@jbrowse/plugin-linear-genome-view 2.4.2 → 2.6.1

package/dist/BaseLinearDisplay/models/util.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.estimateRegionsStatsPre = exports.getId = exports.getDisplayStr = void 0;
+exports.getFeatureDensityStatsPre = exports.getId = exports.getDisplayStr = void 0;
 const util_1 = require("@jbrowse/core/util");
 const tracks_1 = require("@jbrowse/core/util/tracks");
 const mobx_state_tree_1 = require("mobx-state-tree");
@@ -24,7 +24,7 @@ function getId(id, index) {
     return `clip-${isJest ? id : 'jest'}-${index}`;
 }
 exports.getId = getId;
-async function estimateRegionsStatsPre(self) {
+async function getFeatureDensityStatsPre(self) {
     const view = (0, util_1.getContainingView)(self);
     const regions = view.staticBlocks.contentBlocks;
     const { rpcManager } = (0, util_1.getSession)(self);
@@ -35,7 +35,7 @@ async function estimateRegionsStatsPre(self) {
         return {};
     }
     const sessionId = (0, tracks_1.getRpcSessionId)(self);
-    return rpcManager.call(sessionId, 'CoreEstimateRegionStats', {
+    return rpcManager.call(sessionId, 'CoreGetFeatureDensityStats', {
         sessionId,
         regions,
         adapterConfig,
@@ -46,5 +46,5 @@ async function estimateRegionsStatsPre(self) {
         },
     });
 }
-exports.estimateRegionsStatsPre = estimateRegionsStatsPre;
+exports.getFeatureDensityStatsPre = getFeatureDensityStatsPre;
 //# sourceMappingURL=util.js.map

package/dist/BaseLinearDisplay/models/util.js.map

@@ -1 +1 @@
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+{"version":3,"file":"util.js","sourceRoot":"","sources":["../../../src/BaseLinearDisplay/models/util.ts"],"names":[],"mappings":";;;AAEA,6CAAkE;AAClE,sDAA2D;AAC3D,qDAA4D;AAgB5D,SAAgB,aAAa,CAAC,UAAkB;IAC9C,IAAI,SAAS,CAAA;IACb,IAAI,IAAI,CAAC,KAAK,CAAC,UAAU,GAAG,OAAO,CAAC,GAAG,CAAC,EAAE;QACxC,SAAS,GAAG,GAAG,MAAM,CAAC,UAAU,CAAC,CAAC,UAAU,GAAG,OAAO,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC,KAAK,CAAA;KAC7E;SAAM,IAAI,IAAI,CAAC,KAAK,CAAC,UAAU,GAAG,IAAI,CAAC,GAAG,CAAC,EAAE;QAC5C,SAAS,GAAG,GAAG,MAAM,CAAC,UAAU,CAAC,CAAC,UAAU,GAAG,IAAI,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC,KAAK,CAAA;KAC1E;SAAM;QACL,SAAS,GAAG,GAAG,IAAI,CAAC,KAAK,CAAC,UAAU,CAAC,QAAQ,CAAA;KAC9C;IACD,OAAO,SAAS,CAAA;AAClB,CAAC;AAVD,sCAUC;AAED,2CAA2C;AAC3C,SAAgB,KAAK,CAAC,EAAU,EAAE,KAAa;IAC7C,MAAM,MAAM,GAAG,OAAO,IAAI,KAAK,WAAW,CAAA;IAC1C,OAAO,QAAQ,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,MAAM,IAAI,KAAK,EAAE,CAAA;AAChD,CAAC;AAHD,sBAGC;AAEM,KAAK,UAAU,yBAAyB,CAC7C,IAGC;IAED,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAA0B,CAAA;IAC7D,MAAM,OAAO,GAAG,IAAI,CAAC,YAAY,CAAC,aAAa,CAAA;IAE/C,MAAM,EAAE,UAAU,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;IACvC,MAAM,EAAE,aAAa,EAAE,GAAG,IAAI,CAAA;IAC9B,IAAI,CAAC,aAAa,EAAE;QAClB,oEAAoE;QACpE,wCAAwC;QACxC,OAAO,EAAE,CAAA;KACV;IACD,MAAM,SAAS,GAAG,IAAA,wBAAe,EAAC,IAAI,CAAC,CAAA;IAEvC,OAAO,UAAU,CAAC,IAAI,CAAC,SAAS,EAAE,4BAA4B,EAAE;QAC9D,SAAS;QACT,OAAO;QACP,aAAa;QACb,cAAc,EAAE,CAAC,OAAe,EAAE,EAAE;YAClC,IAAI,IAAA,yBAAO,EAAC,IAAI,CAAC,EAAE;gBACjB,IAAI,CAAC,UAAU,CAAC,OAAO,CAAC,CAAA;aACzB;QACH,CAAC;KACF,CAAiC,CAAA;AACpC,CAAC;AA5BD,8DA4BC"}

package/dist/BasicTrack/configSchema.d.ts

@@ -1,3 +1,75 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const configSchema: (pluginManager: PluginManager) => import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const configSchema: (pluginManager: PluginManager) => import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    name: {
+        description: string;
+        type: string;
+        defaultValue: string;
+    };
+    assemblyNames: {
+        description: string;
+        type: string;
+        defaultValue: string[];
+    };
+    description: {
+        description: string;
+        type: string;
+        defaultValue: string;
+    };
+    category: {
+        description: string;
+        type: string;
+        defaultValue: never[];
+    };
+    metadata: {
+        type: string;
+        description: string;
+        defaultValue: {};
+    };
+    adapter: import("mobx-state-tree").IAnyModelType;
+    textSearching: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        indexingAttributes: {
+            type: string;
+            description: string;
+            defaultValue: string[];
+        };
+        indexingFeatureTypesToExclude: {
+            type: string;
+            description: string;
+            defaultValue: string[];
+        };
+        textSearchAdapter: import("mobx-state-tree").IAnyModelType;
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
+    formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        feature: {
+            type: string;
+            description: string;
+            defaultValue: {};
+            contextVariable: string[];
+        };
+        subfeatures: {
+            type: string;
+            description: string;
+            defaultValue: {};
+            contextVariable: string[];
+        };
+        depth: {
+            type: string;
+            defaultValue: number;
+            description: string;
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        config: {
+            type: string;
+            description: string;
+            defaultValue: {};
+            contextVariable: string[];
+        };
+        hideUris: {
+            type: string;
+            defaultValue: boolean;
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>, "trackId">>;
 export default configSchema;

package/dist/BasicTrack/configSchema.js

@@ -4,6 +4,7 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 /**
  * #config BasicTrack
+ * #category track
  * synonym for FeatureTrack
  */
 function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars

package/dist/BasicTrack/configSchema.js.map

@@ -1 +1 @@
-{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/BasicTrack/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE,+EAA2E;AAG3E;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,CAAC,aAA4B,EAAE,EAAE,CACpD,IAAA,mCAAmB,EACjB,YAAY,EACZ,EAAE,EACF;IACE;;OAEG;IACH,iBAAiB,EAAE,IAAA,6CAAqB,EAAC,aAAa,CAAC;IACvD,kBAAkB,EAAE,SAAS;CAC9B,CACF,CAAA;AACH,kBAAe,YAAY,CAAA"}
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/BasicTrack/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE,+EAA2E;AAG3E;;;;GAIG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,CAAC,aAA4B,EAAE,EAAE,CACpD,IAAA,mCAAmB,EACjB,YAAY,EACZ,EAAE,EACF;IACE;;OAEG;IACH,iBAAiB,EAAE,IAAA,6CAAqB,EAAC,aAAa,CAAC;IACvD,kBAAkB,EAAE,SAAS;CAC9B,CACF,CAAA;AACH,kBAAe,YAAY,CAAA"}

package/dist/FeatureTrack/configSchema.d.ts

@@ -1,3 +1,75 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const configSchema: (pluginManager: PluginManager) => import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const configSchema: (pluginManager: PluginManager) => import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    name: {
+        description: string;
+        type: string;
+        defaultValue: string;
+    };
+    assemblyNames: {
+        description: string;
+        type: string;
+        defaultValue: string[];
+    };
+    description: {
+        description: string;
+        type: string;
+        defaultValue: string;
+    };
+    category: {
+        description: string;
+        type: string;
+        defaultValue: never[];
+    };
+    metadata: {
+        type: string;
+        description: string;
+        defaultValue: {};
+    };
+    adapter: import("mobx-state-tree").IAnyModelType;
+    textSearching: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        indexingAttributes: {
+            type: string;
+            description: string;
+            defaultValue: string[];
+        };
+        indexingFeatureTypesToExclude: {
+            type: string;
+            description: string;
+            defaultValue: string[];
+        };
+        textSearchAdapter: import("mobx-state-tree").IAnyModelType;
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
+    formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        feature: {
+            type: string;
+            description: string;
+            defaultValue: {};
+            contextVariable: string[];
+        };
+        subfeatures: {
+            type: string;
+            description: string;
+            defaultValue: {};
+            contextVariable: string[];
+        };
+        depth: {
+            type: string;
+            defaultValue: number;
+            description: string;
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        config: {
+            type: string;
+            description: string;
+            defaultValue: {};
+            contextVariable: string[];
+        };
+        hideUris: {
+            type: string;
+            defaultValue: boolean;
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>, "trackId">>;
 export default configSchema;

package/dist/FeatureTrack/configSchema.js

@@ -4,6 +4,7 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 /**
  * #config FeatureTrack
+ * #category track
  * used for basic gene and feature tracks, generally used with LinearBasicDisplay
  */
 function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars

package/dist/FeatureTrack/configSchema.js.map

@@ -1 +1 @@
-{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FeatureTrack/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE,+EAA2E;AAG3E;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,CAAC,aAA4B,EAAE,EAAE,CACpD,IAAA,mCAAmB,EACjB,cAAc,EACd,EAAE,EACF;IACE;;OAEG;IACH,iBAAiB,EAAE,IAAA,6CAAqB,EAAC,aAAa,CAAC;IACvD;;OAEG;IACH,kBAAkB,EAAE,SAAS;CAC9B,CACF,CAAA;AAEH,kBAAe,YAAY,CAAA"}
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FeatureTrack/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE,+EAA2E;AAG3E;;;;GAIG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,CAAC,aAA4B,EAAE,EAAE,CACpD,IAAA,mCAAmB,EACjB,cAAc,EACd,EAAE,EACF;IACE;;OAEG;IACH,iBAAiB,EAAE,IAAA,6CAAqB,EAAC,aAAa,CAAC;IACvD;;OAEG;IACH,kBAAkB,EAAE,SAAS;CAC9B,CACF,CAAA;AAEH,kBAAe,YAAY,CAAA"}

package/dist/LinearBareDisplay/configSchema.d.ts

@@ -1,6 +1,34 @@
 import PluginManager from '@jbrowse/core/PluginManager';
 /**
  * #config LinearBareDisplay
+ * #category display
  */
-declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    renderer: import("mobx-state-tree").IAnyModelType;
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    fetchSizeLimit: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    height: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    mouseover: {
+        type: string;
+        description: string;
+        defaultValue: string;
+        contextVariable: string[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>;
 export { configSchemaFactory };

package/dist/LinearBareDisplay/configSchema.js

@@ -5,6 +5,7 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const BaseLinearDisplay_1 = require("../BaseLinearDisplay");
 /**
  * #config LinearBareDisplay
+ * #category display
  */
 function configSchemaFactory(pluginManager) {
     return (0, configuration_1.ConfigurationSchema)('LinearBareDisplay', {

package/dist/LinearBareDisplay/configSchema.js.map

@@ -1 +1 @@
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+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/LinearBareDisplay/configSchema.ts"],"names":[],"mappings":";;;AACA,+DAAiE;AACjE,4DAAoE;AAEpE;;;GAGG;AACH,SAAS,mBAAmB,CAAC,aAA4B;IACvD,OAAO,IAAA,mCAAmB,EACxB,mBAAmB,EACnB;QACE;;WAEG;QACH,QAAQ,EAAE,aAAa,CAAC,yBAAyB,CAAC,UAAU,CAAC;KAC9D,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,iDAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC;AAEQ,kDAAmB"}

package/dist/LinearBareDisplay/model.d.ts

@@ -1,7 +1,8 @@
 /// <reference types="react" />
-import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration/configurationSchema';
+import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 /**
  * #stateModel LinearBareDisplay
+ * #category display
  * extends `BaseLinearDisplay`
  */
 export declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
@@ -10,6 +11,10 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
 } & {
     heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+} & {
+    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+} & {
     blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
         key: import("mobx-state-tree").ISimpleType<string>;
         region: import("mobx-state-tree").IModelType<{
@@ -56,8 +61,31 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         reload(): void;
         beforeDestroy(): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+    configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        maxFeatureScreenDensity: {
+            type: string;
+            description: string;
+            defaultValue: number;
+        };
+        fetchSizeLimit: {
+            type: string;
+            defaultValue: number;
+            description: string;
+        };
+        height: {
+            type: string;
+            defaultValue: number;
+            description: string;
+        }; /**
+         * #getter
+         */
+        mouseover: {
+            type: string;
+            description: string;
+            defaultValue: string;
+            contextVariable: string[];
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 } & {
     /**
      * #property
@@ -66,10 +94,13 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     /**
      * #property
      */
-    configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
+    configuration: AnyConfigurationSchemaType;
 }, {
     rendererTypeName: string;
     error: unknown;
+    message: string | undefined; /**
+     * #property
+     */
 } & {
     readonly RenderingComponent: import("react").FC<{
         model: {
@@ -79,6 +110,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
             rendererTypeName: string;
             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>;
@@ -86,6 +118,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         }, {
             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;
@@ -98,6 +131,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
             rendererTypeName: string;
             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>;
@@ -105,6 +139,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         }, {
             rendererTypeName: string;
             error: unknown;
+            message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }> | null;
     readonly adapterConfig: any;
@@ -114,21 +149,49 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly DisplayMessageComponent: import("react").FC<any> | undefined;
     trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
     readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
-    regionCannotBeRendered(): undefined;
+    regionCannotBeRendered(): null;
 } & {
+    setMessage(arg?: string | undefined): void;
     setError(error?: unknown): void;
     setRpcDriverName(rpcDriverName: string): void;
     reload(): void;
 } & {
-    currBpPerPx: number;
     scrollTop: number;
-    message: string;
+} & {
+    readonly height: number;
+} & {
+    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;
+    currStatsBpPerPx: number;
+} & {
+    readonly currentBytesRequested: number;
+    readonly currentFeatureScreenDensity: number;
+    readonly maxFeatureScreenDensity: any;
+    readonly featureDensityStatsReady: boolean;
+    readonly maxAllowableBytes: number;
+} & {
+    afterAttach(): void;
+} & {
+    setCurrStatsBpPerPx(n: number): void;
+    setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): 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;
+    clearFeatureDensityStats(): void;
+} & {
+    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;
-    estimatedRegionsStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
-    estimatedRegionsStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
 } & {
-    readonly height: number;
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
@@ -142,49 +205,22 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
     getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
     searchFeatureByID(id: string): [number, number, number, number] | undefined;
-    readonly currentBytesRequested: number;
-    readonly currentFeatureScreenDensity: number;
-    readonly maxFeatureScreenDensity: any;
-    readonly estimatedStatsReady: boolean;
-    readonly maxAllowableBytes: number;
-} & {
-    setMessage(message: string): void;
 } & {
-    afterAttach(): void;
-    estimateRegionsStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats>;
-    setRegionsStatsP(arg: any): void;
-    setRegionsStats(estimatedRegionsStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
-    clearRegionsStats(): void;
-    setHeight(displayHeight: number): number;
-    resizeHeight(distance: number): number;
-    setScrollTop(scrollTop: number): void;
-    updateStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
     addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
-    setCurrBpPerPx(n: number): void;
     deleteBlock(key: string): void;
     selectFeature(feature: import("@jbrowse/core/util").Feature): void;
     clearFeatureSelection(): void;
-    setFeatureIdUnderMouse(feature: string | undefined): void;
-    reload(): void;
+    setFeatureIdUnderMouse(feature?: string | undefined): void;
     setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
-} & {
-    readonly regionTooLarge: boolean;
-    readonly regionTooLargeReason: string;
 } & {
     reload(): Promise<void>;
 } & {
-    afterAttach(): void;
-} & {
-    regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
-    regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): JSX.Element | null;
     trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
     contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
     renderProps(): any;
 } & {
-    renderSvg(opts: import("../LinearGenomeView").ExportSvgOptions & {
-        overrideHeight: number;
-        theme: import("@mui/material").ThemeOptions;
-    }): Promise<JSX.Element>;
+    renderSvg(opts: import("../BaseLinearDisplay").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
+    afterAttach(): void;
 } & {
     /**
      * #method
@@ -202,6 +238,10 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
 } & {
     heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+} & {
+    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+} & {
     blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
         key: import("mobx-state-tree").ISimpleType<string>;
         region: import("mobx-state-tree").IModelType<{
@@ -248,11 +288,35 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         reload(): void;
         beforeDestroy(): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+    configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        maxFeatureScreenDensity: {
+            type: string;
+            description: string;
+            defaultValue: number;
+        };
+        fetchSizeLimit: {
+            type: string;
+            defaultValue: number;
+            description: string;
+        };
+        height: {
+            type: string;
+            defaultValue: number;
+            description: string;
+        }; /**
+         * #getter
+         */
+        mouseover: {
+            type: string;
+            description: string;
+            defaultValue: string;
+            contextVariable: string[];
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 }>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, {
     type: string;
     id: string;
+    configuration: import("mobx-state-tree").ModelSnapshotType<Record<string, any>>;
     rpcDriverName: string | undefined;
     heightPreConfig: number | undefined;
     userBpPerPxLimit: number | undefined;

package/dist/LinearBareDisplay/model.js

@@ -1,12 +1,13 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.stateModelFactory = void 0;
-const configurationSchema_1 = require("@jbrowse/core/configuration/configurationSchema");
+const configuration_1 = require("@jbrowse/core/configuration");
 const tracks_1 = require("@jbrowse/core/util/tracks");
 const mobx_state_tree_1 = require("mobx-state-tree");
 const BaseLinearDisplay_1 = require("../BaseLinearDisplay");
 /**
  * #stateModel LinearBareDisplay
+ * #category display
  * extends `BaseLinearDisplay`
  */
 function stateModelFactory(configSchema) {
@@ -19,7 +20,7 @@ function stateModelFactory(configSchema) {
         /**
          * #property
          */
-        configuration: (0, configurationSchema_1.ConfigurationReference)(configSchema),
+        configuration: (0, configuration_1.ConfigurationReference)(configSchema),
     }))
         .views(self => {
         const { renderProps: superRenderProps } = self;

package/dist/LinearBareDisplay/model.js.map

@@ -1 +1 @@
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+{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/LinearBareDisplay/model.ts"],"names":[],"mappings":";;;AAAA,+DAGoC;AACpC,sDAAgE;AAChE,qDAAuC;AACvC,4DAAwD;AAExD;;;;GAIG;AACH,SAAgB,iBAAiB,CAAC,YAAwC;IACxE,OAAO,uBAAK;SACT,OAAO,CACN,mBAAmB,EACnB,qCAAiB,EACjB,uBAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,mBAAmB,CAAC;QACxC;;WAEG;QACH,aAAa,EAAE,IAAA,sCAAsB,EAAC,YAAY,CAAC;KACpD,CAAC,CACH;SAEA,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QAC9C,OAAO;YACL;;eAEG;YACH,WAAW;gBACT,OAAO;oBACL,GAAG,gBAAgB,EAAE;oBACrB,GAAG,IAAA,6BAAoB,EAAC,IAAI,CAAC;oBAC7B,aAAa,EAAE,IAAI,CAAC,aAAa;oBACjC,MAAM,EAAE,IAAI,CAAC,aAAa,CAAC,QAAQ;iBACpC,CAAA;YACH,CAAC;YAED;;eAEG;YACH,IAAI,gBAAgB;gBAClB,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAA;YACzC,CAAC;SACF,CAAA;IACH,CAAC,CAAC,CAAA;AACN,CAAC;AAxCD,8CAwCC"}

package/dist/LinearBasicDisplay/components/SetMaxHeight.d.ts

@@ -1,10 +1,10 @@
-/// <reference types="react" />
+import React from 'react';
 declare function SetMaxHeightDlg({ model, handleClose, }: {
     model: {
         maxHeight?: number;
         setMaxHeight: (arg?: number) => void;
     };
     handleClose: () => void;
-}): JSX.Element;
+}): React.JSX.Element;
 declare const _default: typeof SetMaxHeightDlg;
 export default _default;

package/dist/LinearBasicDisplay/configSchema.d.ts

@@ -1,6 +1,34 @@
 import PluginManager from '@jbrowse/core/PluginManager';
 /**
  * #config LinearBasicDisplay
+ * #category display
  */
-declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    renderer: import("mobx-state-tree").IAnyModelType;
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    fetchSizeLimit: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    height: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    mouseover: {
+        type: string;
+        description: string;
+        defaultValue: string;
+        contextVariable: string[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>;
 export default configSchemaFactory;

package/dist/LinearBasicDisplay/configSchema.js

@@ -4,18 +4,10 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const BaseLinearDisplay_1 = require("../BaseLinearDisplay");
 /**
  * #config LinearBasicDisplay
+ * #category display
  */
 function configSchemaFactory(pluginManager) {
     return (0, configuration_1.ConfigurationSchema)('LinearBasicDisplay', {
-        /**
-         * #slot
-         */
-        mouseover: {
-            type: 'string',
-            description: 'what to display in a given mouseover',
-            defaultValue: `jexl:get(feature,'name')`,
-            contextVariable: ['feature'],
-        },
         /**
          * #slot
          */

package/dist/LinearBasicDisplay/configSchema.js.map

@@ -1 +1 @@
-{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/LinearBasicDisplay/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE,4DAAoE;AAEpE;;GAEG;AACH,SAAS,mBAAmB,CAAC,aAA4B;IACvD,OAAO,IAAA,mCAAmB,EACxB,oBAAoB,EACpB;QACE;;WAEG;QACH,SAAS,EAAE;YACT,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,sCAAsC;YACnD,YAAY,EAAE,0BAA0B;YAExC,eAAe,EAAE,CAAC,SAAS,CAAC;SAC7B;QACD;;WAEG;QACH,QAAQ,EAAE,aAAa,CAAC,yBAAyB,CAAC,UAAU,CAAC;KAC9D,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,iDAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC;AAED,kBAAe,mBAAmB,CAAA"}
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/LinearBasicDisplay/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE,4DAAoE;AAEpE;;;GAGG;AACH,SAAS,mBAAmB,CAAC,aAA4B;IACvD,OAAO,IAAA,mCAAmB,EACxB,oBAAoB,EACpB;QACE;;WAEG;QACH,QAAQ,EAAE,aAAa,CAAC,yBAAyB,CAAC,UAAU,CAAC;KAC9D,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,iDAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC;AAED,kBAAe,mBAAmB,CAAA"}