@jbrowse/plugin-wiggle 2.12.0 → 2.12.1

package/dist/MultiLinearWiggleDisplay/models/model.d.ts

@@ -42,7 +42,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     }, {
         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;
@@ -54,9 +54,9 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
                 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;
@@ -67,9 +67,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
         setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
-            reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>; /**
-             * #getter
-             */
+            reactElement: React.ReactElement;
             features: Map<string, Feature>;
             layout: any;
             maxHeightReached: boolean;
@@ -106,9 +104,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
             description: string;
             defaultValue: never[];
         };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>; /**
-     * #action
-     */
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 } & {
     selectedRendering: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     resolution: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
@@ -121,9 +117,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     rendererTypeNameState: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     scale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     autoscale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-    displayCrossHatches: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>; /**
-     * #property
-     */
+    displayCrossHatches: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
     constraints: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
         max: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
         min: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
@@ -160,9 +154,11 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
             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;
+        }, import("mobx-state-tree" /**
+         * #property
+         */)._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        onHorizontalScroll?: Function;
+        blockState?: Record<string, any>;
     }>;
     readonly DisplayBlurb: React.FC<{
         model: {
@@ -174,13 +170,9 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
             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]>; /**
-             * #action
-             */
+            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>>; /**
-             * #getter
-             */
+            rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
             rendererTypeName: string;
             error: unknown;
@@ -191,12 +183,12 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     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(): 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;
@@ -209,25 +201,23 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     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;
     readonly currentFeatureScreenDensity: number;
-    readonly maxFeatureScreenDensity: any; /**
-     * #property
-     */
+    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;
+    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;
@@ -236,8 +226,8 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     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;
 } & {
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
@@ -245,7 +235,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     readonly renderDelay: number;
     readonly TooltipComponent: React.FC<any>;
     readonly selectedFeatureId: string | undefined;
-    readonly DisplayMessageComponent: React.FC<any> | undefined;
+    readonly DisplayMessageComponent: undefined | React.FC<any>;
 } & {
     readonly features: import("@jbrowse/core/util/compositeMap").default<string, Feature>;
     readonly featureUnderMouse: Feature | undefined;
@@ -258,8 +248,8 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     selectFeature(feature: Feature): void;
     navToFeature(feature: Feature): void;
     clearFeatureSelection(): void;
-    setFeatureIdUnderMouse(feature?: string | undefined): void;
-    setContextMenuFeature(feature?: Feature | undefined): void;
+    setFeatureIdUnderMouse(feature?: string): void;
+    setContextMenuFeature(feature?: Feature): void;
 } & {
     reload(): Promise<void>;
 } & {
@@ -270,33 +260,31 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     renderSvg(opts: ExportSvgDisplayOptions): Promise<React.JSX.Element>;
     afterAttach(): void;
 } & {
-    message: string | undefined;
+    message: undefined | string;
     stats: {
         scoreMin: number;
         scoreMax: number;
-    } | undefined; /**
-     * #action
-     */
-    statsFetchInProgress: AbortController | undefined;
+    } | undefined;
+    statsFetchInProgress: undefined | AbortController;
 } & {
     updateQuantitativeStats(stats: {
         scoreMin: number;
         scoreMax: number;
     }): void;
-    setColor(color?: string | undefined): void;
-    setPosColor(color?: string | undefined): void;
-    setNegColor(color?: string | undefined): void;
+    setColor(color?: string): void;
+    setPosColor(color?: string): void;
+    setNegColor(color?: string): void;
     setLoading(aborter: AbortController): void;
     selectFeature(feature: Feature): void;
     setResolution(res: number): void;
     setFill(fill: number): void;
     toggleLogScale(): void;
-    setScaleType(scale?: string | undefined): void;
+    setScaleType(scale?: string): void;
     setSummaryScoreMode(val: string): void;
     setAutoscale(val: string): void;
-    setMaxScore(val?: number | undefined): void;
+    setMaxScore(val?: number): void;
     setRendererType(val: string): void;
-    setMinScore(val?: number | undefined): void;
+    setMinScore(val?: number): void;
     toggleCrossHatches(): void;
     setCrossHatches(cross: boolean): void;
 } & {
@@ -311,7 +299,13 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     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").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>;
     readonly autoscaleType: any;
 } & {
@@ -385,7 +379,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     /**
      * #getter
      */
-    readonly TooltipComponent: React.FC<{}>;
+    readonly TooltipComponent: React.FC;
     /**
      * #getter
      */
@@ -429,7 +423,7 @@ export declare function stateModelFactory(pluginManager: PluginManager, configSc
     readonly sources: {
         color: string;
         name: string;
-        group?: string | undefined;
+        group?: string;
     }[] | undefined;
 } & {
     /**

package/dist/MultiLinearWiggleDisplay/models/model.js

@@ -26,7 +26,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.stateModelFactory = void 0;
+exports.stateModelFactory = stateModelFactory;
 const react_1 = require("react");
 const mobx_state_tree_1 = require("mobx-state-tree");
 const mobx_1 = require("mobx");
@@ -411,5 +411,4 @@ function stateModelFactory(pluginManager, configSchema) {
         };
     });
 }
-exports.stateModelFactory = stateModelFactory;
 exports.default = stateModelFactory;

package/dist/MultiLinearWiggleDisplay/models/renderSvg.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.renderSvg = void 0;
+exports.renderSvg = renderSvg;
 const react_1 = __importDefault(require("react"));
 const util_1 = require("@jbrowse/core/util");
 const mobx_1 = require("mobx");
@@ -16,4 +16,3 @@ async function renderSvg(self, opts, superRenderSvg) {
         react_1.default.createElement("g", { transform: `translate(${Math.max(-offsetPx, 0)})` },
             react_1.default.createElement(YScaleBars_1.default, { model: self, orientation: "left", exportSVG: true }))));
 }
-exports.renderSvg = renderSvg;

package/dist/MultiQuantitativeTrack/index.js

@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiQuantitativeTrackF;
 const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
 const TrackType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/TrackType"));
 const configSchema_1 = __importDefault(require("./configSchema"));
@@ -17,4 +18,3 @@ function MultiQuantitativeTrackF(pluginManager) {
         });
     });
 }
-exports.default = MultiQuantitativeTrackF;

package/dist/MultiRowLineRenderer/index.js

@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiRowLineRendererF;
 const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
 const MultiRowLineRenderer_1 = __importDefault(require("./MultiRowLineRenderer"));
 const configSchema_1 = __importDefault(require("./configSchema"));
@@ -14,4 +15,3 @@ function MultiRowLineRendererF(pluginManager) {
         pluginManager,
     }));
 }
-exports.default = MultiRowLineRendererF;

package/dist/MultiRowXYPlotRenderer/configSchema.d.ts

@@ -39,9 +39,6 @@ declare const configSchema: import("@jbrowse/core/configuration/configurationSch
     posColor: {
         type: string;
         description: string;
-        /**
-         * #slot
-         */
         defaultValue: string;
     };
     negColor: {

package/dist/MultiRowXYPlotRenderer/index.js

@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiRowXYPlotRendererF;
 const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
 const MultiRowXYPlotRenderer_1 = __importDefault(require("./MultiRowXYPlotRenderer"));
 const configSchema_1 = __importDefault(require("./configSchema"));
@@ -14,4 +15,3 @@ function MultiRowXYPlotRendererF(pluginManager) {
         pluginManager,
     }));
 }
-exports.default = MultiRowXYPlotRendererF;

package/dist/MultiWiggleAdapter/index.js

@@ -26,6 +26,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiWiggleAdapterF;
 const configSchema_1 = __importDefault(require("./configSchema"));
 const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
 function MultiWiggleAdapterF(pluginManager) {
@@ -44,4 +45,3 @@ function MultiWiggleAdapterF(pluginManager) {
         getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./MultiWiggleAdapter'))).then(r => r.default),
     }));
 }
-exports.default = MultiWiggleAdapterF;

package/dist/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.js

@@ -23,6 +23,7 @@ var __importStar = (this && this.__importStar) || function (mod) {
     return result;
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiWiggleWidget;
 const react_1 = __importStar(require("react"));
 const material_1 = require("@mui/material");
 const mui_1 = require("tss-react/mui");
@@ -116,4 +117,3 @@ function MultiWiggleWidget({ model }) {
                 "to apply e.g. the color attribute to the view"),
             react_1.default.createElement("li", null, "Adding local files will update the textbox with JSON contents that are ready to submit with the \"Submit\" button"))));
 }
-exports.default = MultiWiggleWidget;

package/dist/MultiWiggleAddTrackWorkflow/index.js

@@ -23,6 +23,7 @@ var __importStar = (this && this.__importStar) || function (mod) {
     return result;
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiWiggleAddTrackWorkflowF;
 const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 const mobx_state_tree_1 = require("mobx-state-tree");
 // locals
@@ -34,4 +35,3 @@ function MultiWiggleAddTrackWorkflowF(pm) {
         stateModel: mobx_state_tree_1.types.model({}),
     }));
 }
-exports.default = MultiWiggleAddTrackWorkflowF;

package/dist/MultiXYPlotRenderer/index.js

@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = MultiXYPlotRendererF;
 const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
 const MultiXYPlotRenderer_1 = __importDefault(require("./MultiXYPlotRenderer"));
 const configSchema_1 = __importDefault(require("./configSchema"));
@@ -14,4 +15,3 @@ function MultiXYPlotRendererF(pluginManager) {
         pluginManager,
     }));
 }
-exports.default = MultiXYPlotRendererF;

package/dist/QuantitativeTrack/index.js

@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = QuantitativeTrackF;
 const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
 const TrackType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/TrackType"));
 const configSchema_1 = __importDefault(require("./configSchema"));
@@ -17,4 +18,3 @@ function QuantitativeTrackF(pluginManager) {
         });
     });
 }
-exports.default = QuantitativeTrackF;

package/dist/WiggleBaseRenderer.d.ts

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import FeatureRendererType, { RenderArgs as FeatureRenderArgs, RenderArgsDeserialized as FeatureRenderArgsDeserialized } from '@jbrowse/core/pluggableElementTypes/renderers/FeatureRendererType';
 import { Feature } from '@jbrowse/core/util';
 import { ThemeOptions } from '@mui/material';
@@ -31,23 +30,23 @@ export default abstract class WiggleBaseRenderer extends FeatureRendererType {
         width: number;
         containsNoTransferables: boolean;
         canvasRecordedData: any;
-        reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
-        html?: string | undefined;
+        reactElement?: import("react").ReactElement;
+        html?: string;
     } | {
         features: Map<string, Feature>;
         height: number;
         width: number;
         containsNoTransferables: boolean;
         reactElement: import("react").JSX.Element;
-        html?: string | undefined;
+        html?: string;
     } | {
         features: Map<string, Feature>;
         height: number;
         width: number;
         containsNoTransferables: boolean;
         imageData: any;
-        reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
-        html?: string | undefined;
+        reactElement?: import("react").ReactElement;
+        html?: string;
     }>;
     /**
      * draw features to context given props, to be used by derived renderer

package/dist/XYPlotRenderer/index.js

@@ -4,6 +4,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.configSchema = exports.ReactComponent = exports.XYPlotRenderer = void 0;
+exports.default = XYPlotRendererF;
 const WiggleRendering_1 = __importDefault(require("../WiggleRendering"));
 const XYPlotRenderer_1 = __importDefault(require("./XYPlotRenderer"));
 const configSchema_1 = __importDefault(require("./configSchema"));
@@ -15,7 +16,6 @@ function XYPlotRendererF(pluginManager) {
         pluginManager,
     }));
 }
-exports.default = XYPlotRendererF;
 var XYPlotRenderer_2 = require("./XYPlotRenderer");
 Object.defineProperty(exports, "XYPlotRenderer", { enumerable: true, get: function () { return __importDefault(XYPlotRenderer_2).default; } });
 var WiggleRendering_2 = require("../WiggleRendering");

package/dist/drawDensity.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.drawDensity = void 0;
+exports.drawDensity = drawDensity;
 const configuration_1 = require("@jbrowse/core/configuration");
 const util_1 = require("@jbrowse/core/util");
 // locals
@@ -63,4 +63,3 @@ function drawDensity(ctx, props) {
     ctx.restore();
     return { reducedFeatures };
 }
-exports.drawDensity = drawDensity;

package/dist/drawLine.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.drawLine = void 0;
+exports.drawLine = drawLine;
 const configuration_1 = require("@jbrowse/core/configuration");
 const util_1 = require("@jbrowse/core/util");
 // locals
@@ -70,4 +70,3 @@ function drawLine(ctx, props) {
     }
     return { reducedFeatures };
 }
-exports.drawLine = drawLine;

package/dist/drawXY.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.drawXY = void 0;
+exports.drawXY = drawXY;
 const configuration_1 = require("@jbrowse/core/configuration");
 const colord_1 = require("@jbrowse/core/util/colord");
 const util_1 = require("@jbrowse/core/util");
@@ -161,4 +161,3 @@ function drawXY(ctx, props) {
     }
     return { reducedFeatures };
 }
-exports.drawXY = drawXY;