@jbrowse/plugin-alignments 1.7.0 → 1.7.4

package/dist/LinearPileupDisplay/components/SortByTag.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"));
 
@@ -21,7 +21,7 @@ var _Close = _interopRequireDefault(require("@material-ui/icons/Close"));
 
 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; }
 
 var useStyles = (0, _core.makeStyles)(function (theme) {
   return {
@@ -44,21 +44,21 @@ function SortByTagDlg(props) {
       handleClose = props.handleClose;
 
   var _useState = (0, _react.useState)(''),
-      _useState2 = (0, _slicedToArray2["default"])(_useState, 2),
+      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
       tag = _useState2[0],
       setTag = _useState2[1];
 
   var validTag = tag.match(/^[A-Za-z][A-Za-z0-9]$/);
-  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, "Sort by tag", /*#__PURE__*/_react["default"].createElement(_core.IconButton, {
+  }, /*#__PURE__*/_react.default.createElement(_core.DialogTitle, null, "Sort by tag", /*#__PURE__*/_react.default.createElement(_core.IconButton, {
     "aria-label": "close",
     className: classes.closeButton,
     onClick: handleClose
-  }, /*#__PURE__*/_react["default"].createElement(_Close["default"], null))), /*#__PURE__*/_react["default"].createElement(_core.DialogContent, null, /*#__PURE__*/_react["default"].createElement(_core.Typography, null, "Set the tag to sort by"), /*#__PURE__*/_react["default"].createElement(_core.Typography, {
+  }, /*#__PURE__*/_react.default.createElement(_Close.default, null))), /*#__PURE__*/_react.default.createElement(_core.DialogContent, null, /*#__PURE__*/_react.default.createElement(_core.Typography, null, "Set the tag to sort by"), /*#__PURE__*/_react.default.createElement(_core.Typography, {
     color: "textSecondary"
-  }, "Examples: HP for haplotype, RG for read group, etc."), /*#__PURE__*/_react["default"].createElement(_core.TextField, {
+  }, "Examples: HP for haplotype, RG for read group, etc."), /*#__PURE__*/_react.default.createElement(_core.TextField, {
     value: tag,
     onChange: function onChange(event) {
       return setTag(event.target.value);
@@ -72,7 +72,7 @@ function SortByTagDlg(props) {
     helperText: tag.length === 2 && !validTag ? 'Not a valid tag' : '',
     autoComplete: "off",
     "data-testid": "sort-tag-name"
-  }), /*#__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, {
     variant: "contained",
     color: "primary",
     type: "submit",
@@ -81,7 +81,7 @@ function SortByTagDlg(props) {
       model.setSortedBy('tag', tag);
       handleClose();
     }
-  }, "Submit"), /*#__PURE__*/_react["default"].createElement(_core.Button, {
+  }, "Submit"), /*#__PURE__*/_react.default.createElement(_core.Button, {
     variant: "contained",
     color: "secondary",
     onClick: function onClick() {
@@ -92,4 +92,4 @@ function SortByTagDlg(props) {
 
 var _default = (0, _mobxReact.observer)(SortByTagDlg);
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/LinearPileupDisplay/configSchema.d.ts

@@ -1,6 +1,6 @@
-import { Instance } from 'mobx-state-tree';
-import PluginManager from '@jbrowse/core/PluginManager';
-declare function PileupConfigFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-export declare type LinearPileupDisplayConfigModel = ReturnType<typeof PileupConfigFactory>;
-export declare type LinearPileupDisplayConfig = Instance<LinearPileupDisplayConfigModel>;
-export default PileupConfigFactory;
+import { Instance } from 'mobx-state-tree';
+import PluginManager from '@jbrowse/core/PluginManager';
+declare function PileupConfigFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export declare type LinearPileupDisplayConfigModel = ReturnType<typeof PileupConfigFactory>;
+export declare type LinearPileupDisplayConfig = Instance<LinearPileupDisplayConfigModel>;
+export default PileupConfigFactory;

package/dist/LinearPileupDisplay/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");
 
@@ -44,4 +44,4 @@ function PileupConfigFactory(pluginManager) {
 }
 
 var _default = PileupConfigFactory;
-exports["default"] = _default;
+exports.default = _default;

package/dist/LinearPileupDisplay/configSchema.test.js

@@ -24,7 +24,7 @@ var _PileupRenderer = _interopRequireDefault(require("../PileupRenderer"));
 
 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; } }
 
@@ -37,39 +37,39 @@ afterEach(function () {
 });
 
 var PileupRendererPlugin = /*#__PURE__*/function (_Plugin) {
-  (0, _inherits2["default"])(PileupRendererPlugin, _Plugin);
+  (0, _inherits2.default)(PileupRendererPlugin, _Plugin);
 
   var _super = _createSuper(PileupRendererPlugin);
 
   function PileupRendererPlugin() {
-    (0, _classCallCheck2["default"])(this, PileupRendererPlugin);
+    (0, _classCallCheck2.default)(this, PileupRendererPlugin);
     return _super.apply(this, arguments);
   }
 
-  (0, _createClass2["default"])(PileupRendererPlugin, [{
+  (0, _createClass2.default)(PileupRendererPlugin, [{
     key: "install",
     value: function install(pluginManager) {
-      (0, _PileupRenderer["default"])(pluginManager);
+      (0, _PileupRenderer.default)(pluginManager);
     }
   }]);
   return PileupRendererPlugin;
-}(_Plugin3["default"]);
+}(_Plugin3.default);
 
 var SvgFeatureRendererPlugin = /*#__PURE__*/function (_Plugin2) {
-  (0, _inherits2["default"])(SvgFeatureRendererPlugin, _Plugin2);
+  (0, _inherits2.default)(SvgFeatureRendererPlugin, _Plugin2);
 
   var _super2 = _createSuper(SvgFeatureRendererPlugin);
 
   function SvgFeatureRendererPlugin() {
-    (0, _classCallCheck2["default"])(this, SvgFeatureRendererPlugin);
+    (0, _classCallCheck2.default)(this, SvgFeatureRendererPlugin);
     return _super2.apply(this, arguments);
   }
 
-  (0, _createClass2["default"])(SvgFeatureRendererPlugin, [{
+  (0, _createClass2.default)(SvgFeatureRendererPlugin, [{
     key: "install",
     value: function install(pluginManager) {
       pluginManager.addRendererType(function () {
-        return new _BoxRendererType["default"]({
+        return new _BoxRendererType.default({
           name: 'SvgFeatureRenderer',
           ReactComponent: _pluginSvg.SvgFeatureRendererReactComponent,
           configSchema: _pluginSvg.svgFeatureRendererConfigSchema,
@@ -79,10 +79,10 @@ var SvgFeatureRendererPlugin = /*#__PURE__*/function (_Plugin2) {
     }
   }]);
   return SvgFeatureRendererPlugin;
-}(_Plugin3["default"]);
+}(_Plugin3.default);
 
 test('has a type attr', function () {
-  var configSchema = (0, _configSchema["default"])(new _PluginManager["default"]([new PileupRendererPlugin(), new SvgFeatureRendererPlugin()]).createPluggableElements().configure());
+  var configSchema = (0, _configSchema.default)(new _PluginManager.default([new PileupRendererPlugin(), new SvgFeatureRendererPlugin()]).createPluggableElements().configure());
   var config = configSchema.create({
     type: 'LinearPileupDisplay',
     displayId: 'display0',

package/dist/LinearPileupDisplay/index.d.ts

@@ -1,2 +1,2 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-export default function register(pluginManager: PluginManager): void;
+import PluginManager from '@jbrowse/core/PluginManager';
+export default function register(pluginManager: PluginManager): void;

package/dist/LinearPileupDisplay/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 _configSchema = _interopRequireDefault(require("./configSchema"));
 
@@ -17,11 +17,11 @@ var _pluginLinearGenomeView = require("@jbrowse/plugin-linear-genome-view");
 
 function register(pluginManager) {
   pluginManager.addDisplayType(function () {
-    var configSchema = (0, _configSchema["default"])(pluginManager);
-    return new _DisplayType["default"]({
+    var configSchema = (0, _configSchema.default)(pluginManager);
+    return new _DisplayType.default({
       name: 'LinearPileupDisplay',
       configSchema: configSchema,
-      stateModel: (0, _model["default"])(configSchema),
+      stateModel: (0, _model.default)(configSchema),
       trackType: 'AlignmentsTrack',
       viewType: 'LinearGenomeView',
       ReactComponent: _pluginLinearGenomeView.BaseLinearDisplayComponent