@jbrowse/plugin-alignments 1.7.3 → 1.7.6

package/dist/PileupRenderer/components/PileupRendering.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 _extends2 = _interopRequireDefault(require("@babel/runtime/helpers/extends"));
 
@@ -23,7 +23,7 @@ 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; }
+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; }
 
 // used so that user can click-away-from-feature below the laid out features
 // (issue #1248)
@@ -43,18 +43,18 @@ function PileupRendering(props) {
       featureIdUnderMouse = displayModel.featureIdUnderMouse,
       contextMenuFeature = displayModel.contextMenuFeature;
 
-  var _regions = (0, _slicedToArray2["default"])(regions, 1),
+  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),
+      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
       mouseIsDown = _useState2[0],
       setMouseIsDown = _useState2[1];
 
   var _useState3 = (0, _react.useState)(false),
-      _useState4 = (0, _slicedToArray2["default"])(_useState3, 2),
+      _useState4 = (0, _slicedToArray2.default)(_useState3, 2),
       movedDuringLastMouseDown = _useState4[0],
       setMovedDuringLastMouseDown = _useState4[1];
 
@@ -77,14 +77,14 @@ function PileupRendering(props) {
     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),
+      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),
+          _bpSpanPx2 = (0, _slicedToArray2.default)(_bpSpanPx, 2),
           leftPx = _bpSpanPx2[0],
           rightPx = _bpSpanPx2[1];
 
@@ -103,14 +103,14 @@ function PileupRendering(props) {
     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),
+      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),
+          _bpSpanPx4 = (0, _slicedToArray2.default)(_bpSpanPx3, 2),
           _leftPx = _bpSpanPx4[0],
           _rightPx = _bpSpanPx4[1];
 
@@ -208,7 +208,7 @@ function PileupRendering(props) {
 
   var canvasWidth = Math.ceil(width); // need to call this in render so we get the right observer behavior
 
-  return /*#__PURE__*/_react["default"].createElement("div", {
+  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: {
@@ -216,13 +216,13 @@ function PileupRendering(props) {
       width: canvasWidth,
       height: height
     }
-  }, /*#__PURE__*/_react["default"].createElement(_ui.PrerenderedCanvas, (0, _extends2["default"])({}, props, {
+  }, /*#__PURE__*/_react.default.createElement(_ui.PrerenderedCanvas, (0, _extends2.default)({}, props, {
     style: {
       position: 'absolute',
       left: 0,
       top: 0
     }
-  })), /*#__PURE__*/_react["default"].createElement("canvas", {
+  })), /*#__PURE__*/_react.default.createElement("canvas", {
     "data-testid": "pileup_overlay_canvas",
     width: canvasWidth,
     height: height + canvasPadding,
@@ -267,4 +267,4 @@ function PileupRendering(props) {
 
 var _default = (0, _mobxReact.observer)(PileupRendering);
 
-exports["default"] = _default;
+exports.default = _default;

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

@@ -12,7 +12,7 @@ var _PileupRendering = _interopRequireDefault(require("./PileupRendering"));
 
 // these tests do very little, let's try to expand them at some point
 test('one', function () {
-  var _render = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(_PileupRendering["default"], {
+  var _render = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(_PileupRendering.default, {
     width: 500,
     height: 500,
     regions: [{
@@ -20,7 +20,7 @@ test('one', function () {
       start: 1,
       end: 3
     }],
-    layout: new _PrecomputedLayout["default"]({
+    layout: new _PrecomputedLayout.default({
       rectangles: {},
       totalHeight: 20
     }),

package/dist/PileupRenderer/configSchema.js

@@ -3,7 +3,7 @@
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _configuration = require("@jbrowse/core/configuration");
 
@@ -69,4 +69,4 @@ var _default = (0, _configuration.ConfigurationSchema)('PileupRenderer', {
   explicitlyTyped: true
 });
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/PileupRenderer/index.js

@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = register;
+exports.default = register;
 
 var _PileupRenderer = _interopRequireDefault(require("./PileupRenderer"));
 
@@ -15,10 +15,10 @@ var _configSchema = _interopRequireDefault(require("./configSchema"));
 
 function register(pluginManager) {
   pluginManager.addRendererType(function () {
-    return new _PileupRenderer["default"]({
+    return new _PileupRenderer.default({
       name: 'PileupRenderer',
-      ReactComponent: _PileupRendering["default"],
-      configSchema: _configSchema["default"],
+      ReactComponent: _PileupRendering.default,
+      configSchema: _configSchema.default,
       pluginManager: pluginManager
     });
   });

package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js

@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = exports.capabilities = void 0;
+exports.default = exports.capabilities = void 0;
 
 var _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
 
@@ -35,13 +35,13 @@ var _util = require("../util");
 
 var _MismatchParser = require("../BamAdapter/MismatchParser");
 
-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); }
 
 function _arrayLikeToArray(arr, len) { if (len == null || len > arr.length) len = arr.length; for (var i = 0, arr2 = new Array(len); i < len; i++) { arr2[i] = arr[i]; } return arr2; }
 
-function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2["default"])(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2["default"])(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2["default"])(this, result); }; }
+function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
 
 function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
 
@@ -90,23 +90,23 @@ function dec(bin, strand, type, field) {
 }
 
 var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
-  (0, _inherits2["default"])(SNPCoverageAdapter, _BaseFeatureDataAdapt);
+  (0, _inherits2.default)(SNPCoverageAdapter, _BaseFeatureDataAdapt);
 
   var _super = _createSuper(SNPCoverageAdapter);
 
   function SNPCoverageAdapter() {
-    (0, _classCallCheck2["default"])(this, SNPCoverageAdapter);
+    (0, _classCallCheck2.default)(this, SNPCoverageAdapter);
     return _super.apply(this, arguments);
   }
 
-  (0, _createClass2["default"])(SNPCoverageAdapter, [{
+  (0, _createClass2.default)(SNPCoverageAdapter, [{
     key: "configure",
     value: function () {
-      var _configure = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee() {
+      var _configure = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee() {
         var _this$getSubAdapter, _this$getSubAdapter2;
 
         var subadapterConfig, sequenceConf, dataAdapter, sequenceAdapter;
-        return _regenerator["default"].wrap(function _callee$(_context) {
+        return _regenerator.default.wrap(function _callee$(_context) {
           while (1) {
             switch (_context.prev = _context.next) {
               case 0:
@@ -167,10 +167,10 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "fetchSequence",
     value: function () {
-      var _fetchSequence2 = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee2(region) {
+      var _fetchSequence2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(region) {
         var _yield$this$configure, sequenceAdapter;
 
-        return _regenerator["default"].wrap(function _callee2$(_context2) {
+        return _regenerator.default.wrap(function _callee2$(_context2) {
           while (1) {
             switch (_context2.prev = _context2.next) {
               case 0:
@@ -212,10 +212,10 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
 
       var opts = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : {};
       return (0, _rxjs.ObservableCreate)( /*#__PURE__*/function () {
-        var _ref = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee3(observer) {
+        var _ref = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee3(observer) {
           var _yield$_this$configur, subadapter, feats, _yield$_this$generate, bins, skipmap;
 
-          return _regenerator["default"].wrap(function _callee3$(_context3) {
+          return _regenerator.default.wrap(function _callee3$(_context3) {
             while (1) {
               switch (_context3.prev = _context3.next) {
                 case 0:
@@ -238,7 +238,7 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
                   bins = _yield$_this$generate.bins;
                   skipmap = _yield$_this$generate.skipmap;
                   bins.forEach(function (bin, index) {
-                    observer.next(new _simpleFeature["default"]({
+                    observer.next(new _simpleFeature.default({
                       id: "".concat(_this.id, "-").concat(region.start + index),
                       data: {
                         score: bin.total,
@@ -251,11 +251,11 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
                   }); // make fake features from the coverage
 
                   Object.entries(skipmap).forEach(function (_ref2) {
-                    var _ref3 = (0, _slicedToArray2["default"])(_ref2, 2),
+                    var _ref3 = (0, _slicedToArray2.default)(_ref2, 2),
                         key = _ref3[0],
                         skip = _ref3[1];
 
-                    observer.next(new _simpleFeature["default"]({
+                    observer.next(new _simpleFeature.default({
                       id: key,
                       data: {
                         type: 'skip',
@@ -285,10 +285,10 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "estimateRegionsStats",
     value: function () {
-      var _estimateRegionsStats = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee4(regions, opts) {
+      var _estimateRegionsStats = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee4(regions, opts) {
         var _yield$this$configure2, subadapter;
 
-        return _regenerator["default"].wrap(function _callee4$(_context4) {
+        return _regenerator.default.wrap(function _callee4$(_context4) {
           while (1) {
             switch (_context4.prev = _context4.next) {
               case 0:
@@ -317,13 +317,13 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "getRefNames",
     value: function () {
-      var _getRefNames = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee5() {
+      var _getRefNames = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee5() {
         var opts,
             _yield$this$configure3,
             subadapter,
             _args5 = arguments;
 
-        return _regenerator["default"].wrap(function _callee5$(_context5) {
+        return _regenerator.default.wrap(function _callee5$(_context5) {
           while (1) {
             switch (_context5.prev = _context5.next) {
               case 0:
@@ -358,12 +358,12 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "generateCoverageBins",
     value: function () {
-      var _generateCoverageBins = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee6(features, region, opts) {
+      var _generateCoverageBins = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee6(features, region, opts) {
         var _opts$colorBy;
 
         var colorBy, binMax, skipmap, regionSeq, bins, _loop, i;
 
-        return _regenerator["default"].wrap(function _callee6$(_context6) {
+        return _regenerator.default.wrap(function _callee6$(_context6) {
           while (1) {
             switch (_context6.prev = _context6.next) {
               case 0:
@@ -601,6 +601,6 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   return SNPCoverageAdapter;
 }(_BaseAdapter.BaseFeatureDataAdapter);
 
-exports["default"] = SNPCoverageAdapter;
+exports.default = SNPCoverageAdapter;
 var capabilities = SNPCoverageAdapter.capabilities;
 exports.capabilities = capabilities;

package/dist/SNPCoverageAdapter/configSchema.js

@@ -3,7 +3,7 @@
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _configuration = require("@jbrowse/core/configuration");
 
@@ -19,4 +19,4 @@ var _default = function _default(pluginManager) {
   });
 };
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/SNPCoverageAdapter/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 _typeof2 = _interopRequireDefault(require("@babel/runtime/helpers/typeof"));
 
@@ -17,11 +17,11 @@ var _SNPCoverageAdapter = require("./SNPCoverageAdapter");
 
 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 || (0, _typeof2["default"])(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 || (0, _typeof2.default)(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 _default = function _default(pluginManager) {
   pluginManager.addAdapterType(function () {
-    return new _AdapterType["default"]({
+    return new _AdapterType.default({
       name: 'SNPCoverageAdapter',
       adapterMetadata: {
         category: null,
@@ -33,13 +33,13 @@ var _default = function _default(pluginManager) {
         return Promise.resolve().then(function () {
           return _interopRequireWildcard(require('./SNPCoverageAdapter'));
         }).then(function (r) {
-          return r["default"];
+          return r.default;
         });
       },
-      configSchema: (0, _configSchema["default"])(pluginManager),
+      configSchema: (0, _configSchema.default)(pluginManager),
       adapterCapabilities: _SNPCoverageAdapter.capabilities
     });
   });
 };
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/SNPCoverageRenderer/SNPCoverageRenderer.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 _toConsumableArray2 = _interopRequireDefault(require("@babel/runtime/helpers/toConsumableArray"));
 
@@ -33,23 +33,23 @@ var _pluginWiggle = require("@jbrowse/plugin-wiggle");
 
 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 _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2["default"])(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2["default"])(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2["default"])(this, result); }; }
+function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
 
 function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
 
 var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
-  (0, _inherits2["default"])(SNPCoverageRenderer, _WiggleBaseRenderer);
+  (0, _inherits2.default)(SNPCoverageRenderer, _WiggleBaseRenderer);
 
   var _super = _createSuper(SNPCoverageRenderer);
 
   function SNPCoverageRenderer() {
-    (0, _classCallCheck2["default"])(this, SNPCoverageRenderer);
+    (0, _classCallCheck2.default)(this, SNPCoverageRenderer);
     return _super.apply(this, arguments);
   }
 
-  (0, _createClass2["default"])(SNPCoverageRenderer, [{
+  (0, _createClass2.default)(SNPCoverageRenderer, [{
     key: "draw",
     value: // note: the snps are drawn on linear scale even if the data is drawn in log
     // scape hence the two different scales being used
@@ -67,7 +67,7 @@ var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
           ticks = props.ticks;
       var theme = (0, _ui.createJBrowseTheme)(configTheme);
 
-      var _regions = (0, _slicedToArray2["default"])(regions, 1),
+      var _regions = (0, _slicedToArray2.default)(regions, 1),
           region = _regions[0];
 
       var width = (region.end - region.start) / bpPerPx; // the adjusted height takes into account YSCALEBAR_LABEL_OFFSET from the
@@ -127,7 +127,7 @@ var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
         unmeth: 'blue',
         ref: 'lightgrey'
       };
-      var feats = (0, _toConsumableArray2["default"])(features.values());
+      var feats = (0, _toConsumableArray2.default)(features.values());
       var coverage = feats.filter(function (f) {
         return f.get('type') !== 'skip';
       });
@@ -142,7 +142,7 @@ var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
         var feature = coverage[i];
 
         var _featureSpanPx = (0, _util.featureSpanPx)(feature, region, bpPerPx),
-            _featureSpanPx2 = (0, _slicedToArray2["default"])(_featureSpanPx, 2),
+            _featureSpanPx2 = (0, _slicedToArray2.default)(_featureSpanPx, 2),
             leftPx = _featureSpanPx2[0],
             rightPx = _featureSpanPx2[1];
 
@@ -167,7 +167,7 @@ var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
         var _feature = coverage[_i];
 
         var _featureSpanPx3 = (0, _util.featureSpanPx)(_feature, region, bpPerPx),
-            _featureSpanPx4 = (0, _slicedToArray2["default"])(_featureSpanPx3, 2),
+            _featureSpanPx4 = (0, _slicedToArray2.default)(_featureSpanPx3, 2),
             _leftPx = _featureSpanPx4[0],
             _rightPx = _featureSpanPx4[1];
 
@@ -248,7 +248,7 @@ var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
           var f = skips[_i5];
 
           var _bpSpanPx = (0, _util.bpSpanPx)(f.get('start'), f.get('end'), region, bpPerPx),
-              _bpSpanPx2 = (0, _slicedToArray2["default"])(_bpSpanPx, 2),
+              _bpSpanPx2 = (0, _slicedToArray2.default)(_bpSpanPx, 2),
               left = _bpSpanPx2[0],
               right = _bpSpanPx2[1];
 
@@ -293,4 +293,4 @@ var SNPCoverageRenderer = /*#__PURE__*/function (_WiggleBaseRenderer) {
   return SNPCoverageRenderer;
 }(_pluginWiggle.WiggleBaseRenderer);
 
-exports["default"] = SNPCoverageRenderer;
+exports.default = SNPCoverageRenderer;

package/dist/SNPCoverageRenderer/configSchema.js

@@ -3,7 +3,7 @@
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _configuration = require("@jbrowse/core/configuration");
 
@@ -37,4 +37,4 @@ var _default = (0, _configuration.ConfigurationSchema)('SNPCoverageRenderer', {
   explicitlyTyped: true
 });
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/SNPCoverageRenderer/index.js

@@ -6,7 +6,7 @@ Object.defineProperty(exports, "__esModule", {
   value: true
 });
 exports.configSchema = void 0;
-exports["default"] = register;
+exports.default = register;
 
 var _configuration = require("@jbrowse/core/configuration");
 
@@ -17,14 +17,14 @@ var _SNPCoverageRenderer = _interopRequireDefault(require("./SNPCoverageRenderer
 var _pluginWiggle = require("@jbrowse/plugin-wiggle");
 
 var configSchema = (0, _configuration.ConfigurationSchema)('SNPCoverageRenderer', {}, {
-  baseConfiguration: _configSchema["default"],
+  baseConfiguration: _configSchema.default,
   explicitlyTyped: true
 });
 exports.configSchema = configSchema;
 
 function register(pluginManager) {
   pluginManager.addRendererType(function () {
-    return new _SNPCoverageRenderer["default"]({
+    return new _SNPCoverageRenderer.default({
       name: 'SNPCoverageRenderer',
       ReactComponent: _pluginWiggle.WiggleRendering,
       configSchema: configSchema,

package/dist/index.js

@@ -7,7 +7,7 @@ var _typeof = require("@babel/runtime/helpers/typeof");
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = exports.MismatchParser = void 0;
+exports.default = exports.MismatchParser = void 0;
 
 var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime/helpers/classCallCheck"));
 
@@ -57,36 +57,36 @@ var _tracks = require("@jbrowse/core/util/tracks");
 
 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 _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2["default"])(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2["default"])(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2["default"])(this, result); }; }
+function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
 
 function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
 
 var AlignmentsPlugin = /*#__PURE__*/function (_Plugin) {
-  (0, _inherits2["default"])(AlignmentsPlugin, _Plugin);
+  (0, _inherits2.default)(AlignmentsPlugin, _Plugin);
 
   var _super = _createSuper(AlignmentsPlugin);
 
   function AlignmentsPlugin() {
     var _this;
 
-    (0, _classCallCheck2["default"])(this, AlignmentsPlugin);
+    (0, _classCallCheck2.default)(this, AlignmentsPlugin);
 
     for (var _len = arguments.length, args = new Array(_len), _key = 0; _key < _len; _key++) {
       args[_key] = arguments[_key];
     }
 
     _this = _super.call.apply(_super, [this].concat(args));
-    (0, _defineProperty2["default"])((0, _assertThisInitialized2["default"])(_this), "name", 'AlignmentsPlugin');
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "name", 'AlignmentsPlugin');
     return _this;
   }
 
-  (0, _createClass2["default"])(AlignmentsPlugin, [{
+  (0, _createClass2.default)(AlignmentsPlugin, [{
     key: "install",
     value: function install(pluginManager) {
       ;
-      [_BamAdapter["default"], _CramAdapter["default"], _LinearPileupDisplay["default"], _LinearSNPCoverageDisplay["default"], _AlignmentsTrack["default"], _SNPCoverageAdapter["default"], _HtsgetBamAdapter["default"], _PileupRenderer["default"], _SNPCoverageRenderer["default"], _LinearAlignmentsDisplay["default"], _AlignmentsFeatureDetail["default"]].map(function (f) {
+      [_BamAdapter.default, _CramAdapter.default, _LinearPileupDisplay.default, _LinearSNPCoverageDisplay.default, _AlignmentsTrack.default, _SNPCoverageAdapter.default, _HtsgetBamAdapter.default, _PileupRenderer.default, _SNPCoverageRenderer.default, _LinearAlignmentsDisplay.default, _AlignmentsFeatureDetail.default].map(function (f) {
         return f(pluginManager);
       });
       pluginManager.addToExtensionPoint('Core-guessAdapterForLocation', function (adapterGuesser) {
@@ -151,6 +151,6 @@ var AlignmentsPlugin = /*#__PURE__*/function (_Plugin) {
     }
   }]);
   return AlignmentsPlugin;
-}(_Plugin2["default"]);
+}(_Plugin2.default);
 
-exports["default"] = AlignmentsPlugin;
+exports.default = AlignmentsPlugin;

package/dist/index.test.js

@@ -12,11 +12,11 @@ var _ = _interopRequireDefault(require("."));
 
 test('plugin in a stock JBrowse', function () {
   console.warn = jest.fn();
-  var pluginManager = new _PluginManager["default"]([new _["default"](), new _pluginSvg["default"]()]);
+  var pluginManager = new _PluginManager.default([new _.default(), new _pluginSvg.default()]);
   pluginManager.createPluggableElements();
   pluginManager.configure();
   expect(function () {
-    return pluginManager.addPlugin(new _["default"]());
+    return pluginManager.addPlugin(new _.default());
   }).toThrow(/JBrowse already configured, cannot add plugins/);
   var BamAdapter = pluginManager.getAdapterType('BamAdapter');
   var config = BamAdapter.configSchema.create({

package/dist/shared.js

@@ -20,17 +20,17 @@ var _tracks = require("@jbrowse/core/util/tracks");
 
 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 getUniqueTagValues(_x, _x2, _x3, _x4) {
   return _getUniqueTagValues.apply(this, arguments);
 }
 
 function _getUniqueTagValues() {
-  _getUniqueTagValues = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee(self, colorScheme, blocks, opts) {
+  _getUniqueTagValues = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(self, colorScheme, blocks, opts) {
     var _getSession, rpcManager, adapterConfig, sessionId, values;
 
-    return _regenerator["default"].wrap(function _callee$(_context) {
+    return _regenerator.default.wrap(function _callee$(_context) {
       while (1) {
         switch (_context.prev = _context.next) {
           case 0:
@@ -64,10 +64,10 @@ function getUniqueModificationValues(_x5, _x6, _x7, _x8, _x9) {
 }
 
 function _getUniqueModificationValues() {
-  _getUniqueModificationValues = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee2(self, adapterConfig, colorScheme, blocks, opts) {
+  _getUniqueModificationValues = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(self, adapterConfig, colorScheme, blocks, opts) {
     var _getSession2, rpcManager, sessionId, values;
 
-    return _regenerator["default"].wrap(function _callee2$(_context2) {
+    return _regenerator.default.wrap(function _callee2$(_context2) {
       while (1) {
         switch (_context2.prev = _context2.next) {
           case 0: