@jbrowse/plugin-dotplot-view 3.7.0 → 4.0.1

package/dist/ServerSideSyntenyRendering.d.ts

@@ -1,13 +0,0 @@
-interface ModelType {
-    imageData: string;
-    style: Record<string, string>;
-    renderProps: {
-        width: number;
-        height: number;
-        highResolutionScaling?: number;
-    };
-}
-declare const ServerSideSyntenyRendering: ({ model, }: {
-    model: ModelType;
-}) => import("react/jsx-runtime").JSX.Element;
-export default ServerSideSyntenyRendering;

package/dist/ServerSideSyntenyRendering.js

@@ -1,23 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const offscreenCanvasPonyfill_1 = require("@jbrowse/core/util/offscreenCanvasPonyfill");
-const mobx_react_1 = require("mobx-react");
-const ServerSideSyntenyRendering = (0, mobx_react_1.observer)(function ({ model, }) {
-    const { imageData, style, renderProps } = model;
-    const { width, height, highResolutionScaling = 1 } = renderProps;
-    const featureCanvas = (0, react_1.useRef)(null);
-    const [done, setDone] = (0, react_1.useState)(false);
-    (0, react_1.useEffect)(() => {
-        if (!imageData) {
-            return;
-        }
-        const canvas = featureCanvas.current;
-        const context = canvas.getContext('2d');
-        (0, offscreenCanvasPonyfill_1.drawImageOntoCanvasContext)(imageData, context);
-        setDone(true);
-    }, [imageData]);
-    return ((0, jsx_runtime_1.jsx)("canvas", { "data-testid": `prerendered_canvas${done ? '_done' : ''}`, ref: featureCanvas, width: width * highResolutionScaling, height: height * highResolutionScaling, style: { width, height, ...style } }));
-});
-exports.default = ServerSideSyntenyRendering;

package/dist/index.d.ts

@@ -1,7 +0,0 @@
-import Plugin from '@jbrowse/core/Plugin';
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default class DotplotPlugin extends Plugin {
-    name: string;
-    install(pluginManager: PluginManager): void;
-    configure(pluginManager: PluginManager): void;
-}

package/dist/index.js

@@ -1,42 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
-const util_1 = require("@jbrowse/core/util");
-const Timeline_1 = __importDefault(require("@mui/icons-material/Timeline"));
-const ComparativeRenderer_1 = __importDefault(require("./ComparativeRenderer"));
-const DiagonalizeDotplotRpc_1 = __importDefault(require("./DiagonalizeDotplotRpc"));
-const DotplotDisplay_1 = __importDefault(require("./DotplotDisplay"));
-const DotplotReadVsRef_1 = __importDefault(require("./DotplotReadVsRef"));
-const DotplotRenderer_1 = __importDefault(require("./DotplotRenderer"));
-const DotplotView_1 = __importDefault(require("./DotplotView"));
-const LaunchDotplotView_1 = __importDefault(require("./LaunchDotplotView"));
-class DotplotPlugin extends Plugin_1.default {
-    constructor() {
-        super(...arguments);
-        this.name = 'DotplotPlugin';
-    }
-    install(pluginManager) {
-        (0, DotplotView_1.default)(pluginManager);
-        (0, DotplotDisplay_1.default)(pluginManager);
-        (0, DotplotRenderer_1.default)(pluginManager);
-        (0, LaunchDotplotView_1.default)(pluginManager);
-        (0, DotplotReadVsRef_1.default)(pluginManager);
-        pluginManager.addRpcMethod(() => new ComparativeRenderer_1.default(pluginManager));
-        pluginManager.addRpcMethod(() => new DiagonalizeDotplotRpc_1.default(pluginManager));
-    }
-    configure(pluginManager) {
-        if ((0, util_1.isAbstractMenuManager)(pluginManager.rootModel)) {
-            pluginManager.rootModel.appendToSubMenu(['Add'], {
-                label: 'Dotplot view',
-                icon: Timeline_1.default,
-                onClick: (session) => {
-                    session.addView('DotplotView', {});
-                },
-            });
-        }
-    }
-}
-exports.default = DotplotPlugin;

package/dist/util.d.ts

@@ -1,9 +0,0 @@
-import type { Feature } from '@jbrowse/core/util';
-export interface ReducedFeature {
-    refName: string;
-    start: number;
-    clipPos: number;
-    end: number;
-    seqLength: number;
-}
-export declare function getTag(f: Feature, tag: string): any;

package/dist/util.js

@@ -1,7 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.getTag = getTag;
-function getTag(f, tag) {
-    const tags = f.get('tags');
-    return tags ? tags[tag] : f.get(tag);
-}

package/esm/DotplotRenderer/ComparativeRenderRpc.d.ts

@@ -1,22 +0,0 @@
-import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType';
-import type { RenderArgs as ComparativeRenderArgs, RenderArgsSerialized as ComparativeRenderArgsSerialized, RenderResults, ResultsSerialized } from '@jbrowse/core/pluggableElementTypes/renderers/ComparativeServerSideRendererType';
-import type ComparativeRenderer from '@jbrowse/core/pluggableElementTypes/renderers/ComparativeServerSideRendererType';
-interface RenderArgs extends ComparativeRenderArgs {
-    adapterConfig: Record<string, unknown>;
-    rendererType: string;
-}
-interface RenderArgsSerialized extends ComparativeRenderArgsSerialized {
-    adapterConfig: Record<string, unknown>;
-    rendererType: string;
-}
-export default class ComparativeRender extends RpcMethodType {
-    name: string;
-    renameRegionsIfNeeded(args: RenderArgs, rend: ComparativeRenderer): Promise<ComparativeRenderArgs>;
-    getRenderer(rendererType: string): ComparativeRenderer;
-    serializeArguments(args: RenderArgs, rpcDriver: string): Promise<ComparativeRenderArgs | import("@jbrowse/core/pluggableElementTypes/renderers/ServerSideRendererType").RenderArgsSerialized>;
-    execute(args: RenderArgsSerialized & {
-        stopToken?: string;
-    }, rpcDriver: string): Promise<RenderResults | import("@jbrowse/core/pluggableElementTypes/renderers/ServerSideRendererType").ResultsSerialized>;
-    deserializeReturn(val: RenderResults | ResultsSerialized, args: RenderArgs, rpcDriver: string): Promise<unknown>;
-}
-export {};

package/esm/DotplotRenderer/ComparativeRenderRpc.js

@@ -1,47 +0,0 @@
-import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType';
-import { checkStopToken } from '@jbrowse/core/util/stopToken';
-export default class ComparativeRender extends RpcMethodType {
-    constructor() {
-        super(...arguments);
-        this.name = 'ComparativeRender';
-    }
-    async renameRegionsIfNeeded(args, rend) {
-        return rend.renameRegionsIfNeeded(args);
-    }
-    getRenderer(rendererType) {
-        const pm = this.pluginManager;
-        return pm.getRendererType(rendererType);
-    }
-    async serializeArguments(args, rpcDriver) {
-        const { rendererType } = args;
-        const renderer = this.getRenderer(rendererType);
-        const n = (await super.serializeArguments(args, rpcDriver));
-        const result = await this.renameRegionsIfNeeded(n, renderer);
-        return rpcDriver === 'MainThreadRpcDriver'
-            ? result
-            : renderer.serializeArgsInClient(result);
-    }
-    async execute(args, rpcDriver) {
-        let deserializedArgs = args;
-        if (rpcDriver !== 'MainThreadRpcDriver') {
-            deserializedArgs = await this.deserializeArguments(args, rpcDriver);
-        }
-        const { sessionId, rendererType, stopToken } = deserializedArgs;
-        if (!sessionId) {
-            throw new Error('must pass a unique session id');
-        }
-        checkStopToken(stopToken);
-        const renderer = this.getRenderer(rendererType);
-        return rpcDriver === 'MainThreadRpcDriver'
-            ? renderer.render(deserializedArgs)
-            : renderer.renderInWorker(deserializedArgs);
-    }
-    async deserializeReturn(val, args, rpcDriver) {
-        const ret = (await super.deserializeReturn(val, args, rpcDriver));
-        if (rpcDriver === 'MainThreadRpcDriver') {
-            return ret;
-        }
-        const renderer = this.getRenderer(args.rendererType);
-        return renderer.deserializeResultsInClient(ret, args);
-    }
-}

package/esm/DotplotView/components/Grid.d.ts

@@ -1,9 +0,0 @@
-import type { DotplotViewModel } from '../model';
-export declare const GridRaw: ({ model, children, }: {
-    model: DotplotViewModel;
-    children?: React.ReactNode;
-}) => import("react/jsx-runtime").JSX.Element | null;
-export default function Grid({ model, children, }: {
-    model: DotplotViewModel;
-    children?: React.ReactNode;
-}): import("react/jsx-runtime").JSX.Element;