@jbrowse/plugin-data-management 2.8.0 → 2.10.0

package/dist/HierarchicalTrackSelectorWidget/generateHierarchy.js

@@ -40,7 +40,7 @@ function sortConfs(confs, sortNames, sortCategories) {
     }
     return ret.map(a => a[0]);
 }
-function generateHierarchy({ model, trackConfs, extra, }) {
+function generateHierarchy({ model, trackConfs, extra, noCategories, menuItems, }) {
     const hierarchy = { children: [] };
     const { collapsed, filterText, activeSortTrackNames, activeSortCategories, view, } = model;
     if (!view) {
@@ -59,25 +59,29 @@ function generateHierarchy({ model, trackConfs, extra, }) {
             categories.unshift(' Session tracks');
         }
         let currLevel = hierarchy;
-        // find existing category to put track into or create it
-        for (let i = 0; i < categories.length; i++) {
-            const category = categories[i];
-            const ret = currLevel.children.find(c => c.name === category);
-            const id = [extra, categories.slice(0, i + 1).join(',')]
-                .filter(f => !!f)
-                .join('-');
-            if (!ret) {
-                const n = {
-                    children: [],
-                    name: category,
-                    id,
-                    isOpenByDefault: !collapsed.get(id),
-                };
-                currLevel.children.push(n);
-                currLevel = n;
-            }
-            else {
-                currLevel = ret;
+        if (!noCategories) {
+            // find existing category to put track into or create it
+            for (let i = 0; i < categories.length; i++) {
+                const category = categories[i];
+                const ret = currLevel.children.find(c => c.name === category);
+                const id = [extra, categories.slice(0, i + 1).join(',')]
+                    .filter(f => !!f)
+                    .join('-');
+                if (!ret) {
+                    const n = {
+                        children: [],
+                        name: category,
+                        id,
+                        isOpenByDefault: !collapsed.get(id),
+                        menuItems,
+                        type: 'category',
+                    };
+                    currLevel.children.push(n);
+                    currLevel = n;
+                }
+                else {
+                    currLevel = ret;
+                }
             }
         }
         // uses splice to try to put all leaf nodes above "category nodes" if you
@@ -86,11 +90,13 @@ function generateHierarchy({ model, trackConfs, extra, }) {
         const r = currLevel.children.findIndex(elt => elt.children.length);
         const idx = r === -1 ? currLevel.children.length : r;
         currLevel.children.splice(idx, 0, {
-            id: conf.trackId,
+            id: [extra, conf.trackId].filter(f => !!f).join(','),
+            trackId: conf.trackId,
             name: (0, tracks_1.getTrackName)(conf, session),
             conf,
             checked: viewTracks.some(f => f.configuration === conf),
             children: [],
+            type: 'track',
         });
     }
     return hierarchy.children;

package/dist/HierarchicalTrackSelectorWidget/model.d.ts

@@ -1,7 +1,7 @@
 import { Instance } from 'mobx-state-tree';
 import { AnyConfigurationModel } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
-import { TreeNode } from './generateHierarchy';
+type MaybeAnyConfigurationModel = AnyConfigurationModel | undefined;
 /**
  * #stateModel HierarchicalTrackSelectorWidget
  */
@@ -34,13 +34,103 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
      * #property
      */
     view: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+    /**
+     * #property
+     */
+    faceted: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
+        filterText: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+        showSparse: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        showFilters: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        showOptions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        panelWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>; /**
+         * #property
+         */
+    }, {
+        visible: Record<string, boolean>;
+        widths: Record<string, number | undefined>;
+        useShoppingCart: boolean;
+        filters: import("mobx").ObservableMap<string, string[]>;
+    } & {
+        setFilter(key: string, value: string[]): void;
+        setPanelWidth(width: number): void;
+        setUseShoppingCart(f: boolean): void;
+        setFilterText(str: string): void;
+        setShowSparse(f: boolean): void;
+        setShowOptions(f: boolean): void; /**
+         * #getter
+         */
+        setShowFilters(f: boolean): void;
+    } & {
+        readonly allTrackConfigurations: ({
+            [x: string]: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            setSubschema(slotName: string, data: unknown): any;
+        } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+    } & {
+        readonly rows: {
+            readonly id: string;
+            readonly conf: {
+                [x: string]: any;
+            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+                setSubschema(slotName: string, data: unknown): any;
+            } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
+            readonly name: string;
+            readonly category: string;
+            readonly adapter: string;
+            readonly description: string;
+            readonly metadata: any;
+        }[];
+    } & {
+        readonly filteredNonMetadataKeys: string[] | readonly ["category", "adapter", "description"];
+        readonly metadataKeys: string[];
+        readonly filteredMetadataKeys: string[];
+        readonly fields: string[];
+        readonly filteredRows: {
+            readonly id: string;
+            readonly conf: {
+                [x: string]: any;
+            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+                setSubschema(slotName: string, data: unknown): any;
+            } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
+            readonly name: string;
+            readonly category: string;
+            readonly adapter: string;
+            readonly description: string;
+            readonly metadata: any;
+        }[];
+    } & {
+        setVisible(args: Record<string, boolean>): void;
+        setWidths(args: Record<string, number | undefined>): void;
+        afterAttach(): void;
+    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
 }, {
+    favorites: string[];
+    recentlyUsed: string[];
     selection: ({
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
         setSubschema(slotName: string, data: unknown): any;
     } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
     filterText: string;
+    recentlyUsedCounter: number;
+    favoritesCounter: number;
+} & {
+    /**
+     * #getter
+     */
+    readonly selectionSet: Set<{
+        [x: string]: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        setSubschema(slotName: string, data: unknown): any;
+    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>>;
+    /**
+     * #getter
+     */
+    readonly favoritesSet: Set<string>;
+    /**
+     * #getter
+     */
+    readonly recentlyUsedSet: Set<string>;
 } & {
     /**
      * #action
@@ -66,6 +156,42 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
      * #action
      */
     clearSelection(): void;
+    /**
+     * #action
+     */
+    addToFavorites(trackId: string): void;
+    /**
+     * #action
+     */
+    removeFromFavorites(trackId: string): void;
+    /**
+     * #action
+     */
+    clearFavorites(): void;
+    /**
+     * #action
+     */
+    setRecentlyUsedCounter(val: number): void;
+    /**
+     * #action
+     */
+    setRecentlyUsed(str: string[]): void;
+    /**
+     * #action
+     */
+    setFavorites(str: string[]): void;
+    /**
+     * #action
+     */
+    setFavoritesCounter(val: number): void;
+    /**
+     * #action
+     */
+    addToRecentlyUsed(id: string): void;
+    /**
+     * #action
+     */
+    clearRecentlyUsed(): void;
     /**
      * #action
      */
@@ -94,13 +220,33 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
     /**
      * #method
      */
-    getRefSeqTrackConf(assemblyName: string): AnyConfigurationModel | undefined;
+    isSelected(track: AnyConfigurationModel): boolean;
+    /**
+     * #method
+     */
+    isFavorite(trackId: string): boolean;
+    /**
+     * #method
+     */
+    isRecentlyUsed(trackId: string): boolean;
+    /**
+     * #method
+     */
+    getRefSeqTrackConf(assemblyName: string): MaybeAnyConfigurationModel;
 } & {
     /**
      * #getter
      */
     readonly assemblyNames: string[];
 } & {
+    /**
+     * #getter
+     */
+    readonly recentlyUsedLocalStorageKey: string;
+    /**
+     * #getter
+     */
+    readonly favoritesLocalStorageKey: string;
     /**
      * #getter
      */
@@ -110,34 +256,53 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
      */
     readonly activeSortCategories: any;
     /**
-     * #method
-     * filter out tracks that don't match the current display types
+     * #getter
+     * filter out tracks that don't match the current assembly/display types
      */
-    connectionTrackConfigurations(connection: {
-        tracks: AnyConfigurationModel[];
-    }): ({
+    readonly configAndSessionTrackConfigurations: ({
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
         setSubschema(slotName: string, data: unknown): any;
     } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
     /**
      * #getter
-     * filter out tracks that don't match the current assembly/display types
      */
-    readonly trackConfigurations: ({
+    readonly allTrackConfigurations: ({
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
         setSubschema(slotName: string, data: unknown): any;
     } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+    /**
+     * #getter
+     */
+    readonly allTrackConfigurationTrackIdSet: Map<any, {
+        [x: string]: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        setSubschema(slotName: string, data: unknown): any;
+    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>>;
 } & {
     /**
-     * #method
+     * #getter
+     * filters out tracks that are not in the favorites group
      */
-    connectionHierarchy(connection: {
-        name: string;
-        tracks: AnyConfigurationModel[];
-    }): TreeNode[];
+    readonly favoriteTracks: ({
+        [x: string]: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        setSubschema(slotName: string, data: unknown): any;
+    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+    /**
+     * #getter
+     * filters out tracks that are not in the recently used group
+     */
+    readonly recentlyUsedTracks: ({
+        [x: string]: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        setSubschema(slotName: string, data: unknown): any;
+    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
 } & {
+    /**
+     * #getter
+     */
     readonly allTracks: {
         group: any;
         tracks: ({
@@ -145,6 +310,8 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
             setSubschema(slotName: string, data: unknown): any;
         } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+        noCategories: boolean;
+        menuItems: never[];
     }[];
 } & {
     /**
@@ -153,10 +320,15 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
     readonly hierarchy: {
         name: string;
         id: string;
+        isOpenByDefault: boolean;
+        type: "category";
         children: {
             name: any;
             id: any;
-            children: TreeNode[];
+            type: "category";
+            isOpenByDefault: boolean;
+            menuItems: never[];
+            children: import("./generateHierarchy").TreeNode[];
         }[];
     };
 } & {
@@ -171,7 +343,13 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
 } & {
     afterCreate(): void;
 } & {
+    /**
+     * #getter
+     */
     readonly hasAnySubcategories: boolean;
+} & {
+    afterAttach(): void;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
 export type HierarchicalTrackSelectorStateModel = ReturnType<typeof stateTreeFactory>;
 export type HierarchicalTrackSelectorModel = Instance<HierarchicalTrackSelectorStateModel>;
+export {};