@jbrowse/plugin-data-management 1.7.11 → 2.0.0

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

@@ -0,0 +1 @@
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package/dist/AddTrackWidget/components/TrackSourceSelect.js

@@ -1,60 +1,33 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = void 0;
-
-var _react = _interopRequireDefault(require("react"));
-
-var _ui = require("@jbrowse/core/ui");
-
-var _core = require("@material-ui/core");
-
-var _mobxStateTree = require("mobx-state-tree");
-
-var _mobxReact = require("mobx-react");
-
-var useStyles = (0, _core.makeStyles)(function (theme) {
-  return {
+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 ui_1 = require("@jbrowse/core/ui");
+var material_1 = require("@mui/material");
+var mui_1 = require("tss-react/mui");
+var mobx_state_tree_1 = require("mobx-state-tree");
+var mobx_react_1 = require("mobx-react");
+var useStyles = (0, mui_1.makeStyles)()(function (theme) { return ({
     paper: {
-      display: 'flex',
-      flexDirection: 'column',
-      padding: theme.spacing(1)
+        display: 'flex',
+        flexDirection: 'column',
+        padding: theme.spacing(1),
     },
     spacer: {
-      height: theme.spacing(8)
-    }
-  };
-});
-
-function TrackSourceSelect(_ref) {
-  var model = _ref.model;
-  var classes = useStyles();
-  var rootModel = (0, _mobxStateTree.getRoot)(model);
-  return /*#__PURE__*/_react.default.createElement(_core.Paper, {
-    className: classes.paper
-  }, /*#__PURE__*/_react.default.createElement(_ui.FileSelector, {
-    name: "Main file",
-    description: "",
-    location: model.trackData,
-    setLocation: model.setTrackData,
-    setName: model.setTrackName,
-    rootModel: rootModel
-  }), /*#__PURE__*/_react.default.createElement("div", {
-    className: classes.spacer
-  }), /*#__PURE__*/_react.default.createElement(_ui.FileSelector, {
-    name: "Index file",
-    description: "(Optional) The URL of the index file is automatically inferred from the URL of the main file if it is not supplied.",
-    location: model.indexTrackData,
-    setLocation: model.setIndexTrackData,
-    setName: model.setTrackName,
-    rootModel: rootModel
-  }));
+        height: theme.spacing(8),
+    },
+}); });
+function TrackSourceSelect(_a) {
+    var model = _a.model;
+    var classes = useStyles().classes;
+    // eslint-disable-next-line @typescript-eslint/no-explicit-any
+    var rootModel = (0, mobx_state_tree_1.getRoot)(model);
+    return (react_1.default.createElement(material_1.Paper, { className: classes.paper },
+        react_1.default.createElement(ui_1.FileSelector, { name: "Main file", description: "", location: model.trackData, setLocation: model.setTrackData, setName: model.setTrackName, rootModel: rootModel }),
+        react_1.default.createElement("div", { className: classes.spacer }),
+        react_1.default.createElement(ui_1.FileSelector, { name: "Index file", description: "(Optional) The URL of the index file is automatically inferred from the URL of the main file if it is not supplied.", location: model.indexTrackData, setLocation: model.setIndexTrackData, setName: model.setTrackName, rootModel: rootModel })));
 }
-
-var _default = (0, _mobxReact.observer)(TrackSourceSelect);
-
-exports.default = _default;
+exports.default = (0, mobx_react_1.observer)(TrackSourceSelect);
+//# sourceMappingURL=TrackSourceSelect.js.map

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

@@ -0,0 +1 @@
+{"version":3,"file":"TrackSourceSelect.js","sourceRoot":"","sources":["../../../src/AddTrackWidget/components/TrackSourceSelect.tsx"],"names":[],"mappings":";;;;;AAAA,gDAAyB;AACzB,uCAA+C;AAC/C,0CAAqC;AACrC,qCAA0C;AAC1C,mDAAyC;AACzC,yCAAqC;AAKrC,IAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,UAAA,KAAK,IAAI,OAAA,CAAC;IACvC,KAAK,EAAE;QACL,OAAO,EAAE,MAAM;QACf,aAAa,EAAE,QAAQ;QACvB,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;IACD,MAAM,EAAE;QACN,MAAM,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KACzB;CACF,CAAC,EATsC,CAStC,CAAC,CAAA;AAEH,SAAS,iBAAiB,CAAC,EAAmC;QAAjC,KAAK,WAAA;IACxB,IAAA,OAAO,GAAK,SAAS,EAAE,QAAhB,CAAgB;IAC/B,8DAA8D;IAC9D,IAAM,SAAS,GAAG,IAAA,yBAAO,EAAM,KAAK,CAAC,CAAA;IAErC,OAAO,CACL,8BAAC,gBAAK,IAAC,SAAS,EAAE,OAAO,CAAC,KAAK;QAC7B,8BAAC,iBAAY,IACX,IAAI,EAAC,WAAW,EAChB,WAAW,EAAC,EAAE,EACd,QAAQ,EAAE,KAAK,CAAC,SAAS,EACzB,WAAW,EAAE,KAAK,CAAC,YAAY,EAC/B,OAAO,EAAE,KAAK,CAAC,YAAY,EAC3B,SAAS,EAAE,SAAS,GACpB;QACF,uCAAK,SAAS,EAAE,OAAO,CAAC,MAAM,GAAI;QAClC,8BAAC,iBAAY,IACX,IAAI,EAAC,YAAY,EACjB,WAAW,EAAC,qHAAqH,EACjI,QAAQ,EAAE,KAAK,CAAC,cAAc,EAC9B,WAAW,EAAE,KAAK,CAAC,iBAAiB,EACpC,OAAO,EAAE,KAAK,CAAC,YAAY,EAC3B,SAAS,EAAE,SAAS,GACpB,CACI,CACT,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,iBAAiB,CAAC,CAAA"}

package/dist/AddTrackWidget/index.js

@@ -1,21 +1,11 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.configSchema = void 0;
-Object.defineProperty(exports, "stateModelFactory", {
-  enumerable: true,
-  get: function get() {
-    return _model.default;
-  }
-});
-
-var _configuration = require("@jbrowse/core/configuration");
-
-var _model = _interopRequireDefault(require("./model"));
-
-var configSchema = (0, _configuration.ConfigurationSchema)('AddTrackWidget', {});
-exports.configSchema = configSchema;
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.configSchema = exports.stateModelFactory = void 0;
+var configuration_1 = require("@jbrowse/core/configuration");
+var model_1 = require("./model");
+Object.defineProperty(exports, "stateModelFactory", { enumerable: true, get: function () { return __importDefault(model_1).default; } });
+exports.configSchema = (0, configuration_1.ConfigurationSchema)('AddTrackWidget', {});
+//# sourceMappingURL=index.js.map

package/dist/AddTrackWidget/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/AddTrackWidget/index.js"],"names":[],"mappings":";;;;;;AAAA,6DAAiE;AAEjE,iCAAsD;AAA7C,2HAAA,OAAO,OAAqB;AACxB,QAAA,YAAY,GAAG,IAAA,mCAAmB,EAAC,gBAAgB,EAAE,EAAE,CAAC,CAAA"}

package/dist/AddTrackWidget/model.js

@@ -1,177 +1,153 @@
 "use strict";
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = f;
-
-var _mobxStateTree = require("mobx-state-tree");
-
-var _mst = require("@jbrowse/core/util/types/mst");
-
-var _tracks = require("@jbrowse/core/util/tracks");
-
-function isAbsoluteUrl() {
-  var url = arguments.length > 0 && arguments[0] !== undefined ? arguments[0] : '';
-
-  try {
-    new URL(url);
-    return true;
-  } catch (error) {
-    return url.startsWith('/');
-  }
+Object.defineProperty(exports, "__esModule", { value: true });
+var mobx_state_tree_1 = require("mobx-state-tree");
+var mst_1 = require("@jbrowse/core/util/types/mst");
+var tracks_1 = require("@jbrowse/core/util/tracks");
+function isAbsoluteUrl(url) {
+    if (url === void 0) { url = ''; }
+    try {
+        new URL(url);
+        return true;
+    }
+    catch (error) {
+        return url.startsWith('/');
+    }
 }
-
 function f(pluginManager) {
-  return _mobxStateTree.types.model('AddTrackModel', {
-    id: _mst.ElementId,
-    type: _mobxStateTree.types.literal('AddTrackWidget'),
-    view: _mobxStateTree.types.safeReference(pluginManager.pluggableMstType('view', 'stateModel'))
-  }).volatile(function () {
-    return {
-      trackSource: 'fromFile',
-      trackData: undefined,
-      indexTrackData: undefined,
-      // alts
-      altAssemblyName: '',
-      altTrackName: '',
-      altTrackType: '',
-      adapterHint: '',
-      textIndexTrack: true,
-      textIndexingConf: undefined
-    };
-  }).actions(function (self) {
-    return {
-      setAdapterHint: function setAdapterHint(obj) {
-        self.adapterHint = obj;
-      },
-      setTrackSource: function setTrackSource(str) {
-        self.trackSource = str;
-      },
-      setTextIndexingConf: function setTextIndexingConf(conf) {
-        self.textIndexingConf = conf;
-      },
-      setTextIndexTrack: function setTextIndexTrack(flag) {
-        self.textIndexTrack = flag;
-      },
-      setTrackData: function setTrackData(obj) {
-        self.trackData = obj;
-      },
-      setIndexTrackData: function setIndexTrackData(obj) {
-        self.indexTrackData = obj;
-      },
-      setAssembly: function setAssembly(str) {
-        self.altAssemblyName = str;
-      },
-      setTrackName: function setTrackName(str) {
-        self.altTrackName = str;
-      },
-      setTrackType: function setTrackType(str) {
-        self.altTrackType = str;
-      },
-      clearData: function clearData() {
-        self.trackSource = '';
-        self.altTrackName = '';
-        self.altTrackType = '';
-        self.altAssemblyName = '';
-        self.adapterHint = '';
-        self.indexTrackData = undefined;
-        self.trackData = undefined;
-        self.textIndexingConf = undefined;
-        self.textIndexTrack = true;
-      }
-    };
-  }).views(function (self) {
-    return {
-      get trackAdapter() {
-        var trackData = self.trackData,
-            indexTrackData = self.indexTrackData,
-            adapterHint = self.adapterHint;
-        return trackData ? (0, _tracks.guessAdapter)(trackData, indexTrackData, adapterHint, self) : undefined;
-      },
-
-      get trackName() {
-        return self.altTrackName || (self.trackData ? (0, _tracks.getFileName)(self.trackData) : '');
-      },
-
-      get isFtp() {
-        var _index$uri, _track$uri;
-
-        var track = self.trackData,
-            index = self.indexTrackData;
-        return !!( // @ts-ignore
-        index !== null && index !== void 0 && (_index$uri = index.uri) !== null && _index$uri !== void 0 && _index$uri.startsWith('ftp://') || track !== null && track !== void 0 && (_track$uri = track.uri) !== null && _track$uri !== void 0 && _track$uri.startsWith('ftp://'));
-      },
-
-      get isRelativeTrackUrl() {
-        var _self$trackData;
-
-        // @ts-ignore
-        var uri = (_self$trackData = self.trackData) === null || _self$trackData === void 0 ? void 0 : _self$trackData.uri;
-        return uri ? !isAbsoluteUrl(uri) : false;
-      },
-
-      get isRelativeIndexUrl() {
-        var _self$indexTrackData;
-
-        // @ts-ignore
-        var uri = (_self$indexTrackData = self.indexTrackData) === null || _self$indexTrackData === void 0 ? void 0 : _self$indexTrackData.uri;
-        return uri ? !isAbsoluteUrl(uri) : false;
-      },
-
-      get isRelativeUrl() {
-        return this.isRelativeIndexUrl || this.isRelativeTrackUrl;
-      },
-
-      get trackHttp() {
-        var _self$trackData2, _self$trackData2$uri;
-
-        // @ts-ignore
-        return (_self$trackData2 = self.trackData) === null || _self$trackData2 === void 0 ? void 0 : (_self$trackData2$uri = _self$trackData2.uri) === null || _self$trackData2$uri === void 0 ? void 0 : _self$trackData2$uri.startsWith('http://');
-      },
-
-      get indexHttp() {
-        var _self$indexTrackData2, _self$indexTrackData3;
-
-        // @ts-ignore
-        return (_self$indexTrackData2 = self.indexTrackData) === null || _self$indexTrackData2 === void 0 ? void 0 : (_self$indexTrackData3 = _self$indexTrackData2.uri) === null || _self$indexTrackData3 === void 0 ? void 0 : _self$indexTrackData3.startsWith('http://');
-      },
-
-      get wrongProtocol() {
-        return window.location.protocol === 'https:' && (this.trackHttp || this.indexHttp);
-      },
-
-      get unsupported() {
-        var _this$trackAdapter;
-
-        return ((_this$trackAdapter = this.trackAdapter) === null || _this$trackAdapter === void 0 ? void 0 : _this$trackAdapter.type) === _tracks.UNSUPPORTED;
-      },
-
-      get assembly() {
-        var _self$view$assemblyNa;
-
-        return self.altAssemblyName || ((_self$view$assemblyNa = self.view.assemblyNames) === null || _self$view$assemblyNa === void 0 ? void 0 : _self$view$assemblyNa[0]);
-      },
-
-      get trackType() {
-        return self.altTrackType || (this.trackAdapter ? (0, _tracks.guessTrackType)(this.trackAdapter.type, self) : '');
-      }
-
-    };
-  }).views(function (self) {
-    return {
-      get warningMessage() {
-        if (self.isFtp) {
-          return "Warning: JBrowse cannot access files using the ftp protocol";
-        } else if (self.isRelativeUrl) {
-          return "Warning: one or more of your files do not provide the protocol e.g.\n          https://, please provide an absolute URL unless you are sure a\n          relative URL is intended.";
-        } else if (self.wrongProtocol) {
-          return "Warning: You entered a http:// resources but we cannot access HTTP\n          resources from JBrowse when it is running on https. Please use an\n          https URL for your track, or access the JBrowse app from the http\n          protocol";
-        }
-
-        return '';
-      }
-
-    };
-  });
-}
+    return mobx_state_tree_1.types
+        .model('AddTrackModel', {
+        id: mst_1.ElementId,
+        type: mobx_state_tree_1.types.literal('AddTrackWidget'),
+        view: mobx_state_tree_1.types.safeReference(pluginManager.pluggableMstType('view', 'stateModel')),
+    })
+        .volatile(function () { return ({
+        trackSource: 'fromFile',
+        trackData: undefined,
+        indexTrackData: undefined,
+        // alts
+        altAssemblyName: '',
+        altTrackName: '',
+        altTrackType: '',
+        adapterHint: '',
+        textIndexTrack: true,
+        textIndexingConf: undefined,
+    }); })
+        .actions(function (self) { return ({
+        setAdapterHint: function (obj) {
+            self.adapterHint = obj;
+        },
+        setTrackSource: function (str) {
+            self.trackSource = str;
+        },
+        setTextIndexingConf: function (conf) {
+            self.textIndexingConf = conf;
+        },
+        setTextIndexTrack: function (flag) {
+            self.textIndexTrack = flag;
+        },
+        setTrackData: function (obj) {
+            self.trackData = obj;
+        },
+        setIndexTrackData: function (obj) {
+            self.indexTrackData = obj;
+        },
+        setAssembly: function (str) {
+            self.altAssemblyName = str;
+        },
+        setTrackName: function (str) {
+            self.altTrackName = str;
+        },
+        setTrackType: function (str) {
+            self.altTrackType = str;
+        },
+        clearData: function () {
+            self.trackSource = '';
+            self.altTrackName = '';
+            self.altTrackType = '';
+            self.altAssemblyName = '';
+            self.adapterHint = '';
+            self.indexTrackData = undefined;
+            self.trackData = undefined;
+            self.textIndexingConf = undefined;
+            self.textIndexTrack = true;
+        },
+    }); })
+        .views(function (self) { return ({
+        get trackAdapter() {
+            var trackData = self.trackData, indexTrackData = self.indexTrackData, adapterHint = self.adapterHint;
+            return trackData
+                ? (0, tracks_1.guessAdapter)(trackData, indexTrackData, adapterHint, self)
+                : undefined;
+        },
+        get trackName() {
+            return (self.altTrackName ||
+                (self.trackData ? (0, tracks_1.getFileName)(self.trackData) : ''));
+        },
+        get isFtp() {
+            var _a, _b;
+            var track = self.trackData, index = self.indexTrackData;
+            return !!(
+            // @ts-ignore
+            (((_a = index === null || index === void 0 ? void 0 : index.uri) === null || _a === void 0 ? void 0 : _a.startsWith('ftp://')) || ((_b = track === null || track === void 0 ? void 0 : track.uri) === null || _b === void 0 ? void 0 : _b.startsWith('ftp://'))));
+        },
+        get isRelativeTrackUrl() {
+            var _a;
+            // @ts-ignore
+            var uri = (_a = self.trackData) === null || _a === void 0 ? void 0 : _a.uri;
+            return uri ? !isAbsoluteUrl(uri) : false;
+        },
+        get isRelativeIndexUrl() {
+            var _a;
+            // @ts-ignore
+            var uri = (_a = self.indexTrackData) === null || _a === void 0 ? void 0 : _a.uri;
+            return uri ? !isAbsoluteUrl(uri) : false;
+        },
+        get isRelativeUrl() {
+            return this.isRelativeIndexUrl || this.isRelativeTrackUrl;
+        },
+        get trackHttp() {
+            var _a, _b;
+            // @ts-ignore
+            return (_b = (_a = self.trackData) === null || _a === void 0 ? void 0 : _a.uri) === null || _b === void 0 ? void 0 : _b.startsWith('http://');
+        },
+        get indexHttp() {
+            var _a, _b;
+            // @ts-ignore
+            return (_b = (_a = self.indexTrackData) === null || _a === void 0 ? void 0 : _a.uri) === null || _b === void 0 ? void 0 : _b.startsWith('http://');
+        },
+        get wrongProtocol() {
+            return (window.location.protocol === 'https:' &&
+                (this.trackHttp || this.indexHttp));
+        },
+        get unsupported() {
+            var _a;
+            return ((_a = this.trackAdapter) === null || _a === void 0 ? void 0 : _a.type) === tracks_1.UNSUPPORTED;
+        },
+        get assembly() {
+            var _a;
+            return self.altAssemblyName || ((_a = self.view.assemblyNames) === null || _a === void 0 ? void 0 : _a[0]);
+        },
+        get trackType() {
+            return (self.altTrackType ||
+                (this.trackAdapter
+                    ? (0, tracks_1.guessTrackType)(this.trackAdapter.type, self)
+                    : ''));
+        },
+    }); })
+        .views(function (self) { return ({
+        get warningMessage() {
+            if (self.isFtp) {
+                return "Warning: JBrowse cannot access files using the ftp protocol";
+            }
+            else if (self.isRelativeUrl) {
+                return "Warning: one or more of your files do not provide the protocol e.g.\n          https://, please provide an absolute URL unless you are sure a\n          relative URL is intended.";
+            }
+            else if (self.wrongProtocol) {
+                return "Warning: You entered a http:// resources but we cannot access HTTP\n          resources from JBrowse when it is running on https. Please use an\n          https URL for your track, or access the JBrowse app from the http\n          protocol";
+            }
+            return '';
+        },
+    }); });
+}
+exports.default = f;
+//# sourceMappingURL=model.js.map

package/dist/AddTrackWidget/model.js.map

@@ -0,0 +1 @@
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