@jbrowse/plugin-breakpoint-split-view 2.7.1 → 2.7.2

package/dist/BreakpointSplitView/model.d.ts

@@ -24,6 +24,9 @@ export interface Breakend {
     MatePosition: string;
 }
 export type LayoutRecord = [number, number, number, number];
+/**
+ * #stateModel BreakpointSplitView
+ */
 export default function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
@@ -59,9 +62,9 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
         hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
         trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-        trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
         showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
         showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     }, {
         width: number;
@@ -84,6 +87,7 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         leftOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined;
         rightOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined;
     } & {
+        readonly trackLabelsSetting: any;
         readonly width: number;
         readonly interRegionPaddingWidth: number;
         readonly assemblyNames: string[];
@@ -242,10 +246,32 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
      */
     exportSvg(opts?: ExportSvgOptions): Promise<void>;
 } & {
+    /**
+     * #getter
+     * Find all track ids that match across multiple views
+     */
     readonly matchedTracks: any[];
+    /**
+     * #method
+     * Get tracks with a given trackId across multiple views
+     */
     getMatchedTracks(trackConfigId: string): any[];
+    /**
+     * #method
+     *
+     * Translocation features are handled differently
+     * since they do not have a mate e.g. they are one sided
+     */
     hasTranslocations(trackConfigId: string): Feature | undefined;
+    /**
+     * #method
+     * Get a composite map of featureId-\>feature map for a track across
+     * multiple views
+     */
     getTrackFeatures(trackConfigId: string): Map<string, Feature>;
+    /**
+     * #method
+     */
     getMatchedFeaturesInLayout(trackConfigId: string, features: Feature[][]): {
         feature: Feature;
         layout: LayoutRecord | undefined;
@@ -254,15 +280,39 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
 } & {
     afterAttach(): void;
     onSubviewAction(actionName: string, path: string, args?: unknown[]): void;
+    /**
+     * #action
+     */
     setWidth(newWidth: number): void;
+    /**
+     * #action
+     */
     removeView(view: LGV): void;
+    /**
+     * #action
+     */
     closeView(): void;
+    /**
+     * #action
+     */
     toggleInteract(): void;
+    /**
+     * #action
+     */
     toggleIntraviewLinks(): void;
+    /**
+     * #action
+     */
     toggleLinkViews(): void;
+    /**
+     * #action
+     */
     setMatchedTrackFeatures(obj: Record<string, Feature[][]>): void;
 } & {
     afterAttach(): void;
+    /**
+     * #method
+     */
     menuItems(): ({
         label: string;
         subMenu: import("@jbrowse/core/ui").MenuItem[];

package/dist/BreakpointSplitView/model.js

@@ -59,20 +59,44 @@ async function getBlockFeatures(model, track) {
         regions: view.staticBlocks.contentBlocks,
     })).flat()));
 }
+/**
+ * #stateModel BreakpointSplitView
+ */
 function stateModelFactory(pluginManager) {
     const minHeight = 40;
     const defaultHeight = 400;
-    const model = mobx_state_tree_1.types
-        .model('BreakpointSplitView', {
+    return mobx_state_tree_1.types
+        .compose('BreakpointSplitView', models_1.BaseViewModel, mobx_state_tree_1.types.model({
+        /**
+         * #property
+         */
         type: mobx_state_tree_1.types.literal('BreakpointSplitView'),
+        /**
+         * #property
+         */
         height: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.refinement('viewHeight', mobx_state_tree_1.types.number, (n) => n >= minHeight), defaultHeight),
+        /**
+         * #property
+         */
         trackSelectorType: 'hierarchical',
+        /**
+         * #property
+         */
         showIntraviewLinks: true,
+        /**
+         * #property
+         */
         linkViews: false,
+        /**
+         * #property
+         */
         interactToggled: false,
+        /**
+         * #property
+         */
         views: mobx_state_tree_1.types.array(pluginManager.getViewType('LinearGenomeView')
             .stateModel),
-    })
+    }))
         .volatile(() => ({
         width: 800,
         matchedTrackFeatures: {},
@@ -90,27 +114,43 @@ function stateModelFactory(pluginManager) {
         },
     }))
         .views(self => ({
-        // Find all track ids that match across multiple views
+        /**
+         * #getter
+         * Find all track ids that match across multiple views
+         */
         get matchedTracks() {
             return (0, util_2.intersect)(elt => elt.configuration.trackId, ...self.views.map(view => view.tracks));
         },
-        // Get tracks with a given trackId across multiple views
+        /**
+         * #method
+         * Get tracks with a given trackId across multiple views
+         */
         getMatchedTracks(trackConfigId) {
             return self.views
                 .map(view => view.getTrack(trackConfigId))
                 .filter(f => !!f);
         },
-        // Translocation features are handled differently
-        // since they do not have a mate e.g. they are one sided
+        /**
+         * #method
+         *
+         * Translocation features are handled differently
+         * since they do not have a mate e.g. they are one sided
+         */
         hasTranslocations(trackConfigId) {
             return [...this.getTrackFeatures(trackConfigId).values()].find(f => f.get('type') === 'translocation');
         },
-        // Get a composite map of featureId->feature map for a track across
-        // multiple views
+        /**
+         * #method
+         * Get a composite map of featureId-\>feature map for a track across
+         * multiple views
+         */
         getTrackFeatures(trackConfigId) {
             var _a;
             return new Map((_a = self.matchedTrackFeatures[trackConfigId]) === null || _a === void 0 ? void 0 : _a.flat().map(f => [f.id(), f]));
         },
+        /**
+         * #method
+         */
         getMatchedFeaturesInLayout(trackConfigId, features) {
             // use reverse to search the second track first
             const tracks = this.getMatchedTracks(trackConfigId);
@@ -157,26 +197,47 @@ function stateModelFactory(pluginManager) {
                 }
             });
         },
+        /**
+         * #action
+         */
         setWidth(newWidth) {
             self.width = newWidth;
             self.views.forEach(v => v.setWidth(newWidth));
         },
+        /**
+         * #action
+         */
         removeView(view) {
             self.views.remove(view);
         },
+        /**
+         * #action
+         */
         closeView() {
             // eslint-disable-next-line @typescript-eslint/no-explicit-any
             (0, mobx_state_tree_1.getParent)(self, 2).removeView(self);
         },
+        /**
+         * #action
+         */
         toggleInteract() {
             self.interactToggled = !self.interactToggled;
         },
+        /**
+         * #action
+         */
         toggleIntraviewLinks() {
             self.showIntraviewLinks = !self.showIntraviewLinks;
         },
+        /**
+         * #action
+         */
         toggleLinkViews() {
             self.linkViews = !self.linkViews;
         },
+        /**
+         * #action
+         */
         setMatchedTrackFeatures(obj) {
             self.matchedTrackFeatures = obj;
         },
@@ -200,6 +261,9 @@ function stateModelFactory(pluginManager) {
                 }
             }));
         },
+        /**
+         * #method
+         */
         menuItems() {
             return [
                 ...self.views
@@ -240,6 +304,5 @@ function stateModelFactory(pluginManager) {
             ];
         },
     }));
-    return mobx_state_tree_1.types.compose(models_1.BaseViewModel, model);
 }
 exports.default = stateModelFactory;

package/esm/BreakpointSplitView/model.d.ts

@@ -24,6 +24,9 @@ export interface Breakend {
     MatePosition: string;
 }
 export type LayoutRecord = [number, number, number, number];
+/**
+ * #stateModel BreakpointSplitView
+ */
 export default function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
@@ -59,9 +62,9 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
         hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
         trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-        trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
         showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
         showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     }, {
         width: number;
@@ -84,6 +87,7 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         leftOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined;
         rightOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").BpOffset | undefined;
     } & {
+        readonly trackLabelsSetting: any;
         readonly width: number;
         readonly interRegionPaddingWidth: number;
         readonly assemblyNames: string[];
@@ -242,10 +246,32 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
      */
     exportSvg(opts?: ExportSvgOptions): Promise<void>;
 } & {
+    /**
+     * #getter
+     * Find all track ids that match across multiple views
+     */
     readonly matchedTracks: any[];
+    /**
+     * #method
+     * Get tracks with a given trackId across multiple views
+     */
     getMatchedTracks(trackConfigId: string): any[];
+    /**
+     * #method
+     *
+     * Translocation features are handled differently
+     * since they do not have a mate e.g. they are one sided
+     */
     hasTranslocations(trackConfigId: string): Feature | undefined;
+    /**
+     * #method
+     * Get a composite map of featureId-\>feature map for a track across
+     * multiple views
+     */
     getTrackFeatures(trackConfigId: string): Map<string, Feature>;
+    /**
+     * #method
+     */
     getMatchedFeaturesInLayout(trackConfigId: string, features: Feature[][]): {
         feature: Feature;
         layout: LayoutRecord | undefined;
@@ -254,15 +280,39 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
 } & {
     afterAttach(): void;
     onSubviewAction(actionName: string, path: string, args?: unknown[]): void;
+    /**
+     * #action
+     */
     setWidth(newWidth: number): void;
+    /**
+     * #action
+     */
     removeView(view: LGV): void;
+    /**
+     * #action
+     */
     closeView(): void;
+    /**
+     * #action
+     */
     toggleInteract(): void;
+    /**
+     * #action
+     */
     toggleIntraviewLinks(): void;
+    /**
+     * #action
+     */
     toggleLinkViews(): void;
+    /**
+     * #action
+     */
     setMatchedTrackFeatures(obj: Record<string, Feature[][]>): void;
 } & {
     afterAttach(): void;
+    /**
+     * #method
+     */
     menuItems(): ({
         label: string;
         subMenu: import("@jbrowse/core/ui").MenuItem[];

package/esm/BreakpointSplitView/model.js

@@ -31,20 +31,44 @@ async function getBlockFeatures(model, track) {
         regions: view.staticBlocks.contentBlocks,
     })).flat()));
 }
+/**
+ * #stateModel BreakpointSplitView
+ */
 export default function stateModelFactory(pluginManager) {
     const minHeight = 40;
     const defaultHeight = 400;
-    const model = types
-        .model('BreakpointSplitView', {
+    return types
+        .compose('BreakpointSplitView', BaseViewModel, types.model({
+        /**
+         * #property
+         */
         type: types.literal('BreakpointSplitView'),
+        /**
+         * #property
+         */
         height: types.optional(types.refinement('viewHeight', types.number, (n) => n >= minHeight), defaultHeight),
+        /**
+         * #property
+         */
         trackSelectorType: 'hierarchical',
+        /**
+         * #property
+         */
         showIntraviewLinks: true,
+        /**
+         * #property
+         */
         linkViews: false,
+        /**
+         * #property
+         */
         interactToggled: false,
+        /**
+         * #property
+         */
         views: types.array(pluginManager.getViewType('LinearGenomeView')
             .stateModel),
-    })
+    }))
         .volatile(() => ({
         width: 800,
         matchedTrackFeatures: {},
@@ -62,27 +86,43 @@ export default function stateModelFactory(pluginManager) {
         },
     }))
         .views(self => ({
-        // Find all track ids that match across multiple views
+        /**
+         * #getter
+         * Find all track ids that match across multiple views
+         */
         get matchedTracks() {
             return intersect(elt => elt.configuration.trackId, ...self.views.map(view => view.tracks));
         },
-        // Get tracks with a given trackId across multiple views
+        /**
+         * #method
+         * Get tracks with a given trackId across multiple views
+         */
         getMatchedTracks(trackConfigId) {
             return self.views
                 .map(view => view.getTrack(trackConfigId))
                 .filter(f => !!f);
         },
-        // Translocation features are handled differently
-        // since they do not have a mate e.g. they are one sided
+        /**
+         * #method
+         *
+         * Translocation features are handled differently
+         * since they do not have a mate e.g. they are one sided
+         */
         hasTranslocations(trackConfigId) {
             return [...this.getTrackFeatures(trackConfigId).values()].find(f => f.get('type') === 'translocation');
         },
-        // Get a composite map of featureId->feature map for a track across
-        // multiple views
+        /**
+         * #method
+         * Get a composite map of featureId-\>feature map for a track across
+         * multiple views
+         */
         getTrackFeatures(trackConfigId) {
             var _a;
             return new Map((_a = self.matchedTrackFeatures[trackConfigId]) === null || _a === void 0 ? void 0 : _a.flat().map(f => [f.id(), f]));
         },
+        /**
+         * #method
+         */
         getMatchedFeaturesInLayout(trackConfigId, features) {
             // use reverse to search the second track first
             const tracks = this.getMatchedTracks(trackConfigId);
@@ -129,26 +169,47 @@ export default function stateModelFactory(pluginManager) {
                 }
             });
         },
+        /**
+         * #action
+         */
         setWidth(newWidth) {
             self.width = newWidth;
             self.views.forEach(v => v.setWidth(newWidth));
         },
+        /**
+         * #action
+         */
         removeView(view) {
             self.views.remove(view);
         },
+        /**
+         * #action
+         */
         closeView() {
             // eslint-disable-next-line @typescript-eslint/no-explicit-any
             getParent(self, 2).removeView(self);
         },
+        /**
+         * #action
+         */
         toggleInteract() {
             self.interactToggled = !self.interactToggled;
         },
+        /**
+         * #action
+         */
         toggleIntraviewLinks() {
             self.showIntraviewLinks = !self.showIntraviewLinks;
         },
+        /**
+         * #action
+         */
         toggleLinkViews() {
             self.linkViews = !self.linkViews;
         },
+        /**
+         * #action
+         */
         setMatchedTrackFeatures(obj) {
             self.matchedTrackFeatures = obj;
         },
@@ -172,6 +233,9 @@ export default function stateModelFactory(pluginManager) {
                 }
             }));
         },
+        /**
+         * #method
+         */
         menuItems() {
             return [
                 ...self.views
@@ -212,5 +276,4 @@ export default function stateModelFactory(pluginManager) {
             ];
         },
     }));
-    return types.compose(BaseViewModel, model);
 }

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-breakpoint-split-view",
-  "version": "2.7.1",
+  "version": "2.7.2",
   "description": "JBrowse 2 breakpoint detail split view",
   "keywords": [
     "jbrowse",
@@ -58,5 +58,5 @@
   "publishConfig": {
     "access": "public"
   },
-  "gitHead": "2cda1611eebd12517f2a3cfc1b612face27005d4"
+  "gitHead": "9052b295f2d322e729254457ed9fe2231fb22cce"
 }