@jbrowse/plugin-linear-genome-view 2.5.0 → 2.6.1

package/dist/BaseLinearDisplay/components/BaseLinearDisplay.d.ts

@@ -3,7 +3,7 @@ import { BaseLinearDisplayModel } from '../models/BaseLinearDisplayModel';
 declare const BaseLinearDisplay: (props: {
     model: BaseLinearDisplayModel;
     children?: React.ReactNode;
-}) => JSX.Element;
+}) => React.JSX.Element;
 export default BaseLinearDisplay;
 export { default as Tooltip } from './Tooltip';
 export { default as BlockMsg } from './BlockMsg';

package/dist/BaseLinearDisplay/components/Block.d.ts

@@ -3,13 +3,13 @@ import { BaseBlock } from '@jbrowse/core/util/blockTypes';
 declare const ContentBlock: ({ block, children, }: {
     block: BaseBlock;
     children: React.ReactNode;
-}) => JSX.Element;
+}) => React.JSX.Element;
 declare function ElidedBlock({ width }: {
     width: number;
-}): JSX.Element;
+}): React.JSX.Element;
 declare function InterRegionPaddingBlock({ boundary, width, style, }: {
     boundary: boolean;
     width: number;
     style?: React.CSSProperties;
-}): JSX.Element;
+}): React.JSX.Element;
 export { ContentBlock, ElidedBlock, InterRegionPaddingBlock };

package/dist/BaseLinearDisplay/components/BlockMsg.d.ts

@@ -6,4 +6,4 @@ export default function BlockMsg({ message, severity, buttonText, icon, action,
     buttonText?: string;
     icon?: React.ReactNode;
     action?: () => void;
-}): JSX.Element;
+}): React.JSX.Element;

package/dist/BaseLinearDisplay/components/LinearBlocks.d.ts

@@ -1,3 +1,4 @@
+import React from 'react';
 import { BaseLinearDisplayModel } from '../models/BaseLinearDisplayModel';
 declare const useStyles: (params: void, styleOverrides?: {
     props: any;
@@ -10,10 +11,10 @@ declare const useStyles: (params: void, styleOverrides?: {
 };
 declare const RenderedBlocks: ({ model, }: {
     model: BaseLinearDisplayModel;
-}) => JSX.Element;
+}) => React.JSX.Element;
 declare function LinearBlocks({ model }: {
     model: BaseLinearDisplayModel;
-}): JSX.Element;
+}): React.JSX.Element;
 export { RenderedBlocks, useStyles };
 declare const _default: typeof LinearBlocks;
 export default _default;

package/dist/BaseLinearDisplay/components/TooLargeMessage.d.ts

@@ -1,3 +1,4 @@
+import React from 'react';
 import { FeatureDensityStats } from '@jbrowse/core/data_adapters/BaseAdapter';
 declare function TooLargeMessage({ model, }: {
     model: {
@@ -6,5 +7,5 @@ declare function TooLargeMessage({ model, }: {
         setFeatureDensityStatsLimit: (s?: FeatureDensityStats) => void;
         reload: () => void;
     };
-}): JSX.Element;
+}): React.JSX.Element;
 export default TooLargeMessage;

package/dist/BaseLinearDisplay/components/Tooltip.d.ts

@@ -1,7 +1,8 @@
+import React from 'react';
 import { BaseLinearDisplayModel } from '../models/BaseLinearDisplayModel';
 type Coord = [number, number];
 declare const Tooltip: ({ model, clientMouseCoord, }: {
     model: BaseLinearDisplayModel;
     clientMouseCoord: Coord;
-}) => JSX.Element | null;
+}) => React.JSX.Element | null;
 export default Tooltip;

package/dist/BaseLinearDisplay/index.d.ts

@@ -1,5 +1,8 @@
 export { default as baseLinearDisplayConfigSchema } from './models/configSchema';
-export { BaseLinearDisplay } from './models/BaseLinearDisplayModel';
 export type { BlockModel } from './models/serverSideRenderedBlock';
-export type { BaseLinearDisplayModel, BaseLinearDisplayStateModel, } from './models/BaseLinearDisplayModel';
+export { BaseLinearDisplay } from './models/BaseLinearDisplayModel';
+export type { ExportSvgDisplayOptions, BaseLinearDisplayModel, BaseLinearDisplayStateModel, } from './models/BaseLinearDisplayModel';
 export { default as BaseLinearDisplayComponent, Tooltip, BlockMsg, } from './components/BaseLinearDisplay';
+export { default as TrackHeightMixin } from './models/TrackHeightMixin';
+export { default as FeatureDensityMixin } from './models/FeatureDensityMixin';
+export { default as TooLargeMessage } from './components/TooLargeMessage';

package/dist/BaseLinearDisplay/index.js

@@ -3,7 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.BlockMsg = exports.Tooltip = exports.BaseLinearDisplayComponent = exports.BaseLinearDisplay = exports.baseLinearDisplayConfigSchema = void 0;
+exports.TooLargeMessage = exports.FeatureDensityMixin = exports.TrackHeightMixin = exports.BlockMsg = exports.Tooltip = exports.BaseLinearDisplayComponent = exports.BaseLinearDisplay = exports.baseLinearDisplayConfigSchema = void 0;
 var configSchema_1 = require("./models/configSchema");
 Object.defineProperty(exports, "baseLinearDisplayConfigSchema", { enumerable: true, get: function () { return __importDefault(configSchema_1).default; } });
 var BaseLinearDisplayModel_1 = require("./models/BaseLinearDisplayModel");
@@ -12,4 +12,10 @@ var BaseLinearDisplay_1 = require("./components/BaseLinearDisplay");
 Object.defineProperty(exports, "BaseLinearDisplayComponent", { enumerable: true, get: function () { return __importDefault(BaseLinearDisplay_1).default; } });
 Object.defineProperty(exports, "Tooltip", { enumerable: true, get: function () { return BaseLinearDisplay_1.Tooltip; } });
 Object.defineProperty(exports, "BlockMsg", { enumerable: true, get: function () { return BaseLinearDisplay_1.BlockMsg; } });
+var TrackHeightMixin_1 = require("./models/TrackHeightMixin");
+Object.defineProperty(exports, "TrackHeightMixin", { enumerable: true, get: function () { return __importDefault(TrackHeightMixin_1).default; } });
+var FeatureDensityMixin_1 = require("./models/FeatureDensityMixin");
+Object.defineProperty(exports, "FeatureDensityMixin", { enumerable: true, get: function () { return __importDefault(FeatureDensityMixin_1).default; } });
+var TooLargeMessage_1 = require("./components/TooLargeMessage");
+Object.defineProperty(exports, "TooLargeMessage", { enumerable: true, get: function () { return __importDefault(TooLargeMessage_1).default; } });
 //# sourceMappingURL=index.js.map

package/dist/BaseLinearDisplay/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/BaseLinearDisplay/index.ts"],"names":[],"mappings":";;;;;;AAAA,sDAAgF;AAAvE,8IAAA,OAAO,OAAiC;AACjD,0EAAmE;AAA1D,2HAAA,iBAAiB,OAAA;AAM1B,oEAIuC;AAHrC,gJAAA,OAAO,OAA8B;AACrC,4GAAA,OAAO,OAAA;AACP,6GAAA,QAAQ,OAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/BaseLinearDisplay/index.ts"],"names":[],"mappings":";;;;;;AAAA,sDAAgF;AAAvE,8IAAA,OAAO,OAAiC;AAEjD,0EAAmE;AAA1D,2HAAA,iBAAiB,OAAA;AAM1B,oEAIuC;AAHrC,gJAAA,OAAO,OAA8B;AACrC,4GAAA,OAAO,OAAA;AACP,6GAAA,QAAQ,OAAA;AAEV,8DAAuE;AAA9D,qIAAA,OAAO,OAAoB;AACpC,oEAA6E;AAApE,2IAAA,OAAO,OAAuB;AACvC,gEAAyE;AAAhE,mIAAA,OAAO,OAAmB"}

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

@@ -2,9 +2,7 @@ import React from 'react';
 import { ThemeOptions } from '@mui/material';
 import { MenuItem } from '@jbrowse/core/ui';
 import { Feature } from '@jbrowse/core/util';
-import { FeatureDensityStats } from '@jbrowse/core/data_adapters/BaseAdapter';
 import { BaseBlock } from '@jbrowse/core/util/blockTypes';
-import { Region } from '@jbrowse/core/util/types';
 import CompositeMap from '@jbrowse/core/util/compositeMap';
 import { Instance } from 'mobx-state-tree';
 import { ExportSvgOptions } from '../../LinearGenomeView';
@@ -16,15 +14,20 @@ export interface Layout {
     name: string;
 }
 type LayoutRecord = [number, number, number, number];
+export interface ExportSvgDisplayOptions extends ExportSvgOptions {
+    overrideHeight: number;
+    theme: ThemeOptions;
+}
 export declare const BaseLinearDisplay: 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>;
     rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
 } & {
-    /**
-     * #property
-     */
     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>>;
+} & {
     /**
      * #property
      * updated via autorun
@@ -67,9 +70,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setRendered(props: {
             reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
             features: Map<string, Feature>;
-            layout: any; /**
-             * #getter
-             */
+            layout: any;
             maxHeightReached: boolean;
             renderProps: any;
         } | undefined): void;
@@ -77,14 +78,6 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         reload(): void;
         beforeDestroy(): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    /**
-     * #property
-     */
-    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    /**
-     * #property
-     */
-    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     /**
      * #property
      */
@@ -114,6 +107,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
 }, {
     rendererTypeName: string;
     error: unknown;
+    message: string | undefined;
 } & {
     readonly RenderingComponent: React.FC<{
         model: {
@@ -123,6 +117,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         } & 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>;
@@ -130,6 +125,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         }, {
             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;
@@ -140,18 +136,19 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             type: string;
             rpcDriverName: string | undefined;
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            rendererTypeName: string; /**
-             * #property
-             * updated via autorun
-             */
+            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>;
             rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
-            rendererTypeName: string;
+            rendererTypeName: string; /**
+             * #getter
+             */
             error: unknown;
+            message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }> | null;
     readonly adapterConfig: any;
@@ -161,21 +158,52 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     readonly DisplayMessageComponent: React.FC<any> | undefined;
     trackMenuItems(): MenuItem[];
     readonly viewMenuActions: 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; /**
+     * #property
+     * updated via autorun
+     */
+    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): React.JSX.Element | null;
+} & {
     featureIdUnderMouse: string | undefined;
     contextMenuFeature: Feature | undefined;
-    featureDensityStatsP: Promise<FeatureDensityStats> | undefined;
-    featureDensityStats: FeatureDensityStats | undefined;
 } & {
-    readonly height: number;
     /**
      * #getter
      */
@@ -230,73 +258,11 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
      * #getter
      */
     searchFeatureByID(id: string): LayoutRecord | undefined;
-    /**
-     * #getter
-     */
-    readonly currentBytesRequested: number;
-    /**
-     * #getter
-     */
-    readonly currentFeatureScreenDensity: number;
-    /**
-     * #getter
-     */
-    readonly maxFeatureScreenDensity: any;
-    /**
-     * #getter
-     */
-    readonly featureDensityStatsReady: boolean;
-    /**
-     * #getter
-     */
-    readonly maxAllowableBytes: number;
-} & {
-    /**
-     * #action
-     */
-    setMessage(message: string): void;
 } & {
-    afterAttach(): void;
-    /**
-     * #action
-     */
-    getFeatureDensityStats(): Promise<FeatureDensityStats>;
-    /**
-     * #action
-     */
-    setFeatureDensityStatsP(arg: any): void;
-    /**
-     * #action
-     */
-    setFeatureDensityStats(featureDensityStats?: FeatureDensityStats): void;
-    /**
-     * #action
-     */
-    clearFeatureDensityStats(): void;
-    /**
-     * #action
-     */
-    setHeight(displayHeight: number): number;
-    /**
-     * #action
-     */
-    resizeHeight(distance: number): number;
-    /**
-     * #action
-     */
-    setScrollTop(scrollTop: number): void;
-    /**
-     * #action
-     */
-    setFeatureDensityStatsLimit(stats?: FeatureDensityStats): void;
     /**
      * #action
      */
     addBlock(key: string, block: BaseBlock): void;
-    /**
-     * #action
-     */
-    setCurrBpPerPx(n: number): void;
     /**
      * #action
      */
@@ -313,51 +279,16 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
      * #action
      */
     setFeatureIdUnderMouse(feature?: string): void;
-    /**
-     * #action
-     */
-    reload(): void;
     /**
      * #action
      */
     setContextMenuFeature(feature?: Feature): void;
-} & {
-    /**
-     * #getter
-     * region is too large if:
-     * - stats are ready
-     * - region is greater than 20kb (don't warn when zoomed in less than that)
-     * - and bytes is greater than max allowed bytes or density greater than max
-     *   density
-     */
-    readonly regionTooLarge: boolean;
-    /**
-     * #getter
-     * only shows a message of bytes requested is defined, the feature density
-     * based stats don't produce any helpful message besides to zoom in
-     */
-    readonly regionTooLargeReason: string;
 } & {
     /**
      * #action
      */
     reload(): Promise<void>;
 } & {
-    afterAttach(): void;
-} & {
-    /**
-     * #method
-     */
-    regionCannotBeRenderedText(_region: Region): "" | "Force load to see features";
-    /**
-     * #method
-     * @param region -
-     * @returns falsy if the region is fine to try rendering. Otherwise,
-     *  return a react node + string of text.
-     *  string of text describes why it cannot be rendered
-     *  react node allows user to force load at current setting
-     */
-    regionCannotBeRendered(_region: Region): JSX.Element | null;
     /**
      * #method
      */
@@ -374,19 +305,18 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
     /**
      * #method
      */
-    renderSvg(opts: ExportSvgOptions & {
-        overrideHeight: number;
-        theme: ThemeOptions;
-    }): Promise<JSX.Element>;
+    renderSvg(opts: ExportSvgDisplayOptions): Promise<React.JSX.Element>;
+    afterAttach(): void;
 }, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
     id: import("mobx-state-tree").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>>;
 } & {
-    /**
-     * #property
-     */
     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>>;
+} & {
     /**
      * #property
      * updated via autorun
@@ -429,9 +359,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setRendered(props: {
             reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
             features: Map<string, Feature>;
-            layout: any; /**
-             * #getter
-             */
+            layout: any;
             maxHeightReached: boolean;
             renderProps: any;
         } | undefined): void;
@@ -439,14 +367,6 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         reload(): void;
         beforeDestroy(): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-    /**
-     * #property
-     */
-    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    /**
-     * #property
-     */
-    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     /**
      * #property
      */