@jbrowse/plugin-data-management 2.3.2 → 2.3.4

package/dist/HierarchicalTrackSelectorWidget/model.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.generateHierarchy = void 0;
+exports.generateHierarchy = exports.matches = void 0;
 const mobx_state_tree_1 = require("mobx-state-tree");
 const configuration_1 = require("@jbrowse/core/configuration");
 const util_1 = require("@jbrowse/core/util");
@@ -9,12 +9,13 @@ const mst_1 = require("@jbrowse/core/util/types/mst");
 function hasAnyOverlap(a1 = [], a2 = []) {
     return !!a1.find(value => a2.includes(value));
 }
-function passesFilter(filter, config, session) {
-    const categories = (0, configuration_1.readConfObject)(config, 'category');
-    const filterLower = filter.toLowerCase();
-    return ((0, tracks_1.getTrackName)(config, session).toLowerCase().includes(filterLower) ||
-        !!(categories === null || categories === void 0 ? void 0 : categories.filter(c => c.toLowerCase().includes(filterLower)).length));
+function matches(query, conf, session) {
+    const categories = (0, configuration_1.readConfObject)(conf, 'category');
+    const queryLower = query.toLowerCase();
+    return ((0, tracks_1.getTrackName)(conf, session).toLowerCase().includes(queryLower) ||
+        !!(categories === null || categories === void 0 ? void 0 : categories.filter(c => c.toLowerCase().includes(queryLower)).length));
 }
+exports.matches = matches;
 function filterTracks(tracks, self, assemblyName) {
     const { assemblyManager } = (0, util_1.getSession)(self);
     const { pluginManager } = (0, util_1.getEnv)(self);
@@ -37,7 +38,7 @@ function generateHierarchy(model, trackConfigurations, collapsed, extra) {
     const { filterText, view } = model;
     const session = (0, util_1.getSession)(model);
     trackConfigurations
-        .filter(conf => passesFilter(filterText, conf, session))
+        .filter(conf => matches(filterText, conf, session))
         .forEach(conf => {
         // copy the categories since this array can be mutated downstream
         const categories = [...((0, configuration_1.readConfObject)(conf, 'category') || [])];
@@ -86,13 +87,16 @@ function stateTreeFactory(pluginManager) {
         id: mst_1.ElementId,
         type: mobx_state_tree_1.types.literal('HierarchicalTrackSelectorWidget'),
         collapsed: mobx_state_tree_1.types.map(mobx_state_tree_1.types.boolean),
-        filterText: '',
         view: mobx_state_tree_1.types.safeReference(pluginManager.pluggableMstType('view', 'stateModel')),
     })
         .volatile(() => ({
         selection: [],
+        filterText: '',
     }))
         .actions(self => ({
+        setSelection(elt) {
+            self.selection = elt;
+        },
         addToSelection(elt) {
             self.selection = (0, util_1.dedupe)([...self.selection, ...elt], e => e.trackId);
         },

package/dist/HierarchicalTrackSelectorWidget/model.js.map

@@ -1 +1 @@
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package/dist/PluginStoreWidget/index.d.ts

@@ -1,2 +1,3 @@
-export { default as stateModelFactory } from './model';
-export declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;

package/dist/PluginStoreWidget/index.js

@@ -1,11 +1,45 @@
 "use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || function (mod) {
+    if (mod && mod.__esModule) return mod;
+    var result = {};
+    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
+    __setModuleDefault(result, mod);
+    return result;
+};
 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;
 const 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)('PluginStoreWidget', {});
+const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
+const react_1 = require("react");
+const model_1 = __importDefault(require("./model"));
+const configSchema = (0, configuration_1.ConfigurationSchema)('PluginStoreWidget', {});
+exports.default = (pluginManager) => {
+    pluginManager.addWidgetType(() => {
+        return new pluggableElementTypes_1.WidgetType({
+            name: 'PluginStoreWidget',
+            heading: 'Plugin store',
+            configSchema,
+            stateModel: (0, model_1.default)(pluginManager),
+            ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./components/PluginStoreWidget')))),
+        });
+    });
+};
 //# sourceMappingURL=index.js.map

package/dist/PluginStoreWidget/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/PluginStoreWidget/index.ts"],"names":[],"mappings":";;;;;;AAAA,+DAAiE;AAEjE,iCAAsD;AAA7C,2HAAA,OAAO,OAAqB;AACxB,QAAA,YAAY,GAAG,IAAA,mCAAmB,EAAC,mBAAmB,EAAE,EAAE,CAAC,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/PluginStoreWidget/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+DAAiE;AACjE,+EAAgE;AAEhE,iCAA4B;AAE5B,oDAAuC;AACvC,MAAM,YAAY,GAAG,IAAA,mCAAmB,EAAC,mBAAmB,EAAE,EAAE,CAAC,CAAA;AAEjE,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;QAC/B,OAAO,IAAI,kCAAU,CAAC;YACpB,IAAI,EAAE,mBAAmB;YACzB,OAAO,EAAE,cAAc;YACvB,YAAY;YACZ,UAAU,EAAE,IAAA,eAAiB,EAAC,aAAa,CAAC;YAC5C,cAAc,EAAE,IAAA,YAAI,EAAC,GAAG,EAAE,mDAAQ,gCAAgC,GAAC,CAAC;SACrE,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}

package/dist/index.js

@@ -28,14 +28,12 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.SetDefaultSession = exports.AssemblyManager = void 0;
 const react_1 = require("react");
-const ConnectionType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/ConnectionType"));
-const WidgetType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/WidgetType"));
 const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
-const ucsc_trackhub_1 = require("./ucsc-trackhub");
-const AddTrackWidget_1 = require("./AddTrackWidget");
-const AddConnectionWidget_1 = require("./AddConnectionWidget");
-const HierarchicalTrackSelectorWidget_1 = require("./HierarchicalTrackSelectorWidget");
-const PluginStoreWidget_1 = require("./PluginStoreWidget");
+const ucsc_trackhub_1 = __importDefault(require("./ucsc-trackhub"));
+const AddTrackWidget_1 = __importDefault(require("./AddTrackWidget"));
+const AddConnectionWidget_1 = __importDefault(require("./AddConnectionWidget"));
+const PluginStoreWidget_1 = __importDefault(require("./PluginStoreWidget"));
+const HierarchicalTrackSelectorWidget_1 = __importDefault(require("./HierarchicalTrackSelectorWidget"));
 const SetDefaultSession = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./SetDefaultSession'))));
 exports.SetDefaultSession = SetDefaultSession;
 const AssemblyManager = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AssemblyManager'))));
@@ -50,50 +48,11 @@ class default_1 extends Plugin_1.default {
         };
     }
     install(pluginManager) {
-        pluginManager.addConnectionType(() => new ConnectionType_1.default({
-            name: 'UCSCTrackHubConnection',
-            configSchema: ucsc_trackhub_1.configSchema,
-            stateModel: (0, ucsc_trackhub_1.modelFactory)(pluginManager),
-            displayName: 'UCSC Track Hub',
-            description: 'A track or assembly hub in the Track Hub format',
-            url: '//genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html#Intro',
-        }));
-        pluginManager.addWidgetType(() => {
-            return new WidgetType_1.default({
-                name: 'HierarchicalTrackSelectorWidget',
-                heading: 'Available tracks',
-                configSchema: HierarchicalTrackSelectorWidget_1.configSchema,
-                stateModel: (0, HierarchicalTrackSelectorWidget_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector')))),
-            });
-        });
-        pluginManager.addWidgetType(() => {
-            return new WidgetType_1.default({
-                name: 'AddTrackWidget',
-                heading: 'Add a track',
-                configSchema: AddTrackWidget_1.configSchema,
-                stateModel: (0, AddTrackWidget_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AddTrackWidget/components/AddTrackWidget')))),
-            });
-        });
-        pluginManager.addWidgetType(() => {
-            return new WidgetType_1.default({
-                name: 'AddConnectionWidget',
-                heading: 'Add a connection',
-                configSchema: AddConnectionWidget_1.configSchema,
-                stateModel: AddConnectionWidget_1.stateModel,
-                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AddConnectionWidget/components/AddConnectionWidget')))),
-            });
-        });
-        pluginManager.addWidgetType(() => {
-            return new WidgetType_1.default({
-                name: 'PluginStoreWidget',
-                heading: 'Plugin store',
-                configSchema: PluginStoreWidget_1.configSchema,
-                stateModel: (0, PluginStoreWidget_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./PluginStoreWidget/components/PluginStoreWidget')))),
-            });
-        });
+        (0, ucsc_trackhub_1.default)(pluginManager);
+        (0, AddTrackWidget_1.default)(pluginManager);
+        (0, HierarchicalTrackSelectorWidget_1.default)(pluginManager);
+        (0, AddConnectionWidget_1.default)(pluginManager);
+        (0, PluginStoreWidget_1.default)(pluginManager);
     }
     configure(_pluginManager) { }
 }

package/dist/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,iCAA4B;AAC5B,kEAAyC;AAEzC,oEAAqD;AACrD,sEAA8C;AAE9C,gFAAwD;AACxD,4EAAoD;AACpD,wGAE0C;AAE1C,MAAM,iBAAiB,GAAG,IAAA,YAAI,EAAC,GAAG,EAAE,mDAAQ,qBAAqB,GAAC,CAAC,CAAA;AAuBzC,8CAAiB;AArB3C,MAAM,eAAe,GAAG,IAAA,YAAI,EAAC,GAAG,EAAE,mDAAQ,mBAAmB,GAAC,CAAC,CAAA;AAqBtD,0CAAe;AAnBxB,eAAqB,SAAQ,gBAAM;IAAnC;;QACE,SAAI,GAAG,sBAAsB,CAAA;QAE7B,YAAO,GAAG;YACR,eAAe;YACf,iBAAiB;SAClB,CAAA;IAWH,CAAC;IATC,OAAO,CAAC,aAA4B;QAClC,IAAA,uBAAuB,EAAC,aAAa,CAAC,CAAA;QACtC,IAAA,wBAAe,EAAC,aAAa,CAAC,CAAA;QAC9B,IAAA,yCAAgC,EAAC,aAAa,CAAC,CAAA;QAC/C,IAAA,6BAAoB,EAAC,aAAa,CAAC,CAAA;QACnC,IAAA,2BAAkB,EAAC,aAAa,CAAC,CAAA;IACnC,CAAC;IAED,SAAS,CAAC,cAA6B,IAAG,CAAC;CAC5C;AAjBD,4BAiBC"}

package/dist/ucsc-trackhub/index.d.ts

@@ -1,2 +1,3 @@
-export { default as modelFactory } from './model';
-export { default as configSchema } from './configSchema';
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;

package/dist/ucsc-trackhub/index.js

@@ -3,9 +3,17 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.configSchema = exports.modelFactory = void 0;
-var model_1 = require("./model");
-Object.defineProperty(exports, "modelFactory", { enumerable: true, get: function () { return __importDefault(model_1).default; } });
-var configSchema_1 = require("./configSchema");
-Object.defineProperty(exports, "configSchema", { enumerable: true, get: function () { return __importDefault(configSchema_1).default; } });
+const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
+const model_1 = __importDefault(require("./model"));
+const configSchema_1 = __importDefault(require("./configSchema"));
+exports.default = (pluginManager) => {
+    pluginManager.addConnectionType(() => new pluggableElementTypes_1.ConnectionType({
+        name: 'UCSCTrackHubConnection',
+        configSchema: configSchema_1.default,
+        stateModel: (0, model_1.default)(pluginManager),
+        displayName: 'UCSC Track Hub',
+        description: 'A track or assembly hub in the Track Hub format',
+        url: '//genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html#Intro',
+    }));
+};
 //# sourceMappingURL=index.js.map

package/dist/ucsc-trackhub/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/index.ts"],"names":[],"mappings":";;;;;;AAAA,iCAAiD;AAAxC,sHAAA,OAAO,OAAgB;AAChC,+CAAwD;AAA/C,6HAAA,OAAO,OAAgB"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/index.ts"],"names":[],"mappings":";;;;;AAAA,+EAAoE;AAGpE,oDAAuC;AACvC,kEAAyC;AAEzC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,iBAAiB,CAC7B,GAAG,EAAE,CACH,IAAI,sCAAc,CAAC;QACjB,IAAI,EAAE,wBAAwB;QAC9B,YAAY,EAAZ,sBAAY;QACZ,UAAU,EAAE,IAAA,eAAiB,EAAC,aAAa,CAAC;QAC5C,WAAW,EAAE,gBAAgB;QAC7B,WAAW,EAAE,iDAAiD;QAC9D,GAAG,EAAE,6DAA6D;KACnE,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}

package/esm/AddConnectionWidget/index.d.ts

@@ -1,2 +1,3 @@
-export { default as stateModel } from './model';
-export declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;

package/esm/AddConnectionWidget/index.js

@@ -1,4 +1,17 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
-export { default as stateModel } from './model';
-export const configSchema = ConfigurationSchema('AddConnectionWidget', {});
+import { WidgetType } from '@jbrowse/core/pluggableElementTypes';
+import { lazy } from 'react';
+import stateModel from './model';
+const configSchema = ConfigurationSchema('AddConnectionWidget', {});
+export default (pluginManager) => {
+    pluginManager.addWidgetType(() => {
+        return new WidgetType({
+            name: 'AddConnectionWidget',
+            heading: 'Add a connection',
+            configSchema,
+            stateModel,
+            ReactComponent: lazy(() => import('./components/AddConnectionWidget')),
+        });
+    });
+};
 //# sourceMappingURL=index.js.map

package/esm/AddConnectionWidget/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/AddConnectionWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE,OAAO,EAAE,OAAO,IAAI,UAAU,EAAE,MAAM,SAAS,CAAA;AAC/C,MAAM,CAAC,MAAM,YAAY,GAAG,mBAAmB,CAAC,qBAAqB,EAAE,EAAE,CAAC,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/AddConnectionWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,UAAU,EAAE,MAAM,qCAAqC,CAAA;AAEhE,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAE5B,OAAO,UAAU,MAAM,SAAS,CAAA;AAChC,MAAM,YAAY,GAAG,mBAAmB,CAAC,qBAAqB,EAAE,EAAE,CAAC,CAAA;AAEnE,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;QAC/B,OAAO,IAAI,UAAU,CAAC;YACpB,IAAI,EAAE,qBAAqB;YAC3B,OAAO,EAAE,kBAAkB;YAC3B,YAAY;YACZ,UAAU;YACV,cAAc,EAAE,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,kCAAkC,CAAC,CAAC;SACvE,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}

package/esm/AddTrackWidget/components/DefaultAddTrackWorkflow.js

@@ -16,15 +16,12 @@ const useStyles = makeStyles()(theme => ({
         backgroundColor: theme.palette.background.default,
     },
     button: {
-        marginTop: theme.spacing(1),
         marginRight: theme.spacing(1),
     },
     actionsContainer: {
+        marginTop: theme.spacing(10),
         marginBottom: theme.spacing(2),
     },
-    stepContent: {
-        margin: theme.spacing(1),
-    },
     alertContainer: {
         padding: `${theme.spacing(2)}px 0px ${theme.spacing(2)}px 0px`,
     },

package/esm/AddTrackWidget/components/DefaultAddTrackWorkflow.js.map

@@ -1 +1 @@
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package/esm/AddTrackWidget/components/TrackSourceSelect.js

@@ -6,9 +6,7 @@ import { getRoot } from 'mobx-state-tree';
 import { observer } from 'mobx-react';
 const useStyles = makeStyles()(theme => ({
     paper: {
-        display: 'flex',
-        flexDirection: 'column',
-        padding: theme.spacing(1),
+        padding: theme.spacing(2),
     },
     spacer: {
         height: theme.spacing(8),
@@ -16,7 +14,6 @@ const useStyles = makeStyles()(theme => ({
 }));
 function TrackSourceSelect({ model }) {
     const { classes } = useStyles();
-    // eslint-disable-next-line @typescript-eslint/no-explicit-any
     const rootModel = getRoot(model);
     return (React.createElement(Paper, { className: classes.paper },
         React.createElement(FileSelector, { name: "Main file", description: "", location: model.trackData, setLocation: model.setTrackData, setName: model.setTrackName, rootModel: rootModel }),

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

@@ -1 +1 @@
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+{"version":3,"file":"TrackSourceSelect.js","sourceRoot":"","sources":["../../../src/AddTrackWidget/components/TrackSourceSelect.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,YAAY,EAAE,MAAM,kBAAkB,CAAA;AAE/C,OAAO,EAAE,KAAK,EAAE,MAAM,eAAe,CAAA;AACrC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,OAAO,EAAE,MAAM,iBAAiB,CAAA;AACzC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAKrC,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,KAAK,EAAE;QACL,OAAO,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KAC1B;IACD,MAAM,EAAE;QACN,MAAM,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KACzB;CACF,CAAC,CAAC,CAAA;AAEH,SAAS,iBAAiB,CAAC,EAAE,KAAK,EAA4B;IAC5D,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,SAAS,GAAG,OAAO,CAAoB,KAAK,CAAC,CAAA;IAEnD,OAAO,CACL,oBAAC,KAAK,IAAC,SAAS,EAAE,OAAO,CAAC,KAAK;QAC7B,oBAAC,YAAY,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,6BAAK,SAAS,EAAE,OAAO,CAAC,MAAM,GAAI;QAClC,oBAAC,YAAY,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,eAAe,QAAQ,CAAC,iBAAiB,CAAC,CAAA"}

package/esm/AddTrackWidget/index.d.ts

@@ -1,2 +1,3 @@
-export { default as stateModelFactory } from './model';
-export declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;

package/esm/AddTrackWidget/index.js

@@ -1,4 +1,17 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
-export { default as stateModelFactory } from './model';
-export const configSchema = ConfigurationSchema('AddTrackWidget', {});
+import { WidgetType } from '@jbrowse/core/pluggableElementTypes';
+import { lazy } from 'react';
+import stateModelFactory from './model';
+const configSchema = ConfigurationSchema('AddTrackWidget', {});
+export default (pluginManager) => {
+    pluginManager.addWidgetType(() => {
+        return new WidgetType({
+            name: 'AddTrackWidget',
+            heading: 'Add a track',
+            configSchema,
+            stateModel: stateModelFactory(pluginManager),
+            ReactComponent: lazy(() => import('./components/AddTrackWidget')),
+        });
+    });
+};
 //# sourceMappingURL=index.js.map

package/esm/AddTrackWidget/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/AddTrackWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,UAAU,EAAE,MAAM,qCAAqC,CAAA;AAEhE,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAE5B,OAAO,iBAAiB,MAAM,SAAS,CAAA;AACvC,MAAM,YAAY,GAAG,mBAAmB,CAAC,gBAAgB,EAAE,EAAE,CAAC,CAAA;AAE9D,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;QAC/B,OAAO,IAAI,UAAU,CAAC;YACpB,IAAI,EAAE,gBAAgB;YACtB,OAAO,EAAE,aAAa;YACtB,YAAY;YACZ,UAAU,EAAE,iBAAiB,CAAC,aAAa,CAAC;YAC5C,cAAc,EAAE,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,6BAA6B,CAAC,CAAC;SAClE,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}

package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalFab.d.ts

@@ -0,0 +1,6 @@
+/// <reference types="react" />
+import { HierarchicalTrackSelectorModel } from '../model';
+declare const _default: ({ model, }: {
+    model: HierarchicalTrackSelectorModel;
+}) => JSX.Element;
+export default _default;

package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalFab.js

@@ -0,0 +1,43 @@
+import React, { useState } from 'react';
+import { Fab, Menu, MenuItem } from '@mui/material';
+import { makeStyles } from 'tss-react/mui';
+import { getSession, isSessionModelWithWidgets, isSessionModelWithConnections, isSessionWithAddTracks, } from '@jbrowse/core/util';
+import { observer } from 'mobx-react';
+// icons
+import AddIcon from '@mui/icons-material/Add';
+const useStyles = makeStyles()(theme => ({
+    fab: {
+        position: 'absolute',
+        bottom: theme.spacing(6),
+        right: theme.spacing(6),
+    },
+}));
+export default observer(function HierarchicalFab({ model, }) {
+    const { classes } = useStyles();
+    const session = getSession(model);
+    const [anchorEl, setAnchorEl] = useState(null);
+    function handleFabClose() {
+        setAnchorEl(null);
+    }
+    const hasConnections = isSessionModelWithConnections(session);
+    const hasAddTrack = isSessionWithAddTracks(session);
+    return (React.createElement(React.Fragment, null, hasAddTrack || hasConnections ? (React.createElement(React.Fragment, null,
+        React.createElement(Fab, { color: "secondary", className: classes.fab, onClick: event => setAnchorEl(event.currentTarget) },
+            React.createElement(AddIcon, null)),
+        React.createElement(Menu, { anchorEl: anchorEl, open: Boolean(anchorEl), onClose: () => setAnchorEl(null) },
+            hasConnections ? (React.createElement(MenuItem, { onClick: () => {
+                    handleFabClose();
+                    if (isSessionModelWithWidgets(session)) {
+                        session.showWidget(session.addWidget('AddConnectionWidget', 'addConnectionWidget'));
+                    }
+                } }, "Add connection")) : null,
+            hasAddTrack ? (React.createElement(MenuItem, { onClick: () => {
+                    handleFabClose();
+                    if (isSessionModelWithWidgets(session)) {
+                        session.showWidget(session.addWidget('AddTrackWidget', 'addTrackWidget', {
+                            view: model.view.id,
+                        }));
+                    }
+                } }, "Add track")) : null))) : null));
+});
+//# sourceMappingURL=HierarchicalFab.js.map

package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalFab.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"HierarchicalFab.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/HierarchicalFab.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AACvC,OAAO,EAAE,GAAG,EAAE,IAAI,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACnD,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EACL,UAAU,EACV,yBAAyB,EACzB,6BAA6B,EAC7B,sBAAsB,GACvB,MAAM,oBAAoB,CAAA;AAC3B,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,QAAQ;AACR,OAAO,OAAO,MAAM,yBAAyB,CAAA;AAK7C,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,GAAG,EAAE;QACH,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;QACxB,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KACxB;CACF,CAAC,CAAC,CAAA;AAEH,eAAe,QAAQ,CAAC,SAAS,eAAe,CAAC,EAC/C,KAAK,GAGN;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IACjC,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,CAA2B,IAAI,CAAC,CAAA;IAExE,SAAS,cAAc;QACrB,WAAW,CAAC,IAAI,CAAC,CAAA;IACnB,CAAC;IACD,MAAM,cAAc,GAAG,6BAA6B,CAAC,OAAO,CAAC,CAAA;IAC7D,MAAM,WAAW,GAAG,sBAAsB,CAAC,OAAO,CAAC,CAAA;IACnD,OAAO,CACL,0CACG,WAAW,IAAI,cAAc,CAAC,CAAC,CAAC,CAC/B;QACE,oBAAC,GAAG,IACF,KAAK,EAAC,WAAW,EACjB,SAAS,EAAE,OAAO,CAAC,GAAG,EACtB,OAAO,EAAE,KAAK,CAAC,EAAE,CAAC,WAAW,CAAC,KAAK,CAAC,aAAa,CAAC;YAElD,oBAAC,OAAO,OAAG,CACP;QACN,oBAAC,IAAI,IACH,QAAQ,EAAE,QAAQ,EAClB,IAAI,EAAE,OAAO,CAAC,QAAQ,CAAC,EACvB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,CAAC,IAAI,CAAC;YAE/B,cAAc,CAAC,CAAC,CAAC,CAChB,oBAAC,QAAQ,IACP,OAAO,EAAE,GAAG,EAAE;oBACZ,cAAc,EAAE,CAAA;oBAChB,IAAI,yBAAyB,CAAC,OAAO,CAAC,EAAE;wBACtC,OAAO,CAAC,UAAU,CAChB,OAAO,CAAC,SAAS,CACf,qBAAqB,EACrB,qBAAqB,CACtB,CACF,CAAA;qBACF;gBACH,CAAC,qBAGQ,CACZ,CAAC,CAAC,CAAC,IAAI;YACP,WAAW,CAAC,CAAC,CAAC,CACb,oBAAC,QAAQ,IACP,OAAO,EAAE,GAAG,EAAE;oBACZ,cAAc,EAAE,CAAA;oBAChB,IAAI,yBAAyB,CAAC,OAAO,CAAC,EAAE;wBACtC,OAAO,CAAC,UAAU,CAChB,OAAO,CAAC,SAAS,CAAC,gBAAgB,EAAE,gBAAgB,EAAE;4BACpD,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,EAAE;yBACpB,CAAC,CACH,CAAA;qBACF;gBACH,CAAC,gBAGQ,CACZ,CAAC,CAAC,CAAC,IAAI,CACH,CACN,CACJ,CAAC,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA"}

package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js

@@ -1,78 +1,9 @@
-import React, { useCallback, useMemo, useState, useRef, useEffect } from 'react';
-import { Fab, Menu, MenuItem } from '@mui/material';
-import { makeStyles } from 'tss-react/mui';
-import { getSession, isSessionModelWithWidgets, isSessionModelWithConnections, isSessionWithAddTracks, } from '@jbrowse/core/util';
+import React, { useState } from 'react';
 import { observer } from 'mobx-react';
-import { VariableSizeTree } from 'react-vtree';
 import AutoSizer from 'react-virtualized-auto-sizer';
-// icons
-import AddIcon from '@mui/icons-material/Add';
-import Header from './Header';
-import Node from './Node';
-const useStyles = makeStyles()(theme => ({
-    fab: {
-        position: 'absolute',
-        bottom: theme.spacing(6),
-        right: theme.spacing(6),
-    },
-}));
-function getNodeData(node, nestingLevel, extra, selection) {
-    const isLeaf = !!node.conf;
-    const selected = !!selection[node.id];
-    return {
-        data: {
-            defaultHeight: isLeaf ? 22 : 40,
-            isLeaf,
-            isOpenByDefault: true,
-            nestingLevel,
-            selected,
-            ...node,
-            ...extra,
-        },
-        nestingLevel,
-        node,
-    };
-}
-// this is the main tree component for the hierarchical track selector in note:
-// in jbrowse-web the toolbar is position="sticky" which means the autosizer
-// includes the height of the toolbar, so we subtract the given offsets
-const HierarchicalTree = observer(({ height, tree, model, }) => {
-    const { filterText, selection, view } = model;
-    const treeRef = useRef(null);
-    const session = getSession(model);
-    const { drawerPosition } = session;
-    const obj = useMemo(() => Object.fromEntries(selection.map(s => [s.trackId, s])), [selection]);
-    const extra = useMemo(() => ({
-        onChange: (trackId) => view.toggleTrack(trackId),
-        toggleCollapse: (pathName) => model.toggleCategory(pathName),
-        tree,
-        model,
-        drawerPosition,
-    }), [view, model, drawerPosition, tree]);
-    const treeWalker = useCallback(function* treeWalker() {
-        for (let i = 0; i < tree.children.length; i++) {
-            const r = tree.children[i];
-            yield getNodeData(r, 0, extra, obj);
-        }
-        while (true) {
-            // @ts-ignore
-            const parentMeta = yield;
-            for (let i = 0; i < parentMeta.node.children.length; i++) {
-                const curr = parentMeta.node.children[i];
-                yield getNodeData(curr, parentMeta.nestingLevel + 1, extra, obj);
-            }
-        }
-    }, [tree, extra, obj]);
-    useEffect(() => {
-        // @ts-ignore
-        treeRef.current.recomputeTree({
-            refreshNodes: true,
-            useDefaultHeight: true,
-        });
-    }, [tree, filterText]);
-    return (React.createElement(React.Fragment, null,
-        React.createElement(VariableSizeTree, { ref: treeRef, treeWalker: treeWalker, height: height }, Node)));
-});
+import HierarchicalFab from './HierarchicalFab';
+import HierarchicalTree from './tree/HierarchicalTree';
+import HierarchicalHeader from './tree/HierarchicalHeader';
 // Don't use autosizer in jest and instead hardcode a height, otherwise fails
 // jest tests
 const AutoSizedHierarchicalTree = ({ tree, model, offset, }) => {
@@ -83,43 +14,18 @@ const AutoSizedHierarchicalTree = ({ tree, model, offset, }) => {
 const Wrapper = ({ overrideDimensions, children, }) => {
     return overrideDimensions ? (React.createElement("div", { style: { ...overrideDimensions } }, children)) : (React.createElement(React.Fragment, null, children));
 };
-const HierarchicalTrackSelectorContainer = observer(({ model, toolbarHeight, overrideDimensions, }) => {
-    const { classes } = useStyles();
-    const session = getSession(model);
-    const [anchorEl, setAnchorEl] = useState(null);
-    function handleFabClose() {
-        setAnchorEl(null);
-    }
-    const hasConnections = isSessionModelWithConnections(session);
-    const hasAddTrack = isSessionWithAddTracks(session);
+const HierarchicalTrackSelectorContainer = observer(function ({ model, toolbarHeight, overrideDimensions, }) {
     return (React.createElement(Wrapper, { overrideDimensions: overrideDimensions },
         React.createElement(HierarchicalTrackSelector, { model: model, toolbarHeight: toolbarHeight }),
-        hasAddTrack || hasConnections ? (React.createElement(React.Fragment, null,
-            React.createElement(Fab, { color: "secondary", className: classes.fab, onClick: event => setAnchorEl(event.currentTarget) },
-                React.createElement(AddIcon, null)),
-            React.createElement(Menu, { anchorEl: anchorEl, open: Boolean(anchorEl), onClose: () => setAnchorEl(null) },
-                hasConnections ? (React.createElement(MenuItem, { onClick: () => {
-                        handleFabClose();
-                        if (isSessionModelWithWidgets(session)) {
-                            session.showWidget(session.addWidget('AddConnectionWidget', 'addConnectionWidget'));
-                        }
-                    } }, "Add connection")) : null,
-                hasAddTrack ? (React.createElement(MenuItem, { onClick: () => {
-                        handleFabClose();
-                        if (isSessionModelWithWidgets(session)) {
-                            session.showWidget(session.addWidget('AddTrackWidget', 'addTrackWidget', {
-                                view: model.view.id,
-                            }));
-                        }
-                    } }, "Add track")) : null))) : null));
+        React.createElement(HierarchicalFab, { model: model })));
 });
-const HierarchicalTrackSelector = observer(({ model, toolbarHeight = 0, }) => {
+const HierarchicalTrackSelector = observer(function ({ model, toolbarHeight = 0, }) {
     const [assemblyIdx, setAssemblyIdx] = useState(0);
     const [headerHeight, setHeaderHeight] = useState(0);
     const { assemblyNames } = model;
-    const assemblyName = assemblyNames.length ? assemblyNames[assemblyIdx] : '';
+    const assemblyName = assemblyNames[assemblyIdx];
     return assemblyName ? (React.createElement(React.Fragment, null,
-        React.createElement(Header, { model: model, setHeaderHeight: setHeaderHeight, setAssemblyIdx: setAssemblyIdx, assemblyIdx: assemblyIdx }),
+        React.createElement(HierarchicalHeader, { model: model, setHeaderHeight: setHeaderHeight, setAssemblyIdx: setAssemblyIdx }),
         React.createElement(AutoSizedHierarchicalTree, { tree: model.hierarchy(assemblyName), model: model, offset: toolbarHeight + headerHeight }))) : null;
 });
 export default HierarchicalTrackSelectorContainer;