@jbrowse/plugin-variants 1.7.0 → 1.7.4

package/dist/StructuralVariantChordRenderer/ReactComponent.d.ts

@@ -1,24 +1,24 @@
-declare function _default(props: any): JSX.Element;
-declare namespace _default {
-    export namespace propTypes {
-        export const features: PropTypes.Validator<Map<unknown, unknown>>;
-        export const config: PropTypes.Validator<any>;
-        export const displayModel: React.Requireable<any>;
-        export const blockDefinitions: PropTypes.Validator<any[]>;
-        export const radius: PropTypes.Validator<number>;
-        export const bezierRadius: PropTypes.Validator<number>;
-        export const selectedFeatureId: PropTypes.Requireable<string>;
-        export const onChordClick: PropTypes.Requireable<string | ((...args: any[]) => any)>;
-    }
-    export namespace defaultProps {
-        const displayModel_1: undefined;
-        export { displayModel_1 as displayModel };
-        const selectedFeatureId_1: string;
-        export { selectedFeatureId_1 as selectedFeatureId };
-        const onChordClick_1: undefined;
-        export { onChordClick_1 as onChordClick };
-    }
-}
-export default _default;
-import PropTypes from "prop-types";
-import React from "react";
+declare function _default(props: any): JSX.Element;
+declare namespace _default {
+    namespace propTypes {
+        const features: PropTypes.Validator<Map<unknown, unknown>>;
+        const config: PropTypes.Validator<any>;
+        const displayModel: React.Requireable<any>;
+        const blockDefinitions: PropTypes.Validator<any[]>;
+        const radius: PropTypes.Validator<number>;
+        const bezierRadius: PropTypes.Validator<number>;
+        const selectedFeatureId: PropTypes.Requireable<string>;
+        const onChordClick: PropTypes.Requireable<string | ((...args: any[]) => any)>;
+    }
+    namespace defaultProps {
+        const displayModel_1: undefined;
+        export { displayModel_1 as displayModel };
+        const selectedFeatureId_1: string;
+        export { selectedFeatureId_1 as selectedFeatureId };
+        const onChordClick_1: undefined;
+        export { onChordClick_1 as onChordClick };
+    }
+}
+export default _default;
+import PropTypes from "prop-types";
+import React from "react";

package/dist/StructuralVariantChordRenderer/ReactComponent.js

@@ -7,7 +7,7 @@ var _typeof = require("@babel/runtime/helpers/typeof");
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _toConsumableArray2 = _interopRequireDefault(require("@babel/runtime/helpers/toConsumableArray"));
 
@@ -29,9 +29,9 @@ var _propTypes = _interopRequireDefault(require("prop-types"));
 
 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; }
+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; }
 
-function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it["return"] != null) it["return"](); } finally { if (didErr) throw err; } } }; }
+function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it.return != null) it.return(); } finally { if (didErr) throw err; } } }; }
 
 function _unsupportedIterableToArray(o, minLen) { if (!o) return; if (typeof o === "string") return _arrayLikeToArray(o, minLen); var n = Object.prototype.toString.call(o).slice(8, -1); if (n === "Object" && o.constructor) n = o.constructor.name; if (n === "Map" || n === "Set") return Array.from(o); if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _arrayLikeToArray(o, minLen); }
 
@@ -69,7 +69,7 @@ var Chord = (0, _mobxReact.observer)(function Chord(_ref) {
 
     var _ref2 = feature.get('INFO').SVTYPE || [];
 
-    var _ref3 = (0, _slicedToArray2["default"])(_ref2, 1);
+    var _ref3 = (0, _slicedToArray2.default)(_ref2, 1);
 
     svType = _ref3[0];
   } else if (feature.get('mate')) {
@@ -117,9 +117,9 @@ var Chord = (0, _mobxReact.observer)(function Chord(_ref) {
     var hoverStrokeColor = (0, _configuration.readConfObject)(config, 'strokeColorHover', {
       feature: feature
     });
-    return /*#__PURE__*/_react["default"].createElement("path", {
+    return /*#__PURE__*/_react.default.createElement("path", {
       "data-testid": "chord-".concat(feature.id()),
-      d: ['M'].concat((0, _toConsumableArray2["default"])(startXY), ['Q'], (0, _toConsumableArray2["default"])(controlXY), (0, _toConsumableArray2["default"])(endXY)).join(' '),
+      d: ['M'].concat((0, _toConsumableArray2.default)(startXY), ['Q'], (0, _toConsumableArray2.default)(controlXY), (0, _toConsumableArray2.default)(endXY)).join(' '),
       style: {
         stroke: strokeColor
       },
@@ -172,12 +172,12 @@ function StructuralVariantChords(props) {
 
   try {
     for (_iterator.s(); !(_step = _iterator.n()).done;) {
-      var _step$value = (0, _slicedToArray2["default"])(_step.value, 2),
+      var _step$value = (0, _slicedToArray2.default)(_step.value, 2),
           id = _step$value[0],
           feature = _step$value[1];
 
       var selected = String(selectedFeatureId) === String(feature.id());
-      chords.push( /*#__PURE__*/_react["default"].createElement(Chord, {
+      chords.push( /*#__PURE__*/_react.default.createElement(Chord, {
         key: id,
         feature: feature,
         config: config,
@@ -196,10 +196,10 @@ function StructuralVariantChords(props) {
   }
 
   var trackStyleId = "chords-".concat(displayModel.id);
-  return /*#__PURE__*/_react["default"].createElement("g", {
+  return /*#__PURE__*/_react.default.createElement("g", {
     id: trackStyleId,
     "data-testid": "structuralVariantChordRenderer"
-  }, /*#__PURE__*/_react["default"].createElement("style", {
+  }, /*#__PURE__*/_react.default.createElement("style", {
     // eslint-disable-next-line react/no-danger
     dangerouslySetInnerHTML: {
       __html: "\n          #".concat(trackStyleId, " > path {\n            cursor: crosshair;\n            fill: none;\n          }\n")
@@ -208,14 +208,14 @@ function StructuralVariantChords(props) {
 }
 
 StructuralVariantChords.propTypes = {
-  features: _propTypes["default"].instanceOf(Map).isRequired,
+  features: _propTypes.default.instanceOf(Map).isRequired,
   config: _mst.PropTypes.ConfigSchema.isRequired,
   displayModel: _mobxReact.PropTypes.objectOrObservableObject,
-  blockDefinitions: _propTypes["default"].arrayOf(_mobxReact.PropTypes.objectOrObservableObject).isRequired,
-  radius: _propTypes["default"].number.isRequired,
-  bezierRadius: _propTypes["default"].number.isRequired,
-  selectedFeatureId: _propTypes["default"].string,
-  onChordClick: _propTypes["default"].oneOfType([_propTypes["default"].func, _propTypes["default"].string])
+  blockDefinitions: _propTypes.default.arrayOf(_mobxReact.PropTypes.objectOrObservableObject).isRequired,
+  radius: _propTypes.default.number.isRequired,
+  bezierRadius: _propTypes.default.number.isRequired,
+  selectedFeatureId: _propTypes.default.string,
+  onChordClick: _propTypes.default.oneOfType([_propTypes.default.func, _propTypes.default.string])
 };
 StructuralVariantChords.defaultProps = {
   displayModel: undefined,
@@ -225,4 +225,4 @@ StructuralVariantChords.defaultProps = {
 
 var _default = (0, _mobxReact.observer)(StructuralVariantChords);
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/StructuralVariantChordRenderer/index.d.ts

@@ -1,3 +1,3 @@
-export default ChordRendererConfigF;
-declare function ChordRendererConfigF(pluginManager: any): ChordRendererType;
-import ChordRendererType from "@jbrowse/core/pluggableElementTypes/renderers/CircularChordRendererType";
+export default ChordRendererConfigF;
+declare function ChordRendererConfigF(pluginManager: any): ChordRendererType;
+import ChordRendererType from "@jbrowse/core/pluggableElementTypes/renderers/CircularChordRendererType";

package/dist/StructuralVariantChordRenderer/index.js

@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _CircularChordRendererType = _interopRequireDefault(require("@jbrowse/core/pluggableElementTypes/renderers/CircularChordRendererType"));
 
@@ -36,13 +36,13 @@ var ChordRendererConfigF = function ChordRendererConfigF(pluginManager) {
   }, {
     explicitlyTyped: true
   });
-  return new _CircularChordRendererType["default"]({
+  return new _CircularChordRendererType.default({
     name: 'StructuralVariantChordRenderer',
-    ReactComponent: _ReactComponent["default"],
+    ReactComponent: _ReactComponent.default,
     configSchema: configSchema,
     pluginManager: pluginManager
   });
 };
 
 var _default = ChordRendererConfigF;
-exports["default"] = _default;
+exports.default = _default;

package/dist/VariantFeatureWidget/BreakendOptionDialog.d.ts

@@ -1,10 +1,10 @@
-/// <reference types="react" />
-import { Feature } from '@jbrowse/core/util/simpleFeature';
-declare function BreakendOptionDialog({ model, handleClose, feature, viewType, }: {
-    model: any;
-    handleClose: () => void;
-    feature: Feature;
-    viewType: any;
-}): JSX.Element;
-declare const _default: typeof BreakendOptionDialog;
-export default _default;
+/// <reference types="react" />
+import { Feature } from '@jbrowse/core/util/simpleFeature';
+declare function BreakendOptionDialog({ model, handleClose, feature, viewType, }: {
+    model: any;
+    handleClose: () => void;
+    feature: Feature;
+    viewType: any;
+}): JSX.Element;
+declare const _default: typeof BreakendOptionDialog;
+export default _default;

package/dist/VariantFeatureWidget/BreakendOptionDialog.js

@@ -7,7 +7,7 @@ var _typeof = require("@babel/runtime/helpers/typeof");
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime/helpers/slicedToArray"));
 
@@ -25,7 +25,7 @@ var _util = require("@jbrowse/core/util");
 
 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; }
+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; }
 
 /* eslint-disable @typescript-eslint/no-explicit-any */
 var useStyles = (0, _core.makeStyles)(function (theme) {
@@ -50,26 +50,26 @@ function BreakendOptionDialog(_ref) {
   var classes = useStyles();
 
   var _useState = (0, _react.useState)(true),
-      _useState2 = (0, _slicedToArray2["default"])(_useState, 2),
+      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
       copyTracks = _useState2[0],
       setCopyTracks = _useState2[1];
 
   var _useState3 = (0, _react.useState)(true),
-      _useState4 = (0, _slicedToArray2["default"])(_useState3, 2),
+      _useState4 = (0, _slicedToArray2.default)(_useState3, 2),
       mirrorTracks = _useState4[0],
       setMirrorTracks = _useState4[1];
 
-  return /*#__PURE__*/_react["default"].createElement(_core.Dialog, {
+  return /*#__PURE__*/_react.default.createElement(_core.Dialog, {
     open: true,
     onClose: handleClose
-  }, /*#__PURE__*/_react["default"].createElement(_core.DialogTitle, null, "Breakpoint split view options", handleClose ? /*#__PURE__*/_react["default"].createElement(_core.IconButton, {
+  }, /*#__PURE__*/_react.default.createElement(_core.DialogTitle, null, "Breakpoint split view options", handleClose ? /*#__PURE__*/_react.default.createElement(_core.IconButton, {
     className: classes.closeButton,
     onClick: function onClick() {
       return handleClose();
     }
-  }, /*#__PURE__*/_react["default"].createElement(_Close["default"], null)) : null), /*#__PURE__*/_react["default"].createElement(_core.Divider, null), /*#__PURE__*/_react["default"].createElement(_core.DialogContent, null, /*#__PURE__*/_react["default"].createElement(_core.FormControlLabel, {
+  }, /*#__PURE__*/_react.default.createElement(_Close.default, null)) : null), /*#__PURE__*/_react.default.createElement(_core.Divider, null), /*#__PURE__*/_react.default.createElement(_core.DialogContent, null, /*#__PURE__*/_react.default.createElement(_core.FormControlLabel, {
     className: classes.block,
-    control: /*#__PURE__*/_react["default"].createElement(_core.Checkbox, {
+    control: /*#__PURE__*/_react.default.createElement(_core.Checkbox, {
       checked: copyTracks,
       onChange: function onChange() {
         return setCopyTracks(function (val) {
@@ -78,9 +78,9 @@ function BreakendOptionDialog(_ref) {
       }
     }),
     label: "Copy tracks into the new view"
-  }), /*#__PURE__*/_react["default"].createElement(_core.FormControlLabel, {
+  }), /*#__PURE__*/_react.default.createElement(_core.FormControlLabel, {
     className: classes.block,
-    control: /*#__PURE__*/_react["default"].createElement(_core.Checkbox, {
+    control: /*#__PURE__*/_react.default.createElement(_core.Checkbox, {
       checked: mirrorTracks,
       onChange: function onChange() {
         return setMirrorTracks(function (val) {
@@ -89,7 +89,7 @@ function BreakendOptionDialog(_ref) {
       }
     }),
     label: "Mirror tracks vertically in vertically stacked view"
-  })), /*#__PURE__*/_react["default"].createElement(_core.DialogActions, null, /*#__PURE__*/_react["default"].createElement(_core.Button, {
+  })), /*#__PURE__*/_react.default.createElement(_core.DialogActions, null, /*#__PURE__*/_react.default.createElement(_core.Button, {
     onClick: function onClick() {
       var view = model.view;
       var session = (0, _util.getSession)(model);
@@ -113,7 +113,7 @@ function BreakendOptionDialog(_ref) {
     variant: "contained",
     color: "primary",
     autoFocus: true
-  }, "OK"), /*#__PURE__*/_react["default"].createElement(_core.Button, {
+  }, "OK"), /*#__PURE__*/_react.default.createElement(_core.Button, {
     onClick: function onClick() {
       return handleClose();
     },
@@ -124,4 +124,4 @@ function BreakendOptionDialog(_ref) {
 
 var _default = (0, _mobxReact.observer)(BreakendOptionDialog);
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/VariantFeatureWidget/VariantFeatureWidget.d.ts

@@ -1,4 +1,4 @@
-/// <reference types="react" />
-declare function VariantFeatureDetails(props: any): JSX.Element;
-declare const _default: typeof VariantFeatureDetails;
-export default _default;
+/// <reference types="react" />
+declare function VariantFeatureDetails(props: any): JSX.Element;
+declare const _default: typeof VariantFeatureDetails;
+export default _default;

package/dist/VariantFeatureWidget/VariantFeatureWidget.js

@@ -7,7 +7,7 @@ var _typeof = require("@babel/runtime/helpers/typeof");
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _objectWithoutProperties2 = _interopRequireDefault(require("@babel/runtime/helpers/objectWithoutProperties"));
 
@@ -43,20 +43,20 @@ var _excluded = ["samples"];
 
 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; }
+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; }
 
 function ownKeys(object, enumerableOnly) { var keys = Object.keys(object); if (Object.getOwnPropertySymbols) { var symbols = Object.getOwnPropertySymbols(object); enumerableOnly && (symbols = symbols.filter(function (sym) { return Object.getOwnPropertyDescriptor(object, sym).enumerable; })), keys.push.apply(keys, symbols); } return keys; }
 
-function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = null != arguments[i] ? arguments[i] : {}; i % 2 ? ownKeys(Object(source), !0).forEach(function (key) { (0, _defineProperty2["default"])(target, key, source[key]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(target, Object.getOwnPropertyDescriptors(source)) : ownKeys(Object(source)).forEach(function (key) { Object.defineProperty(target, key, Object.getOwnPropertyDescriptor(source, key)); }); } return target; }
+function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = null != arguments[i] ? arguments[i] : {}; i % 2 ? ownKeys(Object(source), !0).forEach(function (key) { (0, _defineProperty2.default)(target, key, source[key]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(target, Object.getOwnPropertyDescriptors(source)) : ownKeys(Object(source)).forEach(function (key) { Object.defineProperty(target, key, Object.getOwnPropertyDescriptor(source, key)); }); } return target; }
 
 function VariantSamples(props) {
   var _useState = (0, _react.useState)({}),
-      _useState2 = (0, _slicedToArray2["default"])(_useState, 2),
+      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
       filter = _useState2[0],
       setFilter = _useState2[1];
 
   var _useState3 = (0, _react.useState)(false),
-      _useState4 = (0, _slicedToArray2["default"])(_useState3, 2),
+      _useState4 = (0, _slicedToArray2.default)(_useState3, 2),
       showFilters = _useState4[0],
       setShowFilters = _useState4[1];
 
@@ -69,7 +69,7 @@ function VariantSamples(props) {
     return null;
   }
 
-  var infoFields = ['sample'].concat((0, _toConsumableArray2["default"])(Object.keys(preFilteredRows[0][1]))).map(function (field) {
+  var infoFields = ['sample'].concat((0, _toConsumableArray2.default)(Object.keys(preFilteredRows[0][1]))).map(function (field) {
     return {
       field: field
     };
@@ -101,12 +101,12 @@ function VariantSamples(props) {
   // https://github.com/mui-org/material-ui-x/issues/1197
 
 
-  return /*#__PURE__*/_react["default"].createElement(_BaseFeatureDetail.BaseCard, (0, _extends2["default"])({}, props, {
+  return /*#__PURE__*/_react.default.createElement(_BaseFeatureDetail.BaseCard, (0, _extends2.default)({}, props, {
     title: "Samples"
-  }), error ? /*#__PURE__*/_react["default"].createElement(_core.Typography, {
+  }), error ? /*#__PURE__*/_react.default.createElement(_core.Typography, {
     color: "error"
-  }, "".concat(error)) : null, /*#__PURE__*/_react["default"].createElement(_core.FormControlLabel, {
-    control: /*#__PURE__*/_react["default"].createElement(_core.Checkbox, {
+  }, "".concat(error)) : null, /*#__PURE__*/_react.default.createElement(_core.FormControlLabel, {
+    control: /*#__PURE__*/_react.default.createElement(_core.Checkbox, {
       checked: showFilters,
       onChange: function onChange() {
         return setShowFilters(function (f) {
@@ -115,23 +115,23 @@ function VariantSamples(props) {
       }
     }),
     label: "Show sample filters"
-  }), showFilters ? /*#__PURE__*/_react["default"].createElement(_react["default"].Fragment, null, /*#__PURE__*/_react["default"].createElement(_core.Typography, null, "These filters can use a plain text search or regex style query, e.g. in the genotype field, entering 1 will query for all genotypes that include the first alternate allele e.g. 0|1 or 1|1, entering [1-9]\\d* will find any non-zero allele e.g. 0|2 or 2/33"), infoFields.map(function (_ref) {
+  }), showFilters ? /*#__PURE__*/_react.default.createElement(_react.default.Fragment, null, /*#__PURE__*/_react.default.createElement(_core.Typography, null, "These filters can use a plain text search or regex style query, e.g. in the genotype field, entering 1 will query for all genotypes that include the first alternate allele e.g. 0|1 or 1|1, entering [1-9]\\d* will find any non-zero allele e.g. 0|2 or 2/33"), infoFields.map(function (_ref) {
     var field = _ref.field;
-    return /*#__PURE__*/_react["default"].createElement(_core.TextField, {
+    return /*#__PURE__*/_react.default.createElement(_core.TextField, {
       key: "filter-".concat(field),
       placeholder: "Filter ".concat(field),
       value: filter[field] || '',
       onChange: function onChange(event) {
-        return setFilter(_objectSpread(_objectSpread({}, filter), {}, (0, _defineProperty2["default"])({}, field, event.target.value)));
+        return setFilter(_objectSpread(_objectSpread({}, filter), {}, (0, _defineProperty2.default)({}, field, event.target.value)));
       }
     });
-  })) : null, /*#__PURE__*/_react["default"].createElement("div", {
+  })) : null, /*#__PURE__*/_react.default.createElement("div", {
     style: {
       height: 600,
       width: '100%',
       overflow: 'auto'
     }
-  }, /*#__PURE__*/_react["default"].createElement(_xDataGrid.DataGrid, {
+  }, /*#__PURE__*/_react.default.createElement(_xDataGrid.DataGrid, {
     rows: rows,
     columns: infoFields,
     rowHeight: 20,
@@ -151,7 +151,7 @@ function BreakendPanel(props) {
       pluginManager = _getEnv.pluginManager;
 
   var _useState5 = (0, _react.useState)(false),
-      _useState6 = (0, _slicedToArray2["default"])(_useState5, 2),
+      _useState6 = (0, _slicedToArray2.default)(_useState5, 2),
       breakpointDialog = _useState6[0],
       setBreakpointDialog = _useState6[1];
 
@@ -162,13 +162,13 @@ function BreakendPanel(props) {
   } catch (e) {// ignore
   }
 
-  var simpleFeature = new _simpleFeature["default"](feature);
-  return /*#__PURE__*/_react["default"].createElement(_BaseFeatureDetail.BaseCard, (0, _extends2["default"])({}, props, {
+  var simpleFeature = new _simpleFeature.default(feature);
+  return /*#__PURE__*/_react.default.createElement(_BaseFeatureDetail.BaseCard, (0, _extends2.default)({}, props, {
     title: "Breakends"
-  }), /*#__PURE__*/_react["default"].createElement(_core.Typography, null, "Link to linear view of breakend endpoints"), /*#__PURE__*/_react["default"].createElement("ul", null, locStrings.map(function (locString) {
-    return /*#__PURE__*/_react["default"].createElement("li", {
+  }), /*#__PURE__*/_react.default.createElement(_core.Typography, null, "Link to linear view of breakend endpoints"), /*#__PURE__*/_react.default.createElement("ul", null, locStrings.map(function (locString) {
+    return /*#__PURE__*/_react.default.createElement("li", {
       key: "".concat(JSON.stringify(locString))
-    }, /*#__PURE__*/_react["default"].createElement(_core.Link, {
+    }, /*#__PURE__*/_react.default.createElement(_core.Link, {
       href: "#",
       onClick: function onClick(event) {
         event.preventDefault();
@@ -188,17 +188,17 @@ function BreakendPanel(props) {
         }
       }
     }, "LGV - ".concat(locString)));
-  })), viewType ? /*#__PURE__*/_react["default"].createElement("div", null, /*#__PURE__*/_react["default"].createElement(_core.Typography, null, "Launch split views with breakend source and target"), /*#__PURE__*/_react["default"].createElement("ul", null, locStrings.map(function (locString) {
-    return /*#__PURE__*/_react["default"].createElement("li", {
+  })), viewType ? /*#__PURE__*/_react.default.createElement("div", null, /*#__PURE__*/_react.default.createElement(_core.Typography, null, "Launch split views with breakend source and target"), /*#__PURE__*/_react.default.createElement("ul", null, locStrings.map(function (locString) {
+    return /*#__PURE__*/_react.default.createElement("li", {
       key: "".concat(JSON.stringify(locString))
-    }, /*#__PURE__*/_react["default"].createElement(_core.Link, {
+    }, /*#__PURE__*/_react.default.createElement(_core.Link, {
       href: "#",
       onClick: function onClick(event) {
         event.preventDefault();
         setBreakpointDialog(true);
       }
     }, "".concat(feature.refName, ":").concat(feature.start, " // ").concat(locString, " (split view)")));
-  })), breakpointDialog ? /*#__PURE__*/_react["default"].createElement(_BreakendOptionDialog["default"], {
+  })), breakpointDialog ? /*#__PURE__*/_react.default.createElement(_BreakendOptionDialog.default, {
     model: model,
     feature: simpleFeature,
     viewType: viewType,
@@ -214,7 +214,7 @@ function VariantFeatureDetails(props) {
       descriptions = model.descriptions;
   var feat = JSON.parse(JSON.stringify(featureData));
   var samples = feat.samples,
-      rest = (0, _objectWithoutProperties2["default"])(feat, _excluded);
+      rest = (0, _objectWithoutProperties2.default)(feat, _excluded);
   var basicDescriptions = {
     CHROM: 'chromosome: An identifier from the reference genome',
     POS: 'position: The reference position, with the 1st base having position 1',
@@ -224,12 +224,12 @@ function VariantFeatureDetails(props) {
     QUAL: 'quality: Phred-scaled quality score for the assertion made in ALT',
     FILTER: 'filter status: PASS if this position has passed all filters, otherwise a semicolon-separated list of codes for filters that fail'
   };
-  return /*#__PURE__*/_react["default"].createElement(_core.Paper, {
+  return /*#__PURE__*/_react.default.createElement(_core.Paper, {
     "data-testid": "variant-side-drawer"
-  }, /*#__PURE__*/_react["default"].createElement(_BaseFeatureDetail.FeatureDetails, (0, _extends2["default"])({
+  }, /*#__PURE__*/_react.default.createElement(_BaseFeatureDetail.FeatureDetails, (0, _extends2.default)({
     feature: rest,
     descriptions: _objectSpread(_objectSpread({}, basicDescriptions), descriptions)
-  }, props)), /*#__PURE__*/_react["default"].createElement(_core.Divider, null), feat.type === 'breakend' ? /*#__PURE__*/_react["default"].createElement(BreakendPanel, {
+  }, props)), /*#__PURE__*/_react.default.createElement(_core.Divider, null), feat.type === 'breakend' ? /*#__PURE__*/_react.default.createElement(BreakendPanel, {
     feature: feat,
     locStrings: feat.ALT.map(function (alt) {
       var _parseBreakend;
@@ -237,15 +237,15 @@ function VariantFeatureDetails(props) {
       return ((_parseBreakend = (0, _vcf.parseBreakend)(alt)) === null || _parseBreakend === void 0 ? void 0 : _parseBreakend.MatePosition) || '';
     }),
     model: model
-  }) : null, feat.type === 'translocation' ? /*#__PURE__*/_react["default"].createElement(BreakendPanel, {
+  }) : null, feat.type === 'translocation' ? /*#__PURE__*/_react.default.createElement(BreakendPanel, {
     feature: feat,
     model: model,
     locStrings: ["".concat(feat.INFO.CHR2[0], ":").concat(feat.INFO.END)]
-  }) : null, /*#__PURE__*/_react["default"].createElement(VariantSamples, (0, _extends2["default"])({
+  }) : null, /*#__PURE__*/_react.default.createElement(VariantSamples, (0, _extends2.default)({
     feature: feat
   }, props)));
 }
 
 var _default = (0, _mobxReact.observer)(VariantFeatureDetails);
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/VariantFeatureWidget/VariantFeatureWidget.test.js

@@ -19,7 +19,7 @@ var _VariantFeatureWidget = _interopRequireDefault(require("./VariantFeatureWidg
 describe('VariantTrack widget', function () {
   it('renders with just the required model elements', function () {
     console.warn = jest.fn();
-    var pluginManager = new _PluginManager["default"]([]);
+    var pluginManager = new _PluginManager.default([]);
 
     var Session = _mobxStateTree.types.model({
       rpcManager: _mobxStateTree.types.optional(_mobxStateTree.types.frozen(), {}),
@@ -46,7 +46,7 @@ describe('VariantTrack widget', function () {
       }
     });
 
-    var _render = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(_VariantFeatureWidget["default"], {
+    var _render = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(_VariantFeatureWidget.default, {
       model: model.widget
     })),
         container = _render.container;

package/dist/VariantFeatureWidget/index.d.ts

@@ -1,11 +1,11 @@
-export function stateModelFactory(pluginManager: any): import("mobx-state-tree").IModelType<{
-    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-    type: import("mobx-state-tree").ISimpleType<"VariantFeatureWidget">;
-    view: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<any>>;
-    featureData: import("mobx-state-tree").IType<any, any, any>;
-    descriptions: import("mobx-state-tree").IType<any, any, any>;
-}, {
-    setFeatureData(data: any): void;
-    clearFeatureData(): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export function stateModelFactory(pluginManager: any): import("mobx-state-tree").IModelType<{
+    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("mobx-state-tree").ISimpleType<"VariantFeatureWidget">;
+    view: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<any>>;
+    featureData: import("mobx-state-tree").IType<any, any, any>;
+    descriptions: import("mobx-state-tree").IType<any, any, any>;
+}, {
+    setFeatureData(data: any): void;
+    clearFeatureData(): void;
+}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+export const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;

package/dist/VcfAdapter/VcfAdapter.d.ts

@@ -1,24 +1,24 @@
-import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import { Region } from '@jbrowse/core/util/types';
-import { Feature } from '@jbrowse/core/util/simpleFeature';
-import IntervalTree from '@flatten-js/interval-tree';
-export default class VcfAdapter extends BaseFeatureDataAdapter {
-    static capabilities: string[];
-    protected vcfFeatures?: Promise<{
-        header: string;
-        intervalTree: Record<string, IntervalTree>;
-    }>;
-    getHeader(): Promise<string>;
-    getMetadata(): Promise<any>;
-    setupP(): Promise<{
-        header: string;
-        intervalTree: Record<string, IntervalTree<any>>;
-    }>;
-    setup(): Promise<{
-        header: string;
-        intervalTree: Record<string, IntervalTree<any>>;
-    }>;
-    getRefNames(_?: BaseOptions): Promise<string[]>;
-    getFeatures(region: Region, opts?: BaseOptions): import("rxjs").Observable<Feature>;
-    freeResources(): void;
-}
+import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
+import { Region } from '@jbrowse/core/util/types';
+import { Feature } from '@jbrowse/core/util/simpleFeature';
+import IntervalTree from '@flatten-js/interval-tree';
+export default class VcfAdapter extends BaseFeatureDataAdapter {
+    static capabilities: string[];
+    protected vcfFeatures?: Promise<{
+        header: string;
+        intervalTree: Record<string, IntervalTree>;
+    }>;
+    getHeader(): Promise<string>;
+    getMetadata(): Promise<any>;
+    setupP(): Promise<{
+        header: string;
+        intervalTree: Record<string, IntervalTree<any>>;
+    }>;
+    setup(): Promise<{
+        header: string;
+        intervalTree: Record<string, IntervalTree<any>>;
+    }>;
+    getRefNames(_?: BaseOptions): Promise<string[]>;
+    getFeatures(region: Region, opts?: BaseOptions): import("rxjs").Observable<Feature>;
+    freeResources(): void;
+}