@jbrowse/plugin-data-management 1.7.11 → 2.1.0

package/dist/AddTrackWidget/components/AddTrackWidget.js

@@ -1,251 +1,56 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-var _typeof = require("@babel/runtime/helpers/typeof");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = void 0;
-
-var _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
-
-var _defineProperty2 = _interopRequireDefault(require("@babel/runtime/helpers/defineProperty"));
-
-var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime/helpers/asyncToGenerator"));
-
-var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime/helpers/slicedToArray"));
-
-var _react = _interopRequireWildcard(require("react"));
-
-var _core = require("@material-ui/core");
-
-var _util = require("@jbrowse/core/util");
-
-var _configuration = require("@jbrowse/core/configuration");
-
-var _mobxReact = require("mobx-react");
-
-var _mobxStateTree = require("mobx-state-tree");
-
-var _lab = require("@material-ui/lab");
-
-var _ConfirmTrack = _interopRequireDefault(require("./ConfirmTrack"));
-
-var _TrackSourceSelect = _interopRequireDefault(require("./TrackSourceSelect"));
-
-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 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; }
-
-var useStyles = (0, _core.makeStyles)(function (theme) {
-  return {
-    root: {
-      marginTop: theme.spacing(1)
-    },
-    stepper: {
-      backgroundColor: theme.palette.background.default
-    },
-    button: {
-      marginTop: theme.spacing(1),
-      marginRight: theme.spacing(1)
-    },
-    actionsContainer: {
-      marginBottom: theme.spacing(2)
-    },
-    stepContent: {
-      margin: theme.spacing(1)
-    },
-    alertContainer: {
-      padding: "".concat(theme.spacing(2), "px 0px ").concat(theme.spacing(2), "px 0px")
-    }
-  };
-});
-var steps = ['Enter track data', 'Confirm track type'];
-
-function AddTrackWidget(_ref) {
-  var model = _ref.model;
-
-  var _useState = (0, _react.useState)(0),
-      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
-      activeStep = _useState2[0],
-      setActiveStep = _useState2[1];
-
-  var classes = useStyles();
-  var session = (0, _util.getSession)(model);
-
-  var _getEnv = (0, _mobxStateTree.getEnv)(session),
-      pluginManager = _getEnv.pluginManager;
-
-  var rootModel = pluginManager.rootModel;
-  var jobsManager = rootModel.jobsManager;
-  var assembly = model.assembly,
-      trackAdapter = model.trackAdapter,
-      trackData = model.trackData,
-      trackName = model.trackName,
-      trackType = model.trackType,
-      textIndexTrack = model.textIndexTrack,
-      textIndexingConf = model.textIndexingConf;
-
-  var _useState3 = (0, _react.useState)(),
-      _useState4 = (0, _slicedToArray2.default)(_useState3, 2),
-      trackErrorMessage = _useState4[0],
-      setTrackErrorMessage = _useState4[1];
-
-  function getStepContent(step) {
-    switch (step) {
-      case 0:
-        return /*#__PURE__*/_react.default.createElement(_TrackSourceSelect.default, {
-          model: model
-        });
-
-      case 1:
-        return /*#__PURE__*/_react.default.createElement(_ConfirmTrack.default, {
-          model: model
-        });
-
-      default:
-        return /*#__PURE__*/_react.default.createElement(_core.Typography, null, "Unknown step");
+var __assign = (this && this.__assign) || function () {
+    __assign = Object.assign || function(t) {
+        for (var s, i = 1, n = arguments.length; i < n; i++) {
+            s = arguments[i];
+            for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p))
+                t[p] = s[p];
+        }
+        return t;
+    };
+    return __assign.apply(this, arguments);
+};
+var __read = (this && this.__read) || function (o, n) {
+    var m = typeof Symbol === "function" && o[Symbol.iterator];
+    if (!m) return o;
+    var i = m.call(o), r, ar = [], e;
+    try {
+        while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
     }
-  }
-
-  function handleNext() {
-    return _handleNext.apply(this, arguments);
-  }
-
-  function _handleNext() {
-    _handleNext = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee() {
-      var trackId, assemblyInstance, textSearchingDefault, attr, indexName, indexingParams, newEntry;
-      return _regenerator.default.wrap(function _callee$(_context) {
-        while (1) {
-          switch (_context.prev = _context.next) {
-            case 0:
-              if (!(activeStep !== steps.length - 1)) {
-                _context.next = 3;
-                break;
-              }
-
-              setActiveStep(activeStep + 1);
-              return _context.abrupt("return");
-
-            case 3:
-              trackId = "".concat(trackName.toLowerCase().replace(/ /g, '_'), "-").concat(Date.now()).concat(session.adminMode ? '' : '-sessionTrack');
-              assemblyInstance = session.assemblyManager.get(assembly);
-
-              if (trackAdapter && trackAdapter.type !== 'UNKNOWN') {
-                // @ts-ignore
-                session.addTrackConf({
-                  trackId: trackId,
-                  type: trackType,
-                  name: trackName,
-                  assemblyNames: [assembly],
-                  adapter: _objectSpread(_objectSpread({}, trackAdapter), {}, {
-                    sequenceAdapter: (0, _configuration.getConf)(assemblyInstance, ['sequence', 'adapter'])
-                  })
-                });
-                textSearchingDefault = {
-                  attributes: ['Name', 'ID'],
-                  exclude: ['CDS', 'exon']
-                };
-
-                if (model.view) {
-                  model.view.showTrack(trackId);
-
-                  if (_util.isElectron) {
-                    if (textIndexTrack && (0, _util.supportedIndexingAdapters)(trackAdapter.type)) {
-                      attr = textIndexingConf || textSearchingDefault;
-                      indexName = trackName + '-index';
-                      indexingParams = _objectSpread(_objectSpread({}, attr), {}, {
-                        assemblies: [assembly],
-                        tracks: [trackId],
-                        indexType: 'perTrack',
-                        name: indexName,
-                        timestamp: new Date().toISOString()
-                      });
-                      newEntry = {
-                        indexingParams: indexingParams,
-                        name: indexName,
-                        cancelCallback: function cancelCallback() {
-                          jobsManager.abortJob();
-                        }
-                      };
-                      jobsManager.queueJob(newEntry);
-                    }
-                  }
-                } else {
-                  session.notify('Open a new view, or use the track selector in an existing view, to view this track', 'info');
-                }
-
-                model.clearData(); // @ts-ignore
-
-                session.hideWidget(model);
-              } else {
-                setTrackErrorMessage('Failed to add track.\nThe configuration of this file is not currently supported.');
-              }
-
-            case 6:
-            case "end":
-              return _context.stop();
-          }
+    catch (error) { e = { error: error }; }
+    finally {
+        try {
+            if (r && !r.done && (m = i["return"])) m.call(i);
         }
-      }, _callee);
-    }));
-    return _handleNext.apply(this, arguments);
-  }
-
-  function handleBack() {
-    setTrackErrorMessage(undefined);
-    setActiveStep(activeStep - 1);
-  }
-
-  function isNextDisabled() {
-    switch (activeStep) {
-      case 0:
-        return !trackData;
-
-      case 1:
-        return !(trackName && trackType && trackAdapter !== null && trackAdapter !== void 0 && trackAdapter.type && assembly);
-
-      default:
-        return true;
+        finally { if (e) throw e.error; }
     }
-  }
-
-  return /*#__PURE__*/_react.default.createElement("div", {
-    className: classes.root
-  }, /*#__PURE__*/_react.default.createElement(_core.Stepper, {
-    className: classes.stepper,
-    activeStep: activeStep,
-    orientation: "vertical"
-  }, steps.map(function (label, idx) {
-    return /*#__PURE__*/_react.default.createElement(_core.Step, {
-      key: label
-    }, /*#__PURE__*/_react.default.createElement(_core.StepLabel, null, label), /*#__PURE__*/_react.default.createElement(_core.StepContent, null, getStepContent(idx), /*#__PURE__*/_react.default.createElement("div", {
-      className: classes.actionsContainer
-    }, /*#__PURE__*/_react.default.createElement(_core.Button, {
-      disabled: activeStep === 0,
-      onClick: handleBack,
-      className: classes.button
-    }, "Back"), /*#__PURE__*/_react.default.createElement(_core.Button, {
-      disabled: isNextDisabled(),
-      variant: "contained",
-      color: "primary",
-      onClick: handleNext,
-      className: classes.button,
-      "data-testid": "addTrackNextButton"
-    }, activeStep === steps.length - 1 ? 'Add' : 'Next')), trackErrorMessage ? /*#__PURE__*/_react.default.createElement("div", {
-      className: classes.alertContainer
-    }, /*#__PURE__*/_react.default.createElement(_lab.Alert, {
-      severity: "error"
-    }, trackErrorMessage)) : null));
-  })));
+    return ar;
+};
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+var react_1 = __importDefault(require("react"));
+var mobx_react_1 = require("mobx-react");
+var material_1 = require("@mui/material");
+var util_1 = require("@jbrowse/core/util");
+var mobx_state_tree_1 = require("mobx-state-tree");
+var DefaultAddTrackWorkflow_1 = __importDefault(require("./DefaultAddTrackWorkflow"));
+function AddTrackSelector(_a) {
+    var model = _a.model;
+    var _b = __read((0, util_1.useLocalStorage)('trackSelector-choice', 'Default'), 2), val = _b[0], setVal = _b[1];
+    var pluginManager = (0, mobx_state_tree_1.getEnv)(model).pluginManager;
+    var widgets = pluginManager.getElementTypesInGroup('add track workflow');
+    var ComponentMap = __assign({ Default: DefaultAddTrackWorkflow_1.default }, Object.fromEntries(widgets.map(function (w) { return [w.name, w.ReactComponent]; })));
+    // make sure the selected value is in the list
+    var val2 = ComponentMap[val] ? val : 'Default';
+    var Component = ComponentMap[val2];
+    return (react_1.default.createElement(react_1.default.Fragment, null,
+        react_1.default.createElement(material_1.FormControl, null,
+            react_1.default.createElement(material_1.Select, { value: val2, onChange: function (event) { return setVal(event.target.value); } }, Object.keys(ComponentMap).map(function (e) { return (react_1.default.createElement(material_1.MenuItem, { key: e, value: e }, e)); })),
+            react_1.default.createElement(material_1.FormHelperText, null, "Type of add track workflow")),
+        react_1.default.createElement("br", null),
+        react_1.default.createElement(Component, { model: model })));
 }
-
-var _default = (0, _mobxReact.observer)(AddTrackWidget);
-
-exports.default = _default;
+exports.default = (0, mobx_react_1.observer)(AddTrackSelector);
+//# sourceMappingURL=AddTrackWidget.js.map

package/dist/AddTrackWidget/components/AddTrackWidget.js.map

@@ -0,0 +1 @@
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