@jbrowse/plugin-wiggle 2.17.0 → 3.0.0

package/esm/MultiLinearWiggleDisplay/configSchema.js

@@ -1,13 +1,7 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
 import { types } from 'mobx-state-tree';
-// locals
 import sharedWiggleConfigFactory from '../shared/SharedWiggleConfigSchema';
-/**
- * #config MultiLinearWiggleDisplay
- * extends
- * - [SharedWiggleDisplay](../sharedwiggledisplay)
- */
-function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
+function x() { }
 export default function WiggleConfigFactory(pluginManager) {
     const MultiXYPlotRendererConfigSchema = pluginManager.getRendererType('MultiXYPlotRenderer').configSchema;
     const MultiDensityRendererConfigSchema = pluginManager.getRendererType('MultiDensityRenderer').configSchema;
@@ -15,9 +9,6 @@ export default function WiggleConfigFactory(pluginManager) {
     const MultiLineRendererConfigSchema = pluginManager.getRendererType('MultiLineRenderer').configSchema;
     const MultiRowLineRendererConfigSchema = pluginManager.getRendererType('MultiRowLineRenderer').configSchema;
     return ConfigurationSchema('MultiLinearWiggleDisplay', {
-        /**
-         * #slot
-         */
         defaultRendering: {
             type: 'stringEnum',
             model: types.enumeration('Rendering', [
@@ -29,9 +20,6 @@ export default function WiggleConfigFactory(pluginManager) {
             ]),
             defaultValue: 'multirowxy',
         },
-        /**
-         * #slot
-         */
         renderers: ConfigurationSchema('RenderersConfiguration', {
             MultiXYPlotRenderer: MultiXYPlotRendererConfigSchema,
             MultiDensityRenderer: MultiDensityRendererConfigSchema,
@@ -39,17 +27,11 @@ export default function WiggleConfigFactory(pluginManager) {
             MultiLineRenderer: MultiLineRendererConfigSchema,
             MultiRowLineRenderer: MultiRowLineRendererConfigSchema,
         }),
-        /**
-         * #slot
-         */
         height: {
             type: 'number',
             defaultValue: 200,
         },
     }, {
-        /**
-         * #baseConfiguration
-         */
         baseConfiguration: sharedWiggleConfigFactory(),
         explicitlyTyped: true,
     });

package/esm/MultiLinearWiggleDisplay/index.d.ts

@@ -1,2 +1,2 @@
-import PluginManager from '@jbrowse/core/PluginManager';
+import type PluginManager from '@jbrowse/core/PluginManager';
 export default function MultiLinearWiggleDisplayF(pluginManager: PluginManager): void;

package/esm/MultiLinearWiggleDisplay/index.js

@@ -1,7 +1,7 @@
+import { lazy } from 'react';
 import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType';
 import configSchemaFactory from './configSchema';
 import modelFactory from './model';
-import { lazy } from 'react';
 export default function MultiLinearWiggleDisplayF(pluginManager) {
     pluginManager.addDisplayType(() => {
         const configSchema = configSchemaFactory(pluginManager);

package/esm/MultiLinearWiggleDisplay/model.d.ts

@@ -1,15 +1,10 @@
-import { Instance } from 'mobx-state-tree';
-import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
-import { Feature, AnyReactComponentType } from '@jbrowse/core/util';
-import PluginManager from '@jbrowse/core/PluginManager';
-import { ExportSvgDisplayOptions } from '@jbrowse/plugin-linear-genome-view';
-import { Source } from '../util';
-/**
- * #stateModel MultiLinearWiggleDisplay
- * extends
- * - [SharedWiggleMixin](../sharedwigglemixin)
- */
-export declare function stateModelFactory(pluginManager: PluginManager, configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
+import type { Source } from '../util';
+import type PluginManager from '@jbrowse/core/PluginManager';
+import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
+import type { AnyReactComponentType, Feature } from '@jbrowse/core/util';
+import type { ExportSvgDisplayOptions } from '@jbrowse/plugin-linear-genome-view';
+import type { Instance } from 'mobx-state-tree';
+export declare function stateModelFactory(_pluginManager: PluginManager, configSchema: AnyConfigurationSchemaType): 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>>;
@@ -21,21 +16,12 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
 } & {
     blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
         key: import("mobx-state-tree").ISimpleType<string>;
-        region: import("mobx-state-tree").IModelType<{
-            refName: import("mobx-state-tree").ISimpleType<string>;
-            start: import("mobx-state-tree").ISimpleType<number>;
-            end: import("mobx-state-tree").ISimpleType<number>;
-            reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-        } & {
-            assemblyName: import("mobx-state-tree").ISimpleType<string>;
-        }, {
-            setRefName(newRefName: string): void;
-        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+        region: import("mobx-state-tree").IType<import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region>;
         reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
         isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
         isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     }, {
-        renderInProgress: AbortController | undefined;
+        stopToken: string | undefined;
         filled: boolean;
         reactElement: React.ReactElement | undefined;
         features: Map<string, Feature> | undefined;
@@ -53,21 +39,15 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
                 status?: string;
                 reactElement?: React.ReactElement;
             };
-        }) => import("react").JSX.Element | undefined;
+        }) => import("react/jsx-runtime").JSX.Element | undefined;
         renderProps: any;
     } & {
         doReload(): void;
         afterAttach(): void;
         setStatus(message: string): void;
-        setLoading(abortController: AbortController): void;
+        setLoading(newStopToken: string): void;
         setMessage(messageText: string): void;
-        setRendered(props: {
-            reactElement: React.ReactElement;
-            features: Map<string, Feature>;
-            layout: any;
-            maxHeightReached: boolean;
-            renderProps: any;
-        } | undefined): void;
+        setRendered(props: import("@jbrowse/plugin-linear-genome-view/src/BaseLinearDisplay/models/serverSideRenderedBlock").RenderedProps | undefined): void;
         setError(error: unknown): void;
         reload(): void;
         beforeDestroy(): void;
@@ -119,13 +99,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
     configuration: AnyConfigurationSchemaType;
 } & {
-    /**
-     * #property
-     */
     type: import("mobx-state-tree").ISimpleType<"MultiLinearWiggleDisplay">;
-    /**
-     * #property
-     */
     layout: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<Source[], Source[], Source[]>, [undefined]>;
 }, {
     rendererTypeName: string;
@@ -165,9 +139,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
         } & 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" /**
-             * #getter
-             */).IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+            rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
             rendererTypeName: string;
             error: unknown;
@@ -218,14 +190,15 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     readonly regionTooLarge: boolean;
     readonly regionTooLargeReason: string;
 } & {
+    readonly statsReadyAndRegionNotTooLarge: boolean;
     regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
-    regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react").JSX.Element | null;
+    regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react/jsx-runtime").JSX.Element | null;
 } & {
     featureIdUnderMouse: undefined | string;
     contextMenuFeature: undefined | Feature;
 } & {
-    readonly DisplayMessageComponent: import("react").FC<any> | undefined;
-    readonly blockType: "dynamicBlocks" | "staticBlocks";
+    readonly DisplayMessageComponent: undefined | React.FC<any>;
+    readonly blockType: "staticBlocks" | "dynamicBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
     readonly renderDelay: number;
@@ -252,7 +225,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
     renderProps(): any;
 } & {
-    renderSvg(opts: ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
+    renderSvg(opts: ExportSvgDisplayOptions): Promise<import("react/jsx-runtime").JSX.Element>;
     afterAttach(): void;
 } & {
     message: undefined | string;
@@ -261,7 +234,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
         scoreMin: number;
         scoreMax: number;
     } | undefined;
-    statsFetchInProgress: undefined | AbortController;
+    statsFetchInProgress: undefined | string;
 } & {
     updateQuantitativeStats(stats: {
         currStatsBpPerPx: number;
@@ -271,7 +244,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     setColor(color?: string): void;
     setPosColor(color?: string): void;
     setNegColor(color?: string): void;
-    setStatsLoading(aborter: AbortController): void;
+    setStatsLoading(arg?: string): void;
     selectFeature(feature: Feature): void;
     setResolution(res: number): void;
     setFill(fill: number): void;
@@ -301,9 +274,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
         } & 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" /**
-             * #property
-             */).NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
+            } & 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>;
     readonly autoscaleType: any;
@@ -352,144 +323,57 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
 } & {
     reload(): Promise<void>;
 } & {
+    sourcesLoadingStopToken: string | undefined;
     featureUnderMouseVolatile: Feature | undefined;
     sourcesVolatile: Source[] | undefined;
 } & {
-    /**
-     * #action
-     */
+    setSourcesLoading(str: string): void;
     setLayout(layout: Source[]): void;
-    /**
-     * #action
-     */
     clearLayout(): void;
-    /**
-     * #action
-     */
     setSources(sources: Source[]): void;
-    /**
-     * #action
-     */
     setFeatureUnderMouse(f?: Feature): void;
 } & {
-    /**
-     * #getter
-     */
     readonly featureUnderMouse: Feature | undefined;
-    /**
-     * #getter
-     */
     readonly TooltipComponent: AnyReactComponentType;
-    /**
-     * #getter
-     */
     readonly rendererTypeName: string;
 } & {
-    /**
-     * #getter
-     */
     readonly needsScalebar: boolean;
-    /**
-     * #getter
-     */
     readonly needsFullHeightScalebar: boolean;
-    /**
-     * #getter
-     */
     readonly isMultiRow: boolean;
-    /**
-     * #getter
-     * can be used to give it a "color scale" like a R heatmap, not
-     * implemented like this yet but flag can be used for this
-     */
     readonly needsCustomLegend: boolean;
-    /**
-     * #getter
-     */
     readonly canHaveFill: boolean;
-    /**
-     * #getter
-     * the multirowxy and multiline don't need to use colors on the legend
-     * boxes since their track is drawn with the color. sort of a stylistic
-     * choice
-     */
     readonly renderColorBoxes: boolean;
-    /**
-     * #getter
-     * positions multi-row below the tracklabel even if using overlap
-     * tracklabels for everything else
-     */
     readonly prefersOffset: boolean;
-    /**
-     * #getter
-     */
     readonly sources: {
         color: string;
         baseUri?: string;
         name: string;
         group?: string;
     }[] | undefined;
-    /**
-     * #getter
-     */
     readonly quantitativeStatsReady: boolean;
 } & {
-    /**
-     * #getter
-     */
     readonly rowHeight: number;
-    /**
-     * #getter
-     */
     readonly rowHeightTooSmallForScalebar: boolean;
-    /**
-     * #getter
-     */
     readonly useMinimalTicks: any;
 } & {
-    /**
-     * #method
-     */
     adapterProps(): any;
-    /**
-     * #getter
-     */
     readonly ticks: {
         range: number[];
         values: number[];
         format: (d: import("d3-scale").NumberValue) => string;
         position: import("d3-scale").ScaleLinear<number, number, never> | import("d3-scale").ScaleQuantize<number, never>;
     } | undefined;
-    /**
-     * #getter
-     */
     readonly colors: string[];
-    /**
-     * #getter
-     * unused currently
-     */
     readonly quantitativeStatsRelevantToCurrentZoom: boolean;
 } & {
-    /**
-     * #method
-     */
+    readonly legendFontSize: number;
+    readonly canDisplayLegendLabels: boolean;
+    readonly labelWidth: number;
     renderProps(): any;
-    /**
-     * #getter
-     */
     readonly hasResolution: boolean;
-    /**
-     * #getter
-     */
     readonly hasGlobalStats: boolean;
-    /**
-     * #getter
-     */
     readonly fillSetting: 2 | 1 | 0;
 } & {
-    /**
-     * #method
-     */
     trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
         label: string;
         subMenu: ({
@@ -536,10 +420,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     })[];
 } & {
     afterAttach(): void;
-    /**
-     * #action
-     */
-    renderSvg(opts: ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
+    renderSvg(opts: ExportSvgDisplayOptions): Promise<import("react/jsx-runtime").JSX.Element>;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
 export type WiggleDisplayStateModel = ReturnType<typeof stateModelFactory>;
 export type WiggleDisplayModel = Instance<WiggleDisplayStateModel>;