@jbrowse/plugin-linear-genome-view 2.12.0 → 2.12.2

package/dist/searchUtils.js

@@ -3,7 +3,11 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.splitLast = exports.fetchResults = exports.checkRef = exports.handleSelectedRegion = exports.navToOption = void 0;
+exports.navToOption = navToOption;
+exports.handleSelectedRegion = handleSelectedRegion;
+exports.checkRef = checkRef;
+exports.fetchResults = fetchResults;
+exports.splitLast = splitLast;
 const util_1 = require("@jbrowse/core/util");
 const BaseResults_1 = __importDefault(require("@jbrowse/core/TextSearch/BaseResults"));
 const util_2 = require("@jbrowse/core/util");
@@ -17,7 +21,6 @@ async function navToOption({ option, model, assemblyName, }) {
         }
     }
 }
-exports.navToOption = navToOption;
 // gets a string as input, or use stored option results from previous query,
 // then re-query and
 // 1) if it has multiple results: pop a dialog
@@ -55,13 +58,11 @@ async function handleSelectedRegion({ input, model, assembly, }) {
         }
     }
 }
-exports.handleSelectedRegion = handleSelectedRegion;
 function checkRef(str, allRefs) {
     const [ref, rest] = splitLast(str, ':');
     return (allRefs.includes(str) ||
         (allRefs.includes(ref) && !Number.isNaN(Number.parseInt(rest, 10))));
 }
-exports.checkRef = checkRef;
 async function fetchResults({ queryString, searchType, searchScope, rankSearchResults, textSearchManager, assembly, }) {
     var _a;
     if (!textSearchManager) {
@@ -74,7 +75,6 @@ async function fetchResults({ queryString, searchType, searchScope, rankSearchRe
     const refNameResults = (_a = assembly === null || assembly === void 0 ? void 0 : assembly.allRefNames) === null || _a === void 0 ? void 0 : _a.filter(ref => ref.toLowerCase().startsWith(queryString.toLowerCase())).slice(0, 10).map(r => new BaseResults_1.default({ label: r }));
     return (0, util_2.dedupe)([...(refNameResults || []), ...(textSearchResults || [])], elt => elt.getId());
 }
-exports.fetchResults = fetchResults;
 // splits on the last instance of a character
 function splitLast(str, split) {
     const lastIndex = str.lastIndexOf(split);
@@ -87,4 +87,3 @@ function splitLast(str, split) {
         return [before, after];
     }
 }
-exports.splitLast = splitLast;

package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts

@@ -50,7 +50,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     }, {
         renderInProgress: AbortController | undefined;
         filled: boolean;
-        reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+        reactElement: React.ReactElement | undefined;
         features: Map<string, Feature> | undefined;
         layout: any;
         status: string;
@@ -62,9 +62,9 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
                 error?: unknown;
                 reload: () => void;
                 message: React.ReactNode;
-                filled?: boolean | undefined;
-                status?: string | undefined;
-                reactElement?: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+                filled?: boolean;
+                status?: string;
+                reactElement?: React.ReactElement;
             };
         }) => React.JSX.Element | undefined;
         renderProps: any;
@@ -75,7 +75,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
+            reactElement: React.ReactElement;
             features: Map<string, Feature>;
             layout: any;
             maxHeightReached: boolean;
@@ -139,8 +139,8 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             error: unknown;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        onHorizontalScroll?: Function | undefined;
-        blockState?: Record<string, any> | undefined;
+        onHorizontalScroll?: Function;
+        blockState?: Record<string, any>;
     }>;
     readonly DisplayBlurb: React.FC<{
         model: {
@@ -165,12 +165,12 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     readonly parentTrack: any;
     renderProps(): any;
     readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-    readonly DisplayMessageComponent: React.FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | React.FC<any>;
     trackMenuItems(): MenuItem[];
     readonly viewMenuActions: MenuItem[];
     regionCannotBeRendered(): null;
 } & {
-    setMessage(arg?: string | undefined): void;
+    setMessage(arg?: string): void;
     setError(error?: unknown): void;
     setRpcDriverName(rpcDriverName: string): void;
     reload(): void;
@@ -183,8 +183,8 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     setHeight(displayHeight: number): number;
     resizeHeight(distance: number): number;
 } & {
-    featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
-    featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
+    featureDensityStatsP: undefined | Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
+    featureDensityStats: undefined | import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats;
     currStatsBpPerPx: number;
 } & {
     readonly currentBytesRequested: number;
@@ -196,22 +196,20 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     afterAttach(): void;
 } & {
     setCurrStatsBpPerPx(n: number): void;
-    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
     getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
     setFeatureDensityStatsP(arg: any): void;
-    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
     clearFeatureDensityStats(): void;
 } & {
     readonly regionTooLarge: boolean;
     readonly regionTooLargeReason: string;
 } & {
-    regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features"; /**
-     * #action
-     */
+    regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
     regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): React.JSX.Element | null;
 } & {
-    featureIdUnderMouse: string | undefined;
-    contextMenuFeature: Feature | undefined;
+    featureIdUnderMouse: undefined | string;
+    contextMenuFeature: undefined | Feature;
 } & {
     /**
      * #getter
@@ -243,7 +241,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
      * if a display-level message should be displayed instead of the blocks,
      * make this return a react component
      */
-    readonly DisplayMessageComponent: React.FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | React.FC<any>;
 } & {
     /**
      * #getter
@@ -352,7 +350,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     }, {
         renderInProgress: AbortController | undefined;
         filled: boolean;
-        reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+        reactElement: React.ReactElement | undefined;
         features: Map<string, Feature> | undefined;
         layout: any;
         status: string;
@@ -364,9 +362,9 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
                 error?: unknown;
                 reload: () => void;
                 message: React.ReactNode;
-                filled?: boolean | undefined;
-                status?: string | undefined;
-                reactElement?: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+                filled?: boolean;
+                status?: string;
+                reactElement?: React.ReactElement;
             };
         }) => React.JSX.Element | undefined;
         renderProps: any;
@@ -377,7 +375,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
+            reactElement: React.ReactElement;
             features: Map<string, Feature>;
             layout: any;
             maxHeightReached: boolean;

package/esm/BaseLinearDisplay/models/FeatureDensityMixin.d.ts

@@ -15,8 +15,8 @@ export default function FeatureDensityMixin(): import("mobx-state-tree").IModelT
      */
     userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
 }, {
-    featureDensityStatsP: Promise<FeatureDensityStats> | undefined;
-    featureDensityStats: FeatureDensityStats | undefined;
+    featureDensityStatsP: undefined | Promise<FeatureDensityStats>;
+    featureDensityStats: undefined | FeatureDensityStats;
     currStatsBpPerPx: number;
 } & {
     /**

package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts

@@ -20,7 +20,7 @@ declare const blockState: import("mobx-state-tree").IModelType<{
 }, {
     renderInProgress: AbortController | undefined;
     filled: boolean;
-    reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+    reactElement: React.ReactElement | undefined;
     features: Map<string, Feature> | undefined;
     layout: any;
     status: string;
@@ -32,9 +32,9 @@ declare const blockState: import("mobx-state-tree").IModelType<{
             error?: unknown;
             reload: () => void;
             message: React.ReactNode;
-            filled?: boolean | undefined;
-            status?: string | undefined;
-            reactElement?: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+            filled?: boolean;
+            status?: string;
+            reactElement?: React.ReactElement;
         };
     }) => React.JSX.Element | undefined;
     renderProps: any;

package/esm/LinearBareDisplay/model.d.ts

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 /**
  * #stateModel LinearBareDisplay
@@ -34,7 +33,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     }, {
         renderInProgress: AbortController | undefined;
         filled: boolean;
-        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+        reactElement: import("react").ReactElement | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
         layout: any;
         status: string;
@@ -46,9 +45,9 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
                 error?: unknown;
                 reload: () => void;
                 message: import("react").ReactNode;
-                filled?: boolean | undefined;
-                status?: string | undefined;
-                reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+                filled?: boolean;
+                status?: string;
+                reactElement?: import("react").ReactElement;
             };
         }) => import("react").JSX.Element | undefined;
         renderProps: any;
@@ -59,7 +58,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
+            reactElement: import("react").ReactElement;
             features: Map<string, import("@jbrowse/core/util").Feature>;
             layout: any;
             maxHeightReached: boolean;
@@ -77,9 +76,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         };
         fetchSizeLimit: {
             type: string;
-            defaultValue: number; /**
-             * #method
-             */
+            defaultValue: number;
             description: string;
         };
         height: {
@@ -131,8 +128,8 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
             error: unknown;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        onHorizontalScroll?: Function | undefined;
-        blockState?: Record<string, any> | undefined;
+        onHorizontalScroll?: Function;
+        blockState?: Record<string, any>;
     }>;
     readonly DisplayBlurb: import("react").FC<{
         model: {
@@ -157,12 +154,12 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly parentTrack: any;
     renderProps(): any;
     readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-    readonly DisplayMessageComponent: import("react").FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | import("react").FC<any>;
     trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
     readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
     regionCannotBeRendered(): null;
 } & {
-    setMessage(arg?: string | undefined): void;
+    setMessage(arg?: string): void;
     setError(error?: unknown): void;
     setRpcDriverName(rpcDriverName: string): void;
     reload(): void;
@@ -171,14 +168,12 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     readonly height: number;
 } & {
-    setScrollTop(scrollTop: number): void; /**
-     * #method
-     */
+    setScrollTop(scrollTop: number): void;
     setHeight(displayHeight: number): number;
     resizeHeight(distance: number): number;
 } & {
-    featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
-    featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
+    featureDensityStatsP: undefined | Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
+    featureDensityStats: undefined | import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats;
     currStatsBpPerPx: number;
 } & {
     readonly currentBytesRequested: number;
@@ -190,10 +185,10 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     afterAttach(): void;
 } & {
     setCurrStatsBpPerPx(n: number): void;
-    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
     getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
     setFeatureDensityStatsP(arg: any): void;
-    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
     clearFeatureDensityStats(): void;
 } & {
     readonly regionTooLarge: boolean;
@@ -202,8 +197,8 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
     regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react").JSX.Element | null;
 } & {
-    featureIdUnderMouse: string | undefined;
-    contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
+    featureIdUnderMouse: undefined | string;
+    contextMenuFeature: undefined | import("@jbrowse/core/util").Feature;
 } & {
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
@@ -211,7 +206,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly renderDelay: number;
     readonly TooltipComponent: import("react").FC<any>;
     readonly selectedFeatureId: string | undefined;
-    readonly DisplayMessageComponent: import("react").FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | import("react").FC<any>;
 } & {
     readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
     readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
@@ -224,8 +219,8 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     selectFeature(feature: import("@jbrowse/core/util").Feature): void;
     navToFeature(feature: import("@jbrowse/core/util").Feature): void;
     clearFeatureSelection(): void;
-    setFeatureIdUnderMouse(feature?: string | undefined): void;
-    setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
+    setFeatureIdUnderMouse(feature?: string): void;
+    setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature): void;
 } & {
     reload(): Promise<void>;
 } & {
@@ -274,7 +269,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     }, {
         renderInProgress: AbortController | undefined;
         filled: boolean;
-        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+        reactElement: import("react").ReactElement | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
         layout: any;
         status: string;
@@ -286,9 +281,9 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
                 error?: unknown;
                 reload: () => void;
                 message: import("react").ReactNode;
-                filled?: boolean | undefined;
-                status?: string | undefined;
-                reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+                filled?: boolean;
+                status?: string;
+                reactElement?: import("react").ReactElement;
             };
         }) => import("react").JSX.Element | undefined;
         renderProps: any;
@@ -299,7 +294,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
+            reactElement: import("react").ReactElement;
             features: Map<string, import("@jbrowse/core/util").Feature>;
             layout: any;
             maxHeightReached: boolean;
@@ -317,9 +312,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         };
         fetchSizeLimit: {
             type: string;
-            defaultValue: number; /**
-             * #method
-             */
+            defaultValue: number;
             description: string;
         };
         height: {

package/esm/LinearBasicDisplay/model.d.ts

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import { MenuItem } from '@jbrowse/core/ui';
 import { Instance } from 'mobx-state-tree';
@@ -40,7 +39,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     }, {
         renderInProgress: AbortController | undefined;
         filled: boolean;
-        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+        reactElement: import("react").ReactElement | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
         layout: any;
         status: string;
@@ -51,12 +50,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
             model: {
                 error?: unknown;
                 reload: () => void;
-                message: import("react").ReactNode; /**
-                 * #property
-                 */
-                filled?: boolean | undefined;
-                status?: string | undefined;
-                reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+                message: import("react").ReactNode;
+                filled?: boolean;
+                status?: string;
+                reactElement?: import("react").ReactElement;
             };
         }) => import("react").JSX.Element | undefined;
         renderProps: any;
@@ -64,12 +61,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
         doReload(): void;
         afterAttach(): void;
         setStatus(message: string): void;
-        setLoading(abortController: AbortController): void; /**
-         * #getter
-         */
+        setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
+            reactElement: import("react").ReactElement;
             features: Map<string, import("@jbrowse/core/util").Feature>;
             layout: any;
             maxHeightReached: boolean;
@@ -97,9 +92,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
         };
         mouseover: {
             type: string;
-            description: string; /**
-             * #property
-             */
+            description: string;
             defaultValue: string;
             contextVariable: string[];
         };
@@ -153,18 +146,20 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
             error: unknown;
             message: string | undefined;
         } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
-            id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-            type: import("mobx-state-tree").ISimpleType<string>; /**
+            id: import("mobx-state-tree" /**
              * #property
-             */
+             */).IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+            type: import("mobx-state-tree").ISimpleType<string>;
             rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
             rendererTypeName: string;
             error: unknown;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        onHorizontalScroll?: Function | undefined;
-        blockState?: Record<string, any> | undefined;
+        onHorizontalScroll?: Function;
+        blockState? /**
+         * #getter
+         */: Record<string, any>;
     }>;
     readonly DisplayBlurb: import("react").FC<{
         model: {
@@ -184,19 +179,17 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
             error: unknown;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    }> | null; /**
-     * #getter
-     */
+    }> | null;
     readonly adapterConfig: any;
     readonly parentTrack: any;
     renderProps(): any;
     readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-    readonly DisplayMessageComponent: import("react").FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | import("react").FC<any>;
     trackMenuItems(): MenuItem[];
     readonly viewMenuActions: MenuItem[];
     regionCannotBeRendered(): null;
 } & {
-    setMessage(arg?: string | undefined): void;
+    setMessage(arg?: string): void;
     setError(error?: unknown): void;
     setRpcDriverName(rpcDriverName: string): void;
     reload(): void;
@@ -209,8 +202,8 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     setHeight(displayHeight: number): number;
     resizeHeight(distance: number): number;
 } & {
-    featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
-    featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
+    featureDensityStatsP: undefined | Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
+    featureDensityStats: undefined | import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats;
     currStatsBpPerPx: number;
 } & {
     readonly currentBytesRequested: number;
@@ -222,22 +215,20 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     afterAttach(): void;
 } & {
     setCurrStatsBpPerPx(n: number): void;
-    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
     getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
     setFeatureDensityStatsP(arg: any): void;
-    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
+    setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats): void;
     clearFeatureDensityStats(): void;
 } & {
-    readonly regionTooLarge: boolean; /**
-     * #method
-     */
+    readonly regionTooLarge: boolean;
     readonly regionTooLargeReason: string;
 } & {
     regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
     regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react").JSX.Element | null;
 } & {
-    featureIdUnderMouse: string | undefined;
-    contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
+    featureIdUnderMouse: undefined | string;
+    contextMenuFeature: undefined | import("@jbrowse/core/util").Feature;
 } & {
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
@@ -245,7 +236,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     readonly renderDelay: number;
     readonly TooltipComponent: import("react").FC<any>;
     readonly selectedFeatureId: string | undefined;
-    readonly DisplayMessageComponent: import("react").FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | import("react").FC<any>;
 } & {
     readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
     readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
@@ -258,8 +249,8 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     selectFeature(feature: import("@jbrowse/core/util").Feature): void;
     navToFeature(feature: import("@jbrowse/core/util").Feature): void;
     clearFeatureSelection(): void;
-    setFeatureIdUnderMouse(feature?: string | undefined): void;
-    setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
+    setFeatureIdUnderMouse(feature?: string): void;
+    setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature): void;
 } & {
     reload(): Promise<void>;
 } & {
@@ -301,7 +292,15 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     readonly rendererConfig: {
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-        setSubschema(slotName: string, data: unknown): any;
+        setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
+            [x: string]: any;
+        } & import("mobx-state-tree/dist/internal" /**
+         * #property
+         */).NonEmptyObject & {
+            setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
+                [x: string]: any;
+            } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
+        } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
     } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
 } & {
     /**
@@ -332,7 +331,13 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
         config: {
             [x: string]: any;
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            setSubschema(slotName: string, data: unknown): any;
+            setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
+                [x: string]: any;
+            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+                setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
+                    [x: string]: any;
+                } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
+            } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
         } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
         filters: SerializableFilterChain;
     };
@@ -370,7 +375,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     }, {
         renderInProgress: AbortController | undefined;
         filled: boolean;
-        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+        reactElement: import("react").ReactElement | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
         layout: any;
         status: string;
@@ -381,12 +386,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
             model: {
                 error?: unknown;
                 reload: () => void;
-                message: import("react").ReactNode; /**
-                 * #property
-                 */
-                filled?: boolean | undefined;
-                status?: string | undefined;
-                reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+                message: import("react").ReactNode;
+                filled?: boolean;
+                status?: string;
+                reactElement?: import("react").ReactElement;
             };
         }) => import("react").JSX.Element | undefined;
         renderProps: any;
@@ -394,12 +397,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
         doReload(): void;
         afterAttach(): void;
         setStatus(message: string): void;
-        setLoading(abortController: AbortController): void; /**
-         * #getter
-         */
+        setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
+            reactElement: import("react").ReactElement;
             features: Map<string, import("@jbrowse/core/util").Feature>;
             layout: any;
             maxHeightReached: boolean;
@@ -427,9 +428,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
         };
         mouseover: {
             type: string;
-            description: string; /**
-             * #property
-             */
+            description: string;
             defaultValue: string;
             contextVariable: string[];
         };

package/esm/LinearGenomeView/components/hooks.d.ts

@@ -42,7 +42,7 @@ export declare function useRangeSelect(ref: React.RefObject<HTMLDivElement>, mod
         offset: number;
         start: number;
         end: number;
-        reversed?: boolean | undefined;
+        reversed?: boolean;
     };
     rightBpOffset: {
         coord: number;
@@ -53,7 +53,7 @@ export declare function useRangeSelect(ref: React.RefObject<HTMLDivElement>, mod
         offset: number;
         start: number;
         end: number;
-        reversed?: boolean | undefined;
+        reversed?: boolean;
     };
     anchorPosition: AnchorPosition | undefined;
     numOfBpSelected: number;