@jbrowse/plugin-sequence 1.7.0 → 1.7.4

package/dist/DivSequenceRenderer/components/DivSequenceRendering.test.js

@@ -30,25 +30,25 @@ var _DivSequenceRendering = _interopRequireDefault(require("./DivSequenceRenderi
 
 var _configSchema = _interopRequireDefault(require("../configSchema"));
 
-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; } }
 
 function Rendering(props) {
-  return /*#__PURE__*/_react["default"].createElement(_core.ThemeProvider, {
+  return /*#__PURE__*/_react.default.createElement(_core.ThemeProvider, {
     theme: (0, _ui.createJBrowseTheme)()
-  }, /*#__PURE__*/_react["default"].createElement(_DivSequenceRendering["default"], props));
+  }, /*#__PURE__*/_react.default.createElement(_DivSequenceRendering.default, props));
 }
 
 var ErrorCatcher = /*#__PURE__*/function (_React$Component) {
-  (0, _inherits2["default"])(ErrorCatcher, _React$Component);
+  (0, _inherits2.default)(ErrorCatcher, _React$Component);
 
   var _super = _createSuper(ErrorCatcher);
 
   function ErrorCatcher(props) {
     var _this;
 
-    (0, _classCallCheck2["default"])(this, ErrorCatcher);
+    (0, _classCallCheck2.default)(this, ErrorCatcher);
     _this = _super.call(this, props);
     _this.state = {
       hasError: false,
@@ -57,7 +57,7 @@ var ErrorCatcher = /*#__PURE__*/function (_React$Component) {
     return _this;
   }
 
-  (0, _createClass2["default"])(ErrorCatcher, [{
+  (0, _createClass2.default)(ErrorCatcher, [{
     key: "render",
     value: function render() {
       var _this$state = this.state,
@@ -66,7 +66,7 @@ var ErrorCatcher = /*#__PURE__*/function (_React$Component) {
 
       if (hasError) {
         // You can render any custom fallback UI
-        return /*#__PURE__*/_react["default"].createElement("h1", {
+        return /*#__PURE__*/_react.default.createElement("h1", {
           className: "error"
         }, errorText);
       }
@@ -85,10 +85,10 @@ var ErrorCatcher = /*#__PURE__*/function (_React$Component) {
     }
   }]);
   return ErrorCatcher;
-}(_react["default"].Component);
+}(_react.default.Component);
 
 ErrorCatcher.propTypes = {
-  children: _propTypes["default"].node.isRequired
+  children: _propTypes.default.node.isRequired
 };
 describe('<DivSequenceRendering />', function () {
   // This just keeps our testing logs clean by not displaying `console.error`s
@@ -113,7 +113,7 @@ describe('<DivSequenceRendering />', function () {
     console.error = originalError;
   });
   it('renders with no features', function () {
-    var _render = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(Rendering, {
+    var _render = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(Rendering, {
       width: 500,
       height: 500,
       regions: [{
@@ -121,11 +121,11 @@ describe('<DivSequenceRendering />', function () {
         start: 0,
         end: 300
       }],
-      layout: new _PrecomputedLayout["default"]({
+      layout: new _PrecomputedLayout.default({
         rectangles: {},
         totalHeight: 20
       }),
-      config: _configSchema["default"].create(),
+      config: _configSchema.default.create(),
       bpPerPx: 3
     })),
         container = _render.container;
@@ -133,7 +133,7 @@ describe('<DivSequenceRendering />', function () {
     expect(container).toMatchSnapshot();
   });
   it('renders with one, zoomed way out', function () {
-    var _render2 = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(Rendering, {
+    var _render2 = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(Rendering, {
       width: 500,
       height: 500,
       regions: [{
@@ -141,13 +141,13 @@ describe('<DivSequenceRendering />', function () {
         start: 0,
         end: 1000
       }],
-      features: new Map([['one', new _simpleFeature["default"]({
+      features: new Map([['one', new _simpleFeature.default({
         uniqueId: 'one',
         start: 1,
         end: 3,
         seq: 'AB'
       })]]),
-      config: _configSchema["default"].create({}),
+      config: _configSchema.default.create({}),
       bpPerPx: 3
     })),
         container = _render2.container;
@@ -155,7 +155,7 @@ describe('<DivSequenceRendering />', function () {
     expect(container).toMatchSnapshot();
   });
   it('renders with one feature with no seq, zoomed in, should throw', function () {
-    var _render3 = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(ErrorCatcher, null, /*#__PURE__*/_react["default"].createElement(Rendering, {
+    var _render3 = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(ErrorCatcher, null, /*#__PURE__*/_react.default.createElement(Rendering, {
       width: 500,
       height: 500,
       regions: [{
@@ -163,12 +163,12 @@ describe('<DivSequenceRendering />', function () {
         start: 0,
         end: 1000
       }],
-      features: new Map([['one', new _simpleFeature["default"]({
+      features: new Map([['one', new _simpleFeature.default({
         uniqueId: 'one',
         start: 1,
         end: 3
       })]]),
-      config: _configSchema["default"].create({}),
+      config: _configSchema.default.create({}),
       bpPerPx: 0.05
     }))),
         container = _render3.container;
@@ -176,7 +176,7 @@ describe('<DivSequenceRendering />', function () {
     expect(container).toMatchSnapshot();
   });
   it('renders with one feature with an incorrect seq, zoomed in, should throw', function () {
-    var _render4 = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(ErrorCatcher, null, /*#__PURE__*/_react["default"].createElement(Rendering, {
+    var _render4 = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(ErrorCatcher, null, /*#__PURE__*/_react.default.createElement(Rendering, {
       width: 500,
       height: 500,
       regions: [{
@@ -184,13 +184,13 @@ describe('<DivSequenceRendering />', function () {
         start: 0,
         end: 1000
       }],
-      features: new Map([['one', new _simpleFeature["default"]({
+      features: new Map([['one', new _simpleFeature.default({
         uniqueId: 'one',
         start: 1,
         end: 3,
         seq: 'ABC'
       })]]),
-      config: _configSchema["default"].create({}),
+      config: _configSchema.default.create({}),
       bpPerPx: 0.05
     }))),
         container = _render4.container;
@@ -198,7 +198,7 @@ describe('<DivSequenceRendering />', function () {
     expect(container).toMatchSnapshot();
   });
   it('renders with one feature with a correct seq, zoomed in, should render nicely', function () {
-    var _render5 = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(Rendering, {
+    var _render5 = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(Rendering, {
       width: 500,
       height: 500,
       regions: [{
@@ -206,13 +206,13 @@ describe('<DivSequenceRendering />', function () {
         start: 0,
         end: 1000
       }],
-      features: new Map([['one', new _simpleFeature["default"]({
+      features: new Map([['one', new _simpleFeature.default({
         uniqueId: 'one',
         start: 1,
         end: 10,
         seq: 'ABCDEFGHI'
       })]]),
-      config: _configSchema["default"].create({}),
+      config: _configSchema.default.create({}),
       bpPerPx: 0.05
     })),
         container = _render5.container;
@@ -220,7 +220,7 @@ describe('<DivSequenceRendering />', function () {
     expect(container).toMatchSnapshot();
   });
   it('renders with one feature reversed with a correct seq, zoomed in, should render nicely', function () {
-    var _render6 = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(Rendering, {
+    var _render6 = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(Rendering, {
       width: 500,
       height: 500,
       regions: [{
@@ -229,13 +229,13 @@ describe('<DivSequenceRendering />', function () {
         end: 1000,
         reversed: true
       }],
-      features: new Map([['one', new _simpleFeature["default"]({
+      features: new Map([['one', new _simpleFeature.default({
         uniqueId: 'one',
         start: 1,
         end: 10,
         seq: 'ABCDEFGHI'
       })]]),
-      config: _configSchema["default"].create({}),
+      config: _configSchema.default.create({}),
       bpPerPx: 0.05
     })),
         container = _render6.container;

package/dist/DivSequenceRenderer/configSchema.d.ts

@@ -1,2 +1,2 @@
-declare const _default: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-export default _default;
+declare const _default: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export default _default;

package/dist/DivSequenceRenderer/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");
 
@@ -17,4 +17,4 @@ var _default = (0, _configuration.ConfigurationSchema)('DivSequenceRenderer', {
   explicitlyTyped: true
 });
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/DivSequenceRenderer/index.d.ts

@@ -1,2 +1,2 @@
-export { default as ReactComponent } from './components/DivSequenceRendering';
-export { default as configSchema } from './configSchema';
+export { default as ReactComponent } from './components/DivSequenceRendering';
+export { default as configSchema } from './configSchema';

package/dist/DivSequenceRenderer/index.js

@@ -8,13 +8,13 @@ Object.defineProperty(exports, "__esModule", {
 Object.defineProperty(exports, "ReactComponent", {
   enumerable: true,
   get: function get() {
-    return _DivSequenceRendering["default"];
+    return _DivSequenceRendering.default;
   }
 });
 Object.defineProperty(exports, "configSchema", {
   enumerable: true,
   get: function get() {
-    return _configSchema["default"];
+    return _configSchema.default;
   }
 });
 

package/dist/GCContentAdapter/GCContentAdapter.d.ts

@@ -1,23 +1,23 @@
-import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import { Region } from '@jbrowse/core/util/types';
-import { Feature } from '@jbrowse/core/util/simpleFeature';
-export default class extends BaseFeatureDataAdapter {
-    private windowSize;
-    private windowDelta;
-    private gcMode;
-    static capabilities: string[];
-    configure(): Promise<BaseFeatureDataAdapter>;
-    getRefNames(): Promise<string[]>;
-    /**
-     * Fetch features for a certain region
-     * @param param -
-     * @returns Observable of Feature objects in the region
-     */
-    getFeatures(query: Region, opts: BaseOptions): import("rxjs").Observable<Feature>;
-    /**
-     * called to provide a hint that data tied to a certain region
-     * will not be needed for the forseeable future and can be purged
-     * from caches, etc
-     */
-    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';
+export default class extends BaseFeatureDataAdapter {
+    private windowSize;
+    private windowDelta;
+    private gcMode;
+    static capabilities: string[];
+    configure(): Promise<BaseFeatureDataAdapter>;
+    getRefNames(): Promise<string[]>;
+    /**
+     * Fetch features for a certain region
+     * @param param -
+     * @returns Observable of Feature objects in the region
+     */
+    getFeatures(query: Region, opts: BaseOptions): import("rxjs").Observable<Feature>;
+    /**
+     * called to provide a hint that data tied to a certain region
+     * will not be needed for the forseeable future and can be purged
+     * from caches, etc
+     */
+    freeResources(): void;
+}

package/dist/GCContentAdapter/GCContentAdapter.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 _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
 
@@ -37,41 +37,41 @@ var _operators = require("rxjs/operators");
 
 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 _default = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
-  (0, _inherits2["default"])(_default, _BaseFeatureDataAdapt);
+  (0, _inherits2.default)(_default, _BaseFeatureDataAdapt);
 
   var _super = _createSuper(_default);
 
   function _default() {
     var _this;
 
-    (0, _classCallCheck2["default"])(this, _default);
+    (0, _classCallCheck2.default)(this, _default);
 
     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), "windowSize", 1000);
-    (0, _defineProperty2["default"])((0, _assertThisInitialized2["default"])(_this), "windowDelta", 1000);
-    (0, _defineProperty2["default"])((0, _assertThisInitialized2["default"])(_this), "gcMode", 'content');
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "windowSize", 1000);
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "windowDelta", 1000);
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "gcMode", 'content');
     return _this;
   }
 
-  (0, _createClass2["default"])(_default, [{
+  (0, _createClass2.default)(_default, [{
     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;
 
         var sequenceAdapter, dataAdapter;
-        return _regenerator["default"].wrap(function _callee$(_context) {
+        return _regenerator.default.wrap(function _callee$(_context) {
           while (1) {
             switch (_context.prev = _context.next) {
               case 0:
@@ -110,9 +110,9 @@ var _default = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "getRefNames",
     value: function () {
-      var _getRefNames = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee2() {
+      var _getRefNames = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2() {
         var sequenceAdapter;
-        return _regenerator["default"].wrap(function _callee2$(_context2) {
+        return _regenerator.default.wrap(function _callee2$(_context2) {
           while (1) {
             switch (_context2.prev = _context2.next) {
               case 0:
@@ -152,11 +152,11 @@ var _default = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
       this.windowDelta = 1000;
       this.gcMode = 'content';
       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 _feats$;
 
           var sequenceAdapter, hw, f, queryStart, queryEnd, ret, feats, residues, i, r, nc, ng, len, j, pos, score;
-          return _regenerator["default"].wrap(function _callee3$(_context3) {
+          return _regenerator.default.wrap(function _callee3$(_context3) {
             while (1) {
               switch (_context3.prev = _context3.next) {
                 case 0:
@@ -219,7 +219,7 @@ var _default = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
                       score = (ng - nc) / (ng + nc || 1);
                     }
 
-                    observer.next(new _simpleFeature["default"]({
+                    observer.next(new _simpleFeature.default({
                       uniqueId: "".concat(_this2.id, "_").concat(pos + i),
                       start: pos + i,
                       end: pos + i + _this2.windowDelta,
@@ -257,5 +257,5 @@ var _default = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   return _default;
 }(_BaseAdapter.BaseFeatureDataAdapter);
 
-exports["default"] = _default;
-(0, _defineProperty2["default"])(_default, "capabilities", ['hasLocalStats']);
+exports.default = _default;
+(0, _defineProperty2.default)(_default, "capabilities", ['hasLocalStats']);

package/dist/GCContentAdapter/configSchema.d.ts

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

package/dist/GCContentAdapter/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");
 
@@ -15,4 +15,4 @@ var _default = function _default(pluginManager) {
   });
 };
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/GCContentAdapter/index.d.ts

@@ -1,6 +1,6 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => {
-    configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-    getAdapterClass: () => Promise<typeof import("./GCContentAdapter").default>;
-};
-export default _default;
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => {
+    configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+    getAdapterClass: () => Promise<typeof import("./GCContentAdapter").default>;
+};
+export default _default;

package/dist/GCContentAdapter/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"));
 
@@ -13,19 +13,19 @@ var _configSchema = _interopRequireDefault(require("./configSchema"));
 
 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) {
   return {
-    configSchema: pluginManager.load(_configSchema["default"]),
+    configSchema: pluginManager.load(_configSchema.default),
     getAdapterClass: function getAdapterClass() {
       return Promise.resolve().then(function () {
         return _interopRequireWildcard(require('./GCContentAdapter'));
       }).then(function (r) {
-        return r["default"];
+        return r.default;
       });
     }
   };
 };
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/IndexedFastaAdapter/IndexedFastaAdapter.d.ts

@@ -1,25 +1,25 @@
-import { IndexedFasta } from '@gmod/indexedfasta';
-import { BaseSequenceAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import { NoAssemblyRegion } from '@jbrowse/core/util/types';
-import { Feature } from '@jbrowse/core/util/simpleFeature';
-import { AnyConfigurationModel } from '@jbrowse/core/configuration/configurationSchema';
-import PluginManager from '@jbrowse/core/PluginManager';
-import { getSubAdapterType } from '@jbrowse/core/data_adapters/dataAdapterCache';
-export default class extends BaseSequenceAdapter {
-    protected fasta: IndexedFasta;
-    private seqCache;
-    constructor(config: AnyConfigurationModel, getSubAdapter?: getSubAdapterType, pluginManager?: PluginManager);
-    getRefNames(opts?: BaseOptions): Promise<string[]>;
-    getRegions(opts?: BaseOptions): Promise<{
-        refName: string;
-        start: number;
-        end: number;
-    }[]>;
-    getFeatures(region: NoAssemblyRegion, opts?: BaseOptions): import("rxjs").Observable<Feature>;
-    /**
-     * called to provide a hint that data tied to a certain region
-     * will not be needed for the forseeable future and can be purged
-     * from caches, etc
-     */
-    freeResources(): void;
-}
+import { IndexedFasta } from '@gmod/indexedfasta';
+import { BaseSequenceAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
+import { NoAssemblyRegion } from '@jbrowse/core/util/types';
+import { Feature } from '@jbrowse/core/util/simpleFeature';
+import { AnyConfigurationModel } from '@jbrowse/core/configuration/configurationSchema';
+import PluginManager from '@jbrowse/core/PluginManager';
+import { getSubAdapterType } from '@jbrowse/core/data_adapters/dataAdapterCache';
+export default class extends BaseSequenceAdapter {
+    protected fasta: IndexedFasta;
+    private seqCache;
+    constructor(config: AnyConfigurationModel, getSubAdapter?: getSubAdapterType, pluginManager?: PluginManager);
+    getRefNames(opts?: BaseOptions): Promise<string[]>;
+    getRegions(opts?: BaseOptions): Promise<{
+        refName: string;
+        start: number;
+        end: number;
+    }[]>;
+    getFeatures(region: NoAssemblyRegion, opts?: BaseOptions): import("rxjs").Observable<Feature>;
+    /**
+     * called to provide a hint that data tied to a certain region
+     * will not be needed for the forseeable future and can be purged
+     * from caches, etc
+     */
+    freeResources(): void;
+}

package/dist/IndexedFastaAdapter/IndexedFastaAdapter.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 _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
 
@@ -43,31 +43,31 @@ var _QuickLRU = _interopRequireDefault(require("@jbrowse/core/util/QuickLRU"));
 
 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 _default = /*#__PURE__*/function (_BaseSequenceAdapter) {
-  (0, _inherits2["default"])(_default, _BaseSequenceAdapter);
+  (0, _inherits2.default)(_default, _BaseSequenceAdapter);
 
   var _super = _createSuper(_default);
 
   function _default(config, getSubAdapter, pluginManager) {
     var _this;
 
-    (0, _classCallCheck2["default"])(this, _default);
+    (0, _classCallCheck2.default)(this, _default);
     _this = _super.call(this, config, getSubAdapter, pluginManager);
-    (0, _defineProperty2["default"])((0, _assertThisInitialized2["default"])(_this), "fasta", void 0);
-    (0, _defineProperty2["default"])((0, _assertThisInitialized2["default"])(_this), "seqCache", new _abortablePromiseCache["default"]({
-      cache: new _QuickLRU["default"]({
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "fasta", void 0);
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "seqCache", new _abortablePromiseCache.default({
+      cache: new _QuickLRU.default({
         maxSize: 200
       }),
       fill: function () {
-        var _fill = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee(args, signal) {
+        var _fill = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(args, signal) {
           var refName, start, end;
-          return _regenerator["default"].wrap(function _callee$(_context) {
+          return _regenerator.default.wrap(function _callee$(_context) {
             while (1) {
               switch (_context.prev = _context.next) {
                 case 0:
@@ -101,7 +101,7 @@ var _default = /*#__PURE__*/function (_BaseSequenceAdapter) {
     return _this;
   }
 
-  (0, _createClass2["default"])(_default, [{
+  (0, _createClass2.default)(_default, [{
     key: "getRefNames",
     value: function getRefNames(opts) {
       return this.fasta.getSequenceNames(opts);
@@ -109,9 +109,9 @@ var _default = /*#__PURE__*/function (_BaseSequenceAdapter) {
   }, {
     key: "getRegions",
     value: function () {
-      var _getRegions = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee2(opts) {
+      var _getRegions = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(opts) {
         var seqSizes;
-        return _regenerator["default"].wrap(function _callee2$(_context2) {
+        return _regenerator.default.wrap(function _callee2$(_context2) {
           while (1) {
             switch (_context2.prev = _context2.next) {
               case 0:
@@ -151,9 +151,9 @@ var _default = /*#__PURE__*/function (_BaseSequenceAdapter) {
           start = region.start,
           end = region.end;
       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 size, regionEnd, chunks, chunkSize, s, e, chunkStart, r, seq;
-          return _regenerator["default"].wrap(function _callee3$(_context3) {
+          return _regenerator.default.wrap(function _callee3$(_context3) {
             while (1) {
               switch (_context3.prev = _context3.next) {
                 case 0:
@@ -184,7 +184,7 @@ var _default = /*#__PURE__*/function (_BaseSequenceAdapter) {
                   seq = _context3.sent.join('').slice(start - s).slice(0, end - start);
 
                   if (seq) {
-                    observer.next(new _simpleFeature["default"]({
+                    observer.next(new _simpleFeature.default({
                       id: "".concat(refName, " ").concat(start, "-").concat(regionEnd),
                       data: {
                         refName: refName,
@@ -225,4 +225,4 @@ var _default = /*#__PURE__*/function (_BaseSequenceAdapter) {
   return _default;
 }(_BaseAdapter.BaseSequenceAdapter);
 
-exports["default"] = _default;
+exports.default = _default;