@jbrowse/plugin-data-management 2.3.2 → 2.3.4

package/esm/HierarchicalTrackSelectorWidget/model.js.map

@@ -1 +1 @@
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+{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/model.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,WAAW,EAAY,MAAM,iBAAiB,CAAA;AAC9D,OAAO,EACL,OAAO,EACP,cAAc,GAEf,MAAM,6BAA6B,CAAA;AACpC,OAAO,EAEL,MAAM,EACN,UAAU,EACV,MAAM,GACP,MAAM,oBAAoB,CAAA;AAC3B,OAAO,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAA;AACxD,OAAO,EAAE,SAAS,EAAE,MAAM,8BAA8B,CAAA;AAGxD,SAAS,aAAa,CAAI,KAAU,EAAE,EAAE,KAAU,EAAE;IAClD,OAAO,CAAC,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,CAAC,EAAE,CAAC,EAAE,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAA;AAC/C,CAAC;AAED,MAAM,UAAU,OAAO,CACrB,KAAa,EACb,IAA2B,EAC3B,OAA6B;IAE7B,MAAM,UAAU,GAAG,cAAc,CAAC,IAAI,EAAE,UAAU,CAAyB,CAAA;IAC3E,MAAM,UAAU,GAAG,KAAK,CAAC,WAAW,EAAE,CAAA;IACtC,OAAO,CACL,YAAY,CAAC,IAAI,EAAE,OAAO,CAAC,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,UAAU,CAAC;QAC9D,CAAC,CAAC,CAAA,UAAU,aAAV,UAAU,uBAAV,UAAU,CAAE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,UAAU,CAAC,EAAE,MAAM,CAAA,CACvE,CAAA;AACH,CAAC;AAWD,SAAS,YAAY,CACnB,MAA+B,EAC/B,IAAgC,EAChC,YAAoB;IAEpB,MAAM,EAAE,eAAe,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;IAC5C,MAAM,EAAE,aAAa,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,CAAA;IACtC,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAElD,IAAI,CAAC,QAAQ,EAAE;QACb,OAAO,EAAE,CAAA;KACV;IACD,MAAM,EAAE,UAAU,EAAE,GAAG,QAAQ,CAAA;IAC/B,OAAO,MAAM;SACV,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,aAAa,CAAC,UAAU,EAAE,cAAc,CAAC,CAAC,EAAE,eAAe,CAAC,CAAC,CAAC;SAC1E,MAAM,CAAC,CAAC,CAAC,EAAE;QACV,MAAM,EAAE,YAAY,EAAE,GAAG,aAAa,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;QAClE,MAAM,cAAc,GAAG,YAAY,CAAC,GAAG,CAAC,CAAC,CAAmB,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACxE,MAAM,aAAa,GAAG,CAAC,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAmB,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACrE,OAAO,aAAa,CAAC,cAAc,EAAE,aAAa,CAAC,CAAA;IACrD,CAAC,CAAC,CAAA;AACN,CAAC;AAED,MAAM,UAAU,iBAAiB,CAC/B,KAAqC,EACrC,mBAA4C,EAC5C,SAAwD,EACxD,KAAc;IAEd,MAAM,SAAS,GAAG,EAAE,QAAQ,EAAE,EAAgB,EAAc,CAAA;IAC5D,MAAM,EAAE,UAAU,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;IAClC,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,CAAA;IAEjC,mBAAmB;SAChB,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,OAAO,CAAC,UAAU,EAAE,IAAI,EAAE,OAAO,CAAC,CAAC;SAClD,OAAO,CAAC,IAAI,CAAC,EAAE;QACd,iEAAiE;QACjE,MAAM,UAAU,GAAG,CAAC,GAAG,CAAC,cAAc,CAAC,IAAI,EAAE,UAAU,CAAC,IAAI,EAAE,CAAC,CAAC,CAAA;QAEhE,uEAAuE;QACvE,kEAAkE;QAClE,0BAA0B;QAC1B,IAAI,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,cAAc,CAAC,EAAE;YACzC,UAAU,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;SACtC;QAED,IAAI,SAAS,GAAG,SAAS,CAAA;QAEzB,wDAAwD;QACxD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC1C,MAAM,QAAQ,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;YAC9B,MAAM,GAAG,GAAG,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,QAAQ,CAAC,CAAA;YAC7D,MAAM,EAAE,GAAG,KAAK,GAAG,GAAG,GAAG,UAAU,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;YAC7D,IAAI,CAAC,GAAG,EAAE;gBACR,MAAM,CAAC,GAAG;oBACR,QAAQ,EAAE,EAAE;oBACZ,IAAI,EAAE,QAAQ;oBACd,EAAE;oBACF,eAAe,EAAE,CAAC,SAAS,CAAC,GAAG,CAAC,EAAE,CAAC;iBACpC,CAAA;gBACD,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;gBAC1B,SAAS,GAAG,CAAC,CAAA;aACd;iBAAM;gBACL,SAAS,GAAG,GAAG,CAAA;aAChB;SACF;QACD,MAAM,MAAM,GAAG,IAAI,CAAC,MAAoD,CAAA;QAExE,uEAAuE;QACvE,SAAS,CAAC,QAAQ,CAAC,MAAM,CACvB,SAAS,CAAC,QAAQ,CAAC,SAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,QAAQ,CAAC,MAAM,CAAC,EACxD,CAAC,EACD;YACE,EAAE,EAAE,IAAI,CAAC,OAAO;YAChB,IAAI,EAAE,YAAY,CAAC,IAAI,EAAE,OAAO,CAAC;YACjC,IAAI;YACJ,OAAO,EAAE,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,aAAa,KAAK,IAAI,CAAC;YACrD,QAAQ,EAAE,EAAE;SACb,CACF,CAAA;IACH,CAAC,CAAC,CAAA;IAEJ,OAAO,SAAS,CAAC,QAAQ,CAAA;AAC3B,CAAC;AAED,MAAM,CAAC,OAAO,UAAU,gBAAgB,CAAC,aAA4B;IACnE,OAAO,KAAK;SACT,KAAK,CAAC,iCAAiC,EAAE;QACxC,EAAE,EAAE,SAAS;QACb,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,iCAAiC,CAAC;QACtD,SAAS,EAAE,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,OAAO,CAAC;QACnC,IAAI,EAAE,KAAK,CAAC,aAAa,CACvB,aAAa,CAAC,gBAAgB,CAAC,MAAM,EAAE,YAAY,CAAC,CACrD;KACF,CAAC;SACD,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,SAAS,EAAE,EAA6B;QACxC,UAAU,EAAE,EAAE;KACf,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,YAAY,CAAC,GAA4B;YACvC,IAAI,CAAC,SAAS,GAAG,GAAG,CAAA;QACtB,CAAC;QACD,cAAc,CAAC,GAA4B;YACzC,IAAI,CAAC,SAAS,GAAG,MAAM,CAAC,CAAC,GAAG,IAAI,CAAC,SAAS,EAAE,GAAG,GAAG,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,CAAA;QACtE,CAAC;QACD,mBAAmB,CAAC,GAA4B;YAC9C,IAAI,CAAC,SAAS,GAAG,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAA;QAC/D,CAAC;QACD,cAAc;YACZ,IAAI,CAAC,SAAS,GAAG,EAAE,CAAA;QACrB,CAAC;QACD,OAAO,CAAC,IAAa;YACnB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAA;QAClB,CAAC;QACD,cAAc,CAAC,QAAgB;YAC7B,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,QAAQ,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAA;QAC7D,CAAC;QACD,eAAe;YACb,IAAI,CAAC,UAAU,GAAG,EAAE,CAAA;QACtB,CAAC;QACD,aAAa,CAAC,OAAe;YAC3B,IAAI,CAAC,UAAU,GAAG,OAAO,CAAA;QAC3B,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd,kBAAkB,CAAC,YAAoB;YACrC,MAAM,EAAE,eAAe,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;YAC5C,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;YAClD,MAAM,SAAS,GAAG,QAAQ,aAAR,QAAQ,uBAAR,QAAQ,CAAE,aAAa,CAAC,QAAQ,CAAA;YAClD,MAAM,QAAQ,GAAG,aAAa,CAAC,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package/esm/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/esm/PluginStoreWidget/index.js

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

package/esm/PluginStoreWidget/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/PluginStoreWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE,OAAO,EAAE,OAAO,IAAI,iBAAiB,EAAE,MAAM,SAAS,CAAA;AACtD,MAAM,CAAC,MAAM,YAAY,GAAG,mBAAmB,CAAC,mBAAmB,EAAE,EAAE,CAAC,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/PluginStoreWidget/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,mBAAmB,EAAE,EAAE,CAAC,CAAA;AAEjE,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;QAC/B,OAAO,IAAI,UAAU,CAAC;YACpB,IAAI,EAAE,mBAAmB;YACzB,OAAO,EAAE,cAAc;YACvB,YAAY;YACZ,UAAU,EAAE,iBAAiB,CAAC,aAAa,CAAC;YAC5C,cAAc,EAAE,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,gCAAgC,CAAC,CAAC;SACrE,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}

package/esm/index.js

@@ -1,12 +1,10 @@
 import { lazy } from 'react';
-import ConnectionType from '@jbrowse/core/pluggableElementTypes/ConnectionType';
-import WidgetType from '@jbrowse/core/pluggableElementTypes/WidgetType';
 import Plugin from '@jbrowse/core/Plugin';
-import { configSchema as ucscConfigSchema, modelFactory as ucscModelFactory, } from './ucsc-trackhub';
-import { stateModelFactory as AddTrackStateModelFactory, configSchema as AddTrackConfigSchema, } from './AddTrackWidget';
-import { stateModel as AddConnectionStateModel, configSchema as AddConnectionConfigSchema, } from './AddConnectionWidget';
-import { stateModelFactory as HierarchicalTrackSelectorStateModelFactory, configSchema as HierarchicalTrackSelectorConfigSchema, } from './HierarchicalTrackSelectorWidget';
-import { stateModelFactory as PluginStoreStateModelFactory, configSchema as PluginStoreConfigSchema, } from './PluginStoreWidget';
+import UCSCTrackHubConnectionF from './ucsc-trackhub';
+import AddTrackWidgetF from './AddTrackWidget';
+import AddConnectionWidgetF from './AddConnectionWidget';
+import PluginStoreWidgetF from './PluginStoreWidget';
+import HierarchicalTrackSelectorWidgetF from './HierarchicalTrackSelectorWidget';
 const SetDefaultSession = lazy(() => import('./SetDefaultSession'));
 const AssemblyManager = lazy(() => import('./AssemblyManager'));
 export default class extends Plugin {
@@ -19,50 +17,11 @@ export default class extends Plugin {
         };
     }
     install(pluginManager) {
-        pluginManager.addConnectionType(() => new ConnectionType({
-            name: 'UCSCTrackHubConnection',
-            configSchema: ucscConfigSchema,
-            stateModel: ucscModelFactory(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({
-                name: 'HierarchicalTrackSelectorWidget',
-                heading: 'Available tracks',
-                configSchema: HierarchicalTrackSelectorConfigSchema,
-                stateModel: HierarchicalTrackSelectorStateModelFactory(pluginManager),
-                ReactComponent: lazy(() => import('./HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector')),
-            });
-        });
-        pluginManager.addWidgetType(() => {
-            return new WidgetType({
-                name: 'AddTrackWidget',
-                heading: 'Add a track',
-                configSchema: AddTrackConfigSchema,
-                stateModel: AddTrackStateModelFactory(pluginManager),
-                ReactComponent: lazy(() => import('./AddTrackWidget/components/AddTrackWidget')),
-            });
-        });
-        pluginManager.addWidgetType(() => {
-            return new WidgetType({
-                name: 'AddConnectionWidget',
-                heading: 'Add a connection',
-                configSchema: AddConnectionConfigSchema,
-                stateModel: AddConnectionStateModel,
-                ReactComponent: lazy(() => import('./AddConnectionWidget/components/AddConnectionWidget')),
-            });
-        });
-        pluginManager.addWidgetType(() => {
-            return new WidgetType({
-                name: 'PluginStoreWidget',
-                heading: 'Plugin store',
-                configSchema: PluginStoreConfigSchema,
-                stateModel: PluginStoreStateModelFactory(pluginManager),
-                ReactComponent: lazy(() => import('./PluginStoreWidget/components/PluginStoreWidget')),
-            });
-        });
+        UCSCTrackHubConnectionF(pluginManager);
+        AddTrackWidgetF(pluginManager);
+        HierarchicalTrackSelectorWidgetF(pluginManager);
+        AddConnectionWidgetF(pluginManager);
+        PluginStoreWidgetF(pluginManager);
     }
     configure(_pluginManager) { }
 }

package/esm/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAC5B,OAAO,cAAc,MAAM,oDAAoD,CAAA;AAC/E,OAAO,UAAU,MAAM,gDAAgD,CAAA;AACvE,OAAO,MAAM,MAAM,sBAAsB,CAAA;AAEzC,OAAO,EACL,YAAY,IAAI,gBAAgB,EAChC,YAAY,IAAI,gBAAgB,GACjC,MAAM,iBAAiB,CAAA;AACxB,OAAO,EACL,iBAAiB,IAAI,yBAAyB,EAC9C,YAAY,IAAI,oBAAoB,GACrC,MAAM,kBAAkB,CAAA;AAEzB,OAAO,EACL,UAAU,IAAI,uBAAuB,EACrC,YAAY,IAAI,yBAAyB,GAC1C,MAAM,uBAAuB,CAAA;AAC9B,OAAO,EACL,iBAAiB,IAAI,0CAA0C,EAC/D,YAAY,IAAI,qCAAqC,GAEtD,MAAM,mCAAmC,CAAA;AAC1C,OAAO,EACL,iBAAiB,IAAI,4BAA4B,EACjD,YAAY,IAAI,uBAAuB,GACxC,MAAM,qBAAqB,CAAA;AAE5B,MAAM,iBAAiB,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,qBAAqB,CAAC,CAAC,CAAA;AAEnE,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,mBAAmB,CAAC,CAAC,CAAA;AAE/D,MAAM,CAAC,OAAO,MAAO,SAAQ,MAAM;IAAnC;;QACE,SAAI,GAAG,sBAAsB,CAAA;QAE7B,YAAO,GAAG;YACR,eAAe;YACf,iBAAiB;SAClB,CAAA;IAoEH,CAAC;IAlEC,OAAO,CAAC,aAA4B;QAClC,aAAa,CAAC,iBAAiB,CAC7B,GAAG,EAAE,CACH,IAAI,cAAc,CAAC;YACjB,IAAI,EAAE,wBAAwB;YAC9B,YAAY,EAAE,gBAAgB;YAC9B,UAAU,EAAE,gBAAgB,CAAC,aAAa,CAAC;YAC3C,WAAW,EAAE,gBAAgB;YAC7B,WAAW,EAAE,iDAAiD;YAC9D,GAAG,EAAE,6DAA6D;SACnE,CAAC,CACL,CAAA;QAED,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;YAC/B,OAAO,IAAI,UAAU,CAAC;gBACpB,IAAI,EAAE,iCAAiC;gBACvC,OAAO,EAAE,kBAAkB;gBAC3B,YAAY,EAAE,qCAAqC;gBACnD,UAAU,EAAE,0CAA0C,CAAC,aAAa,CAAC;gBACrE,cAAc,EAAE,IAAI,CAClB,GAAG,EAAE,CACH,MAAM,CACJ,wEAAwE,CACzE,CACJ;aACF,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEF,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;YAC/B,OAAO,IAAI,UAAU,CAAC;gBACpB,IAAI,EAAE,gBAAgB;gBACtB,OAAO,EAAE,aAAa;gBACtB,YAAY,EAAE,oBAAoB;gBAClC,UAAU,EAAE,yBAAyB,CAAC,aAAa,CAAC;gBACpD,cAAc,EAAE,IAAI,CAClB,GAAG,EAAE,CAAC,MAAM,CAAC,4CAA4C,CAAC,CAC3D;aACF,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEF,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;YAC/B,OAAO,IAAI,UAAU,CAAC;gBACpB,IAAI,EAAE,qBAAqB;gBAC3B,OAAO,EAAE,kBAAkB;gBAC3B,YAAY,EAAE,yBAAyB;gBACvC,UAAU,EAAE,uBAAuB;gBACnC,cAAc,EAAE,IAAI,CAClB,GAAG,EAAE,CAAC,MAAM,CAAC,sDAAsD,CAAC,CACrE;aACF,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEF,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;YAC/B,OAAO,IAAI,UAAU,CAAC;gBACpB,IAAI,EAAE,mBAAmB;gBACzB,OAAO,EAAE,cAAc;gBACvB,YAAY,EAAE,uBAAuB;gBACrC,UAAU,EAAE,4BAA4B,CAAC,aAAa,CAAC;gBACvD,cAAc,EAAE,IAAI,CAClB,GAAG,EAAE,CAAC,MAAM,CAAC,kDAAkD,CAAC,CACjE;aACF,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,SAAS,CAAC,cAA6B,IAAG,CAAC;CAC5C;AAED,OAAO,EAAE,eAAe,EAAE,iBAAiB,EAAE,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAC5B,OAAO,MAAM,MAAM,sBAAsB,CAAA;AAEzC,OAAO,uBAAuB,MAAM,iBAAiB,CAAA;AACrD,OAAO,eAAe,MAAM,kBAAkB,CAAA;AAE9C,OAAO,oBAAoB,MAAM,uBAAuB,CAAA;AACxD,OAAO,kBAAkB,MAAM,qBAAqB,CAAA;AACpD,OAAO,gCAEN,MAAM,mCAAmC,CAAA;AAE1C,MAAM,iBAAiB,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,qBAAqB,CAAC,CAAC,CAAA;AAEnE,MAAM,eAAe,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,MAAM,CAAC,mBAAmB,CAAC,CAAC,CAAA;AAE/D,MAAM,CAAC,OAAO,MAAO,SAAQ,MAAM;IAAnC;;QACE,SAAI,GAAG,sBAAsB,CAAA;QAE7B,YAAO,GAAG;YACR,eAAe;YACf,iBAAiB;SAClB,CAAA;IAWH,CAAC;IATC,OAAO,CAAC,aAA4B;QAClC,uBAAuB,CAAC,aAAa,CAAC,CAAA;QACtC,eAAe,CAAC,aAAa,CAAC,CAAA;QAC9B,gCAAgC,CAAC,aAAa,CAAC,CAAA;QAC/C,oBAAoB,CAAC,aAAa,CAAC,CAAA;QACnC,kBAAkB,CAAC,aAAa,CAAC,CAAA;IACnC,CAAC;IAED,SAAS,CAAC,cAA6B,IAAG,CAAC;CAC5C;AAED,OAAO,EAAE,eAAe,EAAE,iBAAiB,EAAE,CAAA"}

package/esm/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/esm/ucsc-trackhub/index.js

@@ -1,3 +1,14 @@
-export { default as modelFactory } from './model';
-export { default as configSchema } from './configSchema';
+import { ConnectionType } from '@jbrowse/core/pluggableElementTypes';
+import stateModelFactory from './model';
+import configSchema from './configSchema';
+export default (pluginManager) => {
+    pluginManager.addConnectionType(() => new ConnectionType({
+        name: 'UCSCTrackHubConnection',
+        configSchema,
+        stateModel: stateModelFactory(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/esm/ucsc-trackhub/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,SAAS,CAAA;AACjD,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,cAAc,EAAE,MAAM,qCAAqC,CAAA;AAGpE,OAAO,iBAAiB,MAAM,SAAS,CAAA;AACvC,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,iBAAiB,CAC7B,GAAG,EAAE,CACH,IAAI,cAAc,CAAC;QACjB,IAAI,EAAE,wBAAwB;QAC9B,YAAY;QACZ,UAAU,EAAE,iBAAiB,CAAC,aAAa,CAAC;QAC5C,WAAW,EAAE,gBAAgB;QAC7B,WAAW,EAAE,iDAAiD;QAC9D,GAAG,EAAE,6DAA6D;KACnE,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-data-management",
-  "version": "2.3.2",
+  "version": "2.3.4",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",
@@ -39,6 +39,7 @@
   "dependencies": {
     "@gmod/ucsc-hub": "^0.1.6",
     "@mui/icons-material": "^5.0.1",
+    "@mui/x-data-grid": "^5.0.1",
     "clsx": "^1.1.0",
     "react-virtualized-auto-sizer": "^1.0.2",
     "react-vtree": "^3.0.0-beta.1",
@@ -60,5 +61,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "467d973535bb7b2664e9f66311fb0dc21c1ce5ba"
+  "gitHead": "98ae48be91ee2371e1b2768a907b4997995e9915"
 }

package/src/AddConnectionWidget/components/{AddConnectionWidget.test.js → AddConnectionWidget.test.tsx}

@@ -1,14 +1,18 @@
-import { render, cleanup, fireEvent } from '@testing-library/react'
 import React from 'react'
+import { render, cleanup, fireEvent } from '@testing-library/react'
 import { createTestSession } from '@jbrowse/web/src/rootModel'
+
+// locals
 import AddConnectionWidget from './AddConnectionWidget'
+
 jest.mock('@jbrowse/web/src/makeWorkerInstance', () => () => {})
 
-window.fetch = jest.fn(() => new Promise(resolve => resolve()))
+// window.fetch = jest.fn(() => new Promise(resolve => resolve()))
 
 describe('<AddConnectionWidget />', () => {
-  let model
-  let session
+  // eslint-disable-next-line @typescript-eslint/no-explicit-any
+  let model: any
+  let session: ReturnType<typeof createTestSession>
 
   beforeEach(() => {
     session = createTestSession()
@@ -42,7 +46,8 @@ describe('<AddConnectionWidget />', () => {
   })
 
   it('can handle a custom UCSC trackHub URL', async () => {
-    const mockFetch = url => {
+    const mockFetch = async (url: RequestInfo | URL) => {
+      // @ts-ignore
       const urlText = url.href ? url.href : url
       let responseText = ''
       if (urlText.endsWith('hub.txt')) {
@@ -66,9 +71,11 @@ type bigWig
 `
       }
 
-      return Promise.resolve(new Response(responseText, { url: urlText }))
+      return new Response(responseText)
     }
+
     jest.spyOn(global, 'fetch').mockImplementation(mockFetch)
+
     const { findByTestId, getAllByRole, findAllByText, findByDisplayValue } =
       render(<AddConnectionWidget model={model} />)
     expect(session.connections.length).toBe(0)
@@ -90,7 +97,8 @@ type bigWig
   })
 
   it('can handle a custom JBrowse 1 data directory URL', async () => {
-    const mockFetch = url => {
+    const mockFetch = async (url: RequestInfo | URL) => {
+      // @ts-ignore
       const urlText = url.href ? url.href : url
       let responseText = ''
       if (urlText.endsWith('trackList.json')) {
@@ -98,9 +106,10 @@ type bigWig
       } else if (urlText.endsWith('refSeqs.json')) {
         responseText = '[]'
       }
-      return Promise.resolve(new Response(responseText, { url: urlText }))
+      return new Response(responseText)
     }
     jest.spyOn(global, 'fetch').mockImplementation(mockFetch)
+
     const {
       findByTestId,
       getAllByRole,

package/src/AddConnectionWidget/index.ts

@@ -1,4 +1,19 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
+import { WidgetType } from '@jbrowse/core/pluggableElementTypes'
+import PluginManager from '@jbrowse/core/PluginManager'
+import { lazy } from 'react'
 
-export { default as stateModel } from './model'
-export const configSchema = ConfigurationSchema('AddConnectionWidget', {})
+import stateModel from './model'
+const configSchema = ConfigurationSchema('AddConnectionWidget', {})
+
+export default (pluginManager: PluginManager) => {
+  pluginManager.addWidgetType(() => {
+    return new WidgetType({
+      name: 'AddConnectionWidget',
+      heading: 'Add a connection',
+      configSchema,
+      stateModel,
+      ReactComponent: lazy(() => import('./components/AddConnectionWidget')),
+    })
+  })
+}

package/src/AddTrackWidget/components/DefaultAddTrackWorkflow.tsx

@@ -32,15 +32,12 @@ 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/src/AddTrackWidget/components/TrackSourceSelect.tsx

@@ -1,5 +1,6 @@
 import React from 'react'
 import { FileSelector } from '@jbrowse/core/ui'
+import { AbstractRootModel } from '@jbrowse/core/util'
 import { Paper } from '@mui/material'
 import { makeStyles } from 'tss-react/mui'
 import { getRoot } from 'mobx-state-tree'
@@ -10,9 +11,7 @@ import { AddTrackModel } from '../model'
 
 const useStyles = makeStyles()(theme => ({
   paper: {
-    display: 'flex',
-    flexDirection: 'column',
-    padding: theme.spacing(1),
+    padding: theme.spacing(2),
   },
   spacer: {
     height: theme.spacing(8),
@@ -21,8 +20,7 @@ const useStyles = makeStyles()(theme => ({
 
 function TrackSourceSelect({ model }: { model: AddTrackModel }) {
   const { classes } = useStyles()
-  // eslint-disable-next-line @typescript-eslint/no-explicit-any
-  const rootModel = getRoot<any>(model)
+  const rootModel = getRoot<AbstractRootModel>(model)
 
   return (
     <Paper className={classes.paper}>

package/src/AddTrackWidget/{index.test.jsx → index.test.tsx}

@@ -52,10 +52,13 @@ function standardInitializer() {
 const realLocation = window.location
 
 // https://stackoverflow.com/a/60110508/2129219
-function setWindowLoc(loc) {
+function setWindowLoc(loc: string) {
+  // @ts-ignore
   delete window.location
+  // @ts-ignore
   window.location = new URL(loc)
 }
+
 const FakeViewModel = types.model('FakeView', {
   id: types.identifier,
   type: types.literal('FakeView'),
@@ -67,7 +70,7 @@ const FakeViewModel = types.model('FakeView', {
 class FakeViewPlugin extends Plugin {
   name = 'FakeViewPlugin'
 
-  install(pluginManager) {
+  install(pluginManager: PluginManager) {
     pluginManager.addViewType(() => {
       return new ViewType({
         name: 'FakeView',
@@ -79,7 +82,7 @@ class FakeViewPlugin extends Plugin {
 }
 
 describe('tests on an LGV type system with view.assemblyNames, using URL', () => {
-  let session
+  let session: ReturnType<typeof standardInitializer>
   beforeEach(() => {
     session = standardInitializer()
   })
@@ -89,7 +92,6 @@ describe('tests on an LGV type system with view.assemblyNames, using URL', () =>
   })
 
   it('adds relative URL (BAM)', () => {
-    console.warn = jest.fn()
     const { widget } = session
     widget.setTrackData({
       uri: 'volvox-sorted.bam',
@@ -135,45 +137,40 @@ describe('tests on an LGV type system with view.assemblyNames, using URL', () =>
   })
 })
 
-describe('tests on an view without view.assemblyNames', () => {
-  let session
-  beforeEach(() => {
-    const pluginManager = new PluginManager([new FakeViewPlugin()])
-    pluginManager.createPluggableElements()
-    pluginManager.configure()
-    const SessionModel = types.model({
-      view: FakeViewModel,
-      widget: stateModelFactory(pluginManager),
-    })
+test('tests on an view without view.assemblyNames', () => {
+  const pluginManager = new PluginManager([new FakeViewPlugin()])
+  pluginManager.createPluggableElements()
+  pluginManager.configure()
 
-    // no assemblyNames on the view, just in case some view does not implement
-    // view.assemblyNames (it is just a convenience)
-    session = SessionModel.create({
-      view: {
-        type: 'FakeView',
-        id: 'testing',
-      },
-      widget: {
-        type: 'AddTrackWidget',
-        view: 'testing',
-      },
-    })
+  const SessionModel = types.model({
+    view: FakeViewModel,
+    widget: stateModelFactory(pluginManager),
+  })
+  // no assemblyNames on the view, just in case some view does not implement
+  // view.assemblyNames (it is just a convenience)
+  const session = SessionModel.create({
+    view: {
+      type: 'FakeView',
+      id: 'testing',
+    },
+    widget: {
+      type: 'AddTrackWidget',
+      view: 'testing',
+    },
   })
 
-  it('adds url', () => {
-    const { widget } = session
-    widget.setTrackData({
-      uri: 'volvox-sorted.bam',
-      locationType: 'UriLocation',
-    })
-    expect(widget.trackName).toBe('volvox-sorted.bam')
-    expect(widget.isRelativeUrl).toBe(true)
-    expect(widget.assembly).toBe(undefined)
+  const { widget } = session
+  widget.setTrackData({
+    uri: 'volvox-sorted.bam',
+    locationType: 'UriLocation',
   })
+  expect(widget.trackName).toBe('volvox-sorted.bam')
+  expect(widget.isRelativeUrl).toBe(true)
+  expect(widget.assembly).toBe(undefined)
 })
 
 describe('tests different file types', () => {
-  let session
+  let session: ReturnType<typeof standardInitializer>
   beforeEach(() => {
     session = standardInitializer()
   })
@@ -229,7 +226,7 @@ describe('tests different file types', () => {
 })
 
 describe('tests localpath', () => {
-  let session
+  let session: ReturnType<typeof standardInitializer>
   beforeEach(() => {
     session = standardInitializer()
   })

package/src/AddTrackWidget/index.ts

@@ -1,4 +1,19 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
+import { WidgetType } from '@jbrowse/core/pluggableElementTypes'
+import PluginManager from '@jbrowse/core/PluginManager'
+import { lazy } from 'react'
 
-export { default as stateModelFactory } from './model'
-export const configSchema = ConfigurationSchema('AddTrackWidget', {})
+import stateModelFactory from './model'
+const configSchema = ConfigurationSchema('AddTrackWidget', {})
+
+export default (pluginManager: PluginManager) => {
+  pluginManager.addWidgetType(() => {
+    return new WidgetType({
+      name: 'AddTrackWidget',
+      heading: 'Add a track',
+      configSchema,
+      stateModel: stateModelFactory(pluginManager),
+      ReactComponent: lazy(() => import('./components/AddTrackWidget')),
+    })
+  })
+}

package/src/HierarchicalTrackSelectorWidget/components/HierarchicalFab.tsx

@@ -0,0 +1,94 @@
+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'
+
+// locals
+import { HierarchicalTrackSelectorModel } from '../model'
+
+const useStyles = makeStyles()(theme => ({
+  fab: {
+    position: 'absolute',
+    bottom: theme.spacing(6),
+    right: theme.spacing(6),
+  },
+}))
+
+export default observer(function HierarchicalFab({
+  model,
+}: {
+  model: HierarchicalTrackSelectorModel
+}) {
+  const { classes } = useStyles()
+  const session = getSession(model)
+  const [anchorEl, setAnchorEl] = useState<HTMLButtonElement | null>(null)
+
+  function handleFabClose() {
+    setAnchorEl(null)
+  }
+  const hasConnections = isSessionModelWithConnections(session)
+  const hasAddTrack = isSessionWithAddTracks(session)
+  return (
+    <>
+      {hasAddTrack || hasConnections ? (
+        <>
+          <Fab
+            color="secondary"
+            className={classes.fab}
+            onClick={event => setAnchorEl(event.currentTarget)}
+          >
+            <AddIcon />
+          </Fab>
+          <Menu
+            anchorEl={anchorEl}
+            open={Boolean(anchorEl)}
+            onClose={() => setAnchorEl(null)}
+          >
+            {hasConnections ? (
+              <MenuItem
+                onClick={() => {
+                  handleFabClose()
+                  if (isSessionModelWithWidgets(session)) {
+                    session.showWidget(
+                      session.addWidget(
+                        'AddConnectionWidget',
+                        'addConnectionWidget',
+                      ),
+                    )
+                  }
+                }}
+              >
+                Add connection
+              </MenuItem>
+            ) : null}
+            {hasAddTrack ? (
+              <MenuItem
+                onClick={() => {
+                  handleFabClose()
+                  if (isSessionModelWithWidgets(session)) {
+                    session.showWidget(
+                      session.addWidget('AddTrackWidget', 'addTrackWidget', {
+                        view: model.view.id,
+                      }),
+                    )
+                  }
+                }}
+              >
+                Add track
+              </MenuItem>
+            ) : null}
+          </Menu>
+        </>
+      ) : null}
+    </>
+  )
+})