@jbrowse/plugin-wiggle 2.4.1 → 2.5.0

package/dist/WiggleRPC/WiggleGetMultiRegionQuantitativeStats.d.ts

@@ -0,0 +1,20 @@
+import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType';
+import { RenderArgs } from '@jbrowse/core/rpc/coreRpcMethods';
+import { RemoteAbortSignal } from '@jbrowse/core/rpc/remoteAbortSignals';
+import { Region } from '@jbrowse/core/util';
+export declare class WiggleGetMultiRegionQuantitativeStats extends RpcMethodType {
+    name: string;
+    deserializeArguments(args: any, rpcDriverClassName: string): Promise<any>;
+    serializeArguments(args: RenderArgs & {
+        signal?: AbortSignal;
+        statusCallback?: (arg: string) => void;
+    }, rpcDriverClassName: string): Promise<{}>;
+    execute(args: {
+        adapterConfig: {};
+        signal?: RemoteAbortSignal;
+        sessionId: string;
+        headers?: Record<string, string>;
+        regions: Region[];
+        bpPerPx: number;
+    }, rpcDriverClassName: string): Promise<import("@jbrowse/core/util/stats").QuantitativeStats>;
+}

package/dist/WiggleRPC/WiggleGetMultiRegionQuantitativeStats.js

@@ -0,0 +1,54 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.WiggleGetMultiRegionQuantitativeStats = void 0;
+const RpcMethodType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/RpcMethodType"));
+const serializableFilterChain_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/renderers/util/serializableFilterChain"));
+const dataAdapterCache_1 = require("@jbrowse/core/data_adapters/dataAdapterCache");
+const util_1 = require("@jbrowse/core/util");
+const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
+class WiggleGetMultiRegionQuantitativeStats extends RpcMethodType_1.default {
+    constructor() {
+        super(...arguments);
+        this.name = 'WiggleGetMultiRegionQuantitativeStats';
+    }
+    // eslint-disable-next-line @typescript-eslint/no-explicit-any
+    async deserializeArguments(args, rpcDriverClassName) {
+        const l = await super.deserializeArguments(args, rpcDriverClassName);
+        return {
+            ...l,
+            filters: args.filters
+                ? new serializableFilterChain_1.default({
+                    filters: args.filters,
+                })
+                : undefined,
+        };
+    }
+    async serializeArguments(args, rpcDriverClassName) {
+        var _a, _b, _c;
+        const pm = this.pluginManager;
+        const assemblyManager = (_b = (_a = pm.rootModel) === null || _a === void 0 ? void 0 : _a.session) === null || _b === void 0 ? void 0 : _b.assemblyManager;
+        if (!assemblyManager) {
+            return args;
+        }
+        const renamedArgs = await (0, util_1.renameRegionsIfNeeded)(assemblyManager, {
+            ...args,
+            filters: (_c = args.filters) === null || _c === void 0 ? void 0 : _c.toJSON().filters,
+        });
+        return super.serializeArguments(renamedArgs, rpcDriverClassName);
+    }
+    async execute(args, rpcDriverClassName) {
+        const pm = this.pluginManager;
+        const deserializedArgs = await this.deserializeArguments(args, rpcDriverClassName);
+        const { regions, adapterConfig, sessionId } = deserializedArgs;
+        const { dataAdapter } = await (0, dataAdapterCache_1.getAdapter)(pm, sessionId, adapterConfig);
+        if (dataAdapter instanceof BaseAdapter_1.BaseFeatureDataAdapter) {
+            return dataAdapter.getMultiRegionQuantitativeStats(regions, deserializedArgs);
+        }
+        throw new Error('Data adapter not found');
+    }
+}
+exports.WiggleGetMultiRegionQuantitativeStats = WiggleGetMultiRegionQuantitativeStats;
+//# sourceMappingURL=WiggleGetMultiRegionQuantitativeStats.js.map

package/dist/WiggleRPC/WiggleGetMultiRegionQuantitativeStats.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"WiggleGetMultiRegionQuantitativeStats.js","sourceRoot":"","sources":["../../src/WiggleRPC/WiggleGetMultiRegionQuantitativeStats.ts"],"names":[],"mappings":";;;;;;AAAA,sGAA6E;AAC7E,yIAAgH;AAEhH,mFAAyE;AAEzE,6CAAkE;AAClE,yEAAgF;AAEhF,MAAa,qCAAsC,SAAQ,uBAAa;IAAxE;;QACE,SAAI,GAAG,uCAAuC,CAAA;IA+DhD,CAAC;IA7DC,8DAA8D;IAC9D,KAAK,CAAC,oBAAoB,CAAC,IAAS,EAAE,kBAA0B;QAC9D,MAAM,CAAC,GAAG,MAAM,KAAK,CAAC,oBAAoB,CAAC,IAAI,EAAE,kBAAkB,CAAC,CAAA;QACpE,OAAO;YACL,GAAG,CAAC;YACJ,OAAO,EAAE,IAAI,CAAC,OAAO;gBACnB,CAAC,CAAC,IAAI,iCAAuB,CAAC;oBAC1B,OAAO,EAAE,IAAI,CAAC,OAAO;iBACtB,CAAC;gBACJ,CAAC,CAAC,SAAS;SACd,CAAA;IACH,CAAC;IAED,KAAK,CAAC,kBAAkB,CACtB,IAGC,EACD,kBAA0B;;QAE1B,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,eAAe,GAAG,MAAA,MAAA,EAAE,CAAC,SAAS,0CAAE,OAAO,0CAAE,eAAe,CAAA;QAC9D,IAAI,CAAC,eAAe,EAAE;YACpB,OAAO,IAAI,CAAA;SACZ;QAED,MAAM,WAAW,GAAG,MAAM,IAAA,4BAAqB,EAAC,eAAe,EAAE;YAC/D,GAAG,IAAI;YACP,OAAO,EAAE,MAAA,IAAI,CAAC,OAAO,0CAAE,MAAM,GAAG,OAAO;SACxC,CAAC,CAAA;QAEF,OAAO,KAAK,CAAC,kBAAkB,CAAC,WAAW,EAAE,kBAAkB,CAAC,CAAA;IAClE,CAAC;IAED,KAAK,CAAC,OAAO,CACX,IAOC,EACD,kBAA0B;QAE1B,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,gBAAgB,GAAG,MAAM,IAAI,CAAC,oBAAoB,CACtD,IAAI,EACJ,kBAAkB,CACnB,CAAA;QACD,MAAM,EAAE,OAAO,EAAE,aAAa,EAAE,SAAS,EAAE,GAAG,gBAAgB,CAAA;QAC9D,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAA,6BAAU,EAAC,EAAE,EAAE,SAAS,EAAE,aAAa,CAAC,CAAA;QAEtE,IAAI,WAAW,YAAY,oCAAsB,EAAE;YACjD,OAAO,WAAW,CAAC,+BAA+B,CAChD,OAAO,EACP,gBAAgB,CACjB,CAAA;SACF;QACD,MAAM,IAAI,KAAK,CAAC,wBAAwB,CAAC,CAAA;IAC3C,CAAC;CACF;AAhED,sFAgEC"}

package/dist/WiggleRPC/rpcMethods.d.ts

@@ -1,47 +1,3 @@
-import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType';
-import { RenderArgs } from '@jbrowse/core/rpc/coreRpcMethods';
-import { Region } from '@jbrowse/core/util';
-import { RemoteAbortSignal } from '@jbrowse/core/rpc/remoteAbortSignals';
-import { FeatureStats } from '@jbrowse/core/util/stats';
-export declare class WiggleGetGlobalStats extends RpcMethodType {
-    name: string;
-    deserializeArguments(args: any, rpcDriverClassName: string): Promise<any>;
-    execute(args: {
-        adapterConfig: {};
-        signal?: RemoteAbortSignal;
-        headers?: Record<string, string>;
-        sessionId: string;
-    }, rpcDriverClassName: string): Promise<FeatureStats>;
-}
-export declare class WiggleGetMultiRegionStats extends RpcMethodType {
-    name: string;
-    deserializeArguments(args: any, rpcDriverClassName: string): Promise<any>;
-    serializeArguments(args: RenderArgs & {
-        signal?: AbortSignal;
-        statusCallback?: (arg: string) => void;
-    }, rpcDriverClassName: string): Promise<{}>;
-    execute(args: {
-        adapterConfig: {};
-        signal?: RemoteAbortSignal;
-        sessionId: string;
-        headers?: Record<string, string>;
-        regions: Region[];
-        bpPerPx: number;
-    }, rpcDriverClassName: string): Promise<FeatureStats>;
-}
-export declare class MultiWiggleGetSources extends RpcMethodType {
-    name: string;
-    deserializeArguments(args: any, rpcDriverClassName: string): Promise<any>;
-    serializeArguments(args: RenderArgs & {
-        signal?: AbortSignal;
-        statusCallback?: (arg: string) => void;
-    }, rpcDriverClassName: string): Promise<{}>;
-    execute(args: {
-        adapterConfig: {};
-        signal?: RemoteAbortSignal;
-        sessionId: string;
-        headers?: Record<string, string>;
-        regions: Region[];
-        bpPerPx: number;
-    }, rpcDriverClassName: string): Promise<any>;
-}
+export * from './MultiWiggleGetSources';
+export * from './WiggleGetMultiRegionQuantitativeStats';
+export * from './WiggleGetGlobalQuantitativeStats';

package/dist/WiggleRPC/rpcMethods.js

@@ -1,121 +1,20 @@
 "use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __exportStar = (this && this.__exportStar) || function(m, exports) {
+    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.MultiWiggleGetSources = exports.WiggleGetMultiRegionStats = exports.WiggleGetGlobalStats = void 0;
-const RpcMethodType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/RpcMethodType"));
-const serializableFilterChain_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/renderers/util/serializableFilterChain"));
-const dataAdapterCache_1 = require("@jbrowse/core/data_adapters/dataAdapterCache");
-const util_1 = require("@jbrowse/core/util");
-const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-class WiggleGetGlobalStats extends RpcMethodType_1.default {
-    constructor() {
-        super(...arguments);
-        this.name = 'WiggleGetGlobalStats';
-    }
-    // eslint-disable-next-line @typescript-eslint/no-explicit-any
-    async deserializeArguments(args, rpcDriverClassName) {
-        const l = await super.deserializeArguments(args, rpcDriverClassName);
-        return {
-            ...l,
-            filters: args.filters
-                ? new serializableFilterChain_1.default({
-                    filters: args.filters,
-                })
-                : undefined,
-        };
-    }
-    async execute(args, rpcDriverClassName) {
-        const pm = this.pluginManager;
-        const deserializedArgs = await this.deserializeArguments(args, rpcDriverClassName);
-        const { adapterConfig, sessionId } = deserializedArgs;
-        const { dataAdapter } = await (0, dataAdapterCache_1.getAdapter)(pm, sessionId, adapterConfig);
-        // @ts-expect-error
-        return dataAdapter.getGlobalStats(deserializedArgs);
-    }
-}
-exports.WiggleGetGlobalStats = WiggleGetGlobalStats;
-class WiggleGetMultiRegionStats extends RpcMethodType_1.default {
-    constructor() {
-        super(...arguments);
-        this.name = 'WiggleGetMultiRegionStats';
-    }
-    // eslint-disable-next-line @typescript-eslint/no-explicit-any
-    async deserializeArguments(args, rpcDriverClassName) {
-        const l = await super.deserializeArguments(args, rpcDriverClassName);
-        return {
-            ...l,
-            filters: args.filters
-                ? new serializableFilterChain_1.default({
-                    filters: args.filters,
-                })
-                : undefined,
-        };
-    }
-    async serializeArguments(args, rpcDriverClassName) {
-        var _a, _b, _c;
-        const pm = this.pluginManager;
-        const assemblyManager = (_b = (_a = pm.rootModel) === null || _a === void 0 ? void 0 : _a.session) === null || _b === void 0 ? void 0 : _b.assemblyManager;
-        if (!assemblyManager) {
-            return args;
-        }
-        const renamedArgs = await (0, util_1.renameRegionsIfNeeded)(assemblyManager, {
-            ...args,
-            filters: (_c = args.filters) === null || _c === void 0 ? void 0 : _c.toJSON().filters,
-        });
-        return super.serializeArguments(renamedArgs, rpcDriverClassName);
-    }
-    async execute(args, rpcDriverClassName) {
-        const pm = this.pluginManager;
-        const deserializedArgs = await this.deserializeArguments(args, rpcDriverClassName);
-        const { regions, adapterConfig, sessionId } = deserializedArgs;
-        const { dataAdapter } = await (0, dataAdapterCache_1.getAdapter)(pm, sessionId, adapterConfig);
-        if (dataAdapter instanceof BaseAdapter_1.BaseFeatureDataAdapter) {
-            return dataAdapter.getMultiRegionStats(regions, deserializedArgs);
-        }
-        throw new Error('Data adapter not found');
-    }
-}
-exports.WiggleGetMultiRegionStats = WiggleGetMultiRegionStats;
-class MultiWiggleGetSources extends RpcMethodType_1.default {
-    constructor() {
-        super(...arguments);
-        this.name = 'MultiWiggleGetSources';
-    }
-    // eslint-disable-next-line @typescript-eslint/no-explicit-any
-    async deserializeArguments(args, rpcDriverClassName) {
-        const l = await super.deserializeArguments(args, rpcDriverClassName);
-        return {
-            ...l,
-            filters: args.filters
-                ? new serializableFilterChain_1.default({
-                    filters: args.filters,
-                })
-                : undefined,
-        };
-    }
-    async serializeArguments(args, rpcDriverClassName) {
-        var _a, _b, _c;
-        const pm = this.pluginManager;
-        const assemblyManager = (_b = (_a = pm.rootModel) === null || _a === void 0 ? void 0 : _a.session) === null || _b === void 0 ? void 0 : _b.assemblyManager;
-        if (!assemblyManager) {
-            return args;
-        }
-        const renamedArgs = await (0, util_1.renameRegionsIfNeeded)(assemblyManager, {
-            ...args,
-            filters: (_c = args.filters) === null || _c === void 0 ? void 0 : _c.toJSON().filters,
-        });
-        return super.serializeArguments(renamedArgs, rpcDriverClassName);
-    }
-    async execute(args, rpcDriverClassName) {
-        const pm = this.pluginManager;
-        const deserializedArgs = await this.deserializeArguments(args, rpcDriverClassName);
-        const { regions, adapterConfig, sessionId } = deserializedArgs;
-        const { dataAdapter } = await (0, dataAdapterCache_1.getAdapter)(pm, sessionId, adapterConfig);
-        // @ts-expect-error
-        return dataAdapter.getSources(regions, deserializedArgs);
-    }
-}
-exports.MultiWiggleGetSources = MultiWiggleGetSources;
+__exportStar(require("./MultiWiggleGetSources"), exports);
+__exportStar(require("./WiggleGetMultiRegionQuantitativeStats"), exports);
+__exportStar(require("./WiggleGetGlobalQuantitativeStats"), exports);
 //# sourceMappingURL=rpcMethods.js.map

package/dist/WiggleRPC/rpcMethods.js.map

@@ -1 +1 @@
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+{"version":3,"file":"rpcMethods.js","sourceRoot":"","sources":["../../src/WiggleRPC/rpcMethods.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;AAAA,0DAAuC;AACvC,0EAAuD;AACvD,qEAAkD"}

package/dist/WiggleRendering.d.ts

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import { Region } from '@jbrowse/core/util/types';
 import { Feature } from '@jbrowse/core/util';
 declare function WiggleRendering(props: {

package/dist/XYPlotRenderer/configSchema.d.ts

@@ -1,2 +1,66 @@
-declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    filled: {
+        type: string;
+        defaultValue: boolean;
+    };
+    /**
+     * #slot
+     */
+    displayCrossHatches: {
+        type: string;
+        description: string;
+        defaultValue: boolean;
+    };
+    /**
+     * #slot
+     */
+    summaryScoreMode: {
+        type: string;
+        model: import("mobx-state-tree").ISimpleType<string>;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    minSize: {
+        type: string;
+        defaultValue: number;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    color: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    posColor: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    negColor: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    clipColor: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    bicolorPivot: {
+        type: string;
+        model: import("mobx-state-tree").ISimpleType<string>;
+        description: string;
+        defaultValue: string;
+    };
+    bicolorPivotValue: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>, undefined>>;
 export default configSchema;

package/dist/configSchema.d.ts

@@ -1,2 +1,52 @@
-declare const WiggleRenderer: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const WiggleRenderer: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    color: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    posColor: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    negColor: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    clipColor: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    bicolorPivot: {
+        type: string;
+        model: import("mobx-state-tree").ISimpleType<string>;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    bicolorPivotValue: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
 export default WiggleRenderer;