _slicedToArray2.default)(selectedRect, 4),
-          leftBp = _selectedRect[0],
-          topPx = _selectedRect[1],
-          rightBp = _selectedRect[2],
-          bottomPx = _selectedRect[3];
-
-      var _bpSpanPx = (0, _util.bpSpanPx)(leftBp, rightBp, region, bpPerPx),
-          _bpSpanPx2 = (0, _slicedToArray2.default)(_bpSpanPx, 2),
-          leftPx = _bpSpanPx2[0],
-          rightPx = _bpSpanPx2[1];
-
-      var rectTop = Math.round(topPx);
-      var rectHeight = Math.round(bottomPx - topPx);
-      ctx.shadowColor = '#222266';
-      ctx.shadowBlur = 10;
-      ctx.lineJoin = 'bevel';
-      ctx.lineWidth = 2;
-      ctx.strokeStyle = '#00b8ff';
-      ctx.strokeRect(leftPx - 2, rectTop - 2, rightPx - leftPx + 4, rectHeight + 4);
-      ctx.clearRect(leftPx, rectTop, rightPx - leftPx, rectHeight);
+    function onMouseEnter(event) {
+        callMouseHandler('MouseEnter', event);
     }
-
-    var highlightedFeature = featureIdUnderMouse || (contextMenuFeature === null || contextMenuFeature === void 0 ? void 0 : contextMenuFeature.id());
-    var highlightedRect = highlightedFeature ? (_displayModel$getFeat2 = displayModel.getFeatureByID) === null || _displayModel$getFeat2 === void 0 ? void 0 : _displayModel$getFeat2.call(displayModel, blockKey, highlightedFeature) : undefined;
-
-    if (highlightedRect) {
-      var _highlightedRect = (0, _slicedToArray2.default)(highlightedRect, 4),
-          _leftBp = _highlightedRect[0],
-          _topPx = _highlightedRect[1],
-          _rightBp = _highlightedRect[2],
-          _bottomPx = _highlightedRect[3];
-
-      var _bpSpanPx3 = (0, _util.bpSpanPx)(_leftBp, _rightBp, region, bpPerPx),
-          _bpSpanPx4 = (0, _slicedToArray2.default)(_bpSpanPx3, 2),
-          _leftPx = _bpSpanPx4[0],
-          _rightPx = _bpSpanPx4[1];
-
-      var _rectTop = Math.round(_topPx);
-
-      var _rectHeight = Math.round(_bottomPx - _topPx);
-
-      ctx.fillStyle = '#0003';
-      ctx.fillRect(_leftPx, _rectTop, _rightPx - _leftPx, _rectHeight);
+    function onMouseOut(event) {
+        callMouseHandler('MouseOut', event);
+        callMouseHandler('MouseLeave', event);
     }
-  }, [bpPerPx, region, blockKey, selectedFeatureId, displayModel, featureIdUnderMouse, contextMenuFeature]);
-
-  function _onMouseDown(event) {
-    setMouseIsDown(true);
-    setMovedDuringLastMouseDown(false);
-    callMouseHandler('MouseDown', event);
-  }
-
-  function _onMouseEnter(event) {
-    callMouseHandler('MouseEnter', event);
-  }
-
-  function _onMouseOut(event) {
-    callMouseHandler('MouseOut', event);
-    callMouseHandler('MouseLeave', event);
-  }
-
-  function _onMouseOver(event) {
-    callMouseHandler('MouseOver', event);
-  }
-
-  function _onMouseUp(event) {
-    setMouseIsDown(false);
-    callMouseHandler('MouseUp', event);
-  }
-
-  function _onClick(event) {
-    if (!movedDuringLastMouseDown) {
-      callMouseHandler('Click', event);
+    function onMouseOver(event) {
+        callMouseHandler('MouseOver', event);
     }
-  }
-
-  function _onMouseLeave(event) {
-    callMouseHandler('MouseOut', event);
-    callMouseHandler('MouseLeave', event);
-  }
-
-  function _onContextMenu(event) {
-    callMouseHandler('ContextMenu', event);
-  }
-
-  function mouseMove(event) {
-    if (mouseIsDown) {
-      setMovedDuringLastMouseDown(true);
+    function onMouseUp(event) {
+        setMouseIsDown(false);
+        callMouseHandler('MouseUp', event);
     }
-
-    var offsetX = 0;
-    var offsetY = 0;
-    var canvas = highlightOverlayCanvas.current;
-
-    if (canvas) {
-      var _canvas$getBoundingCl = canvas.getBoundingClientRect(),
-          left = _canvas$getBoundingCl.left,
-          top = _canvas$getBoundingCl.top;
-
-      offsetX = left;
-      offsetY = top;
+    function onClick(event) {
+        if (!movedDuringLastMouseDown) {
+            callMouseHandler('Click', event);
+        }
     }
-
-    offsetX = event.clientX - offsetX;
-    offsetY = event.clientY - offsetY;
-    var px = region.reversed ? width - offsetX : offsetX;
-    var clientBp = region.start + bpPerPx * px;
-    var featIdUnderMouse = displayModel.getFeatureOverlapping(blockKey, clientBp, offsetY);
-
-    if (onMouseMove) {
-      onMouseMove(event, featIdUnderMouse);
+    function onMouseLeave(event) {
+        callMouseHandler('MouseOut', event);
+        callMouseHandler('MouseLeave', event);
     }
-  }
-
-  function callMouseHandler(handlerName, event) {
-    // @ts-ignore
-    // eslint-disable-next-line react/destructuring-assignment
-    var featureHandler = props["onFeature".concat(handlerName)]; // @ts-ignore
-    // eslint-disable-next-line react/destructuring-assignment
-
-    var canvasHandler = props["on".concat(handlerName)];
-
-    if (featureHandler && featureIdUnderMouse) {
-      featureHandler(event, featureIdUnderMouse);
-    } else if (canvasHandler) {
-      canvasHandler(event, featureIdUnderMouse);
+    function onContextMenu(event) {
+        callMouseHandler('ContextMenu', event);
     }
-  }
-
-  var canvasWidth = Math.ceil(width); // need to call this in render so we get the right observer behavior
-
-  return /*#__PURE__*/_react.default.createElement("div", {
-    className: "PileupRendering",
-    "data-testid": "pileup-".concat(sortedBy || colorBy ? "".concat((sortedBy === null || sortedBy === void 0 ? void 0 : sortedBy.type) || '').concat((colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) || '').concat((colorBy === null || colorBy === void 0 ? void 0 : colorBy.tag) || '') : 'normal'),
-    style: {
-      position: 'relative',
-      width: canvasWidth,
-      height: height
+    function mouseMove(event) {
+        if (mouseIsDown) {
+            setMovedDuringLastMouseDown(true);
+        }
+        var offsetX = 0;
+        var offsetY = 0;
+        var canvas = highlightOverlayCanvas.current;
+        if (canvas) {
+            var _a = canvas.getBoundingClientRect(), left = _a.left, top_1 = _a.top;
+            offsetX = left;
+            offsetY = top_1;
+        }
+        offsetX = event.clientX - offsetX;
+        offsetY = event.clientY - offsetY;
+        var px = region.reversed ? width - offsetX : offsetX;
+        var clientBp = region.start + bpPerPx * px;
+        var featIdUnderMouse = displayModel.getFeatureOverlapping(blockKey, clientBp, offsetY);
+        if (onMouseMove) {
+            onMouseMove(event, featIdUnderMouse);
+        }
     }
-  }, /*#__PURE__*/_react.default.createElement(_ui.PrerenderedCanvas, (0, _extends2.default)({}, props, {
-    style: {
-      position: 'absolute',
-      left: 0,
-      top: 0
+    function callMouseHandler(handlerName, event) {
+        // @ts-ignore
+        // eslint-disable-next-line react/destructuring-assignment
+        var featureHandler = props["onFeature".concat(handlerName)];
+        // @ts-ignore
+        // eslint-disable-next-line react/destructuring-assignment
+        var canvasHandler = props["on".concat(handlerName)];
+        if (featureHandler && featureIdUnderMouse) {
+            featureHandler(event, featureIdUnderMouse);
+        }
+        else if (canvasHandler) {
+            canvasHandler(event, featureIdUnderMouse);
+        }
     }
-  })), /*#__PURE__*/_react.default.createElement("canvas", {
-    "data-testid": "pileup_overlay_canvas",
-    width: canvasWidth,
-    height: height + canvasPadding,
-    style: {
-      position: 'absolute',
-      left: 0,
-      top: 0
-    },
-    className: "highlightOverlayCanvas",
-    ref: highlightOverlayCanvas,
-    onMouseDown: function onMouseDown(event) {
-      return _onMouseDown(event);
-    },
-    onMouseEnter: function onMouseEnter(event) {
-      return _onMouseEnter(event);
-    },
-    onMouseOut: function onMouseOut(event) {
-      return _onMouseOut(event);
-    },
-    onMouseOver: function onMouseOver(event) {
-      return _onMouseOver(event);
-    },
-    onMouseUp: function onMouseUp(event) {
-      return _onMouseUp(event);
-    },
-    onMouseLeave: function onMouseLeave(event) {
-      return _onMouseLeave(event);
-    },
-    onMouseMove: function onMouseMove(event) {
-      return mouseMove(event);
-    },
-    onClick: function onClick(event) {
-      return _onClick(event);
-    },
-    onContextMenu: function onContextMenu(event) {
-      return _onContextMenu(event);
-    },
-    onFocus: function onFocus() {},
-    onBlur: function onBlur() {}
-  }));
+    var canvasWidth = Math.ceil(width);
+    // need to call this in render so we get the right observer behavior
+    return (react_1.default.createElement("div", { className: "PileupRendering", "data-testid": "pileup-".concat(sortedBy || colorBy
+            ? "".concat((sortedBy === null || sortedBy === void 0 ? void 0 : sortedBy.type) || '').concat((colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) || '').concat((colorBy === null || colorBy === void 0 ? void 0 : colorBy.tag) || '')
+            : 'normal'), style: { position: 'relative', width: canvasWidth, height: height } },
+        react_1.default.createElement(ui_1.PrerenderedCanvas, __assign({}, props, { style: { position: 'absolute', left: 0, top: 0 } })),
+        react_1.default.createElement("canvas", { "data-testid": "pileup_overlay_canvas", width: canvasWidth, height: height + canvasPadding, style: { position: 'absolute', left: 0, top: 0 }, className: "highlightOverlayCanvas", ref: highlightOverlayCanvas, onMouseDown: function (event) { return onMouseDown(event); }, onMouseEnter: function (event) { return onMouseEnter(event); }, onMouseOut: function (event) { return onMouseOut(event); }, onMouseOver: function (event) { return onMouseOver(event); }, onMouseUp: function (event) { return onMouseUp(event); }, onMouseLeave: function (event) { return onMouseLeave(event); }, onMouseMove: function (event) { return mouseMove(event); }, onClick: function (event) { return onClick(event); }, onContextMenu: function (event) { return onContextMenu(event); }, onFocus: function () { }, onBlur: function () { } })));
 }
-
-var _default = (0, _mobxReact.observer)(PileupRendering);
-
-exports.default = _default;
+exports.default = (0, mobx_react_1.observer)(PileupRendering);
+//# sourceMappingURL=PileupRendering.js.map

package/dist/PileupRenderer/components/PileupRendering.js.map

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