@jbrowse/plugin-variants 2.2.1 → 2.3.0

package/dist/ChordVariantDisplay/models/ChordVariantDisplay.d.ts

@@ -1,117 +0,0 @@
-/// <reference types="react" />
-import PluginManager from '@jbrowse/core/PluginManager';
-/**
- * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
- */
-declare const ChordVariantDisplayF: (pluginManager: PluginManager) => {
-    stateModel: 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>>;
-    } & {
-        bezierRadiusRatio: import("mobx-state-tree").IType<number | undefined, number, number>;
-        assemblyName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-    } & {
-        /**
-         * #property
-         */
-        type: import("mobx-state-tree").ISimpleType<"ChordVariantDisplay">;
-        /**
-         * #property
-         */
-        configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
-    }, {
-        rendererTypeName: string;
-        error: unknown;
-    } & {
-        readonly RenderingComponent: import("react").FC<{
-            model: {
-                id: string; /**
-                 * #property
-                 */
-                type: string;
-                rpcDriverName: string | undefined;
-            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-                rendererTypeName: string;
-                error: unknown;
-            } & 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;
-                error: unknown;
-            }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-            onHorizontalScroll?: Function | undefined;
-            blockState?: Record<string, any> | undefined;
-        }>;
-        readonly DisplayBlurb: import("react").FC<{
-            model: {
-                id: string;
-                type: string;
-                rpcDriverName: string | undefined;
-            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-                rendererTypeName: string;
-                error: unknown;
-            } & 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;
-                error: unknown;
-            }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        }> | null;
-        readonly adapterConfig: any;
-        readonly parentTrack: any;
-        renderProps(): any;
-        readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-        readonly DisplayMessageComponent: import("react").FC<any> | undefined;
-        trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-        readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
-        regionCannotBeRendered(): undefined;
-    } & {
-        setError(error?: unknown): void;
-        setRpcDriverName(rpcDriverName: string): void;
-        reload(): void;
-    } & {
-        filled: boolean;
-        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
-        data: undefined;
-        message: string;
-        renderingComponent: import("@jbrowse/core/util").AnyReactComponentType | undefined;
-        refNameMap: Record<string, string> | undefined;
-    } & {
-        onChordClick(feature: import("@jbrowse/core/util").Feature): void;
-    } & {
-        readonly blockDefinitions: any;
-        renderProps(): any;
-        readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-        isCompatibleWithRenderer(renderer: import("@jbrowse/core/pluggableElementTypes").RendererType): boolean;
-        readonly selectedFeatureId: string | undefined;
-    } & {
-        renderStarted(): void;
-        renderSuccess({ message, data, reactElement, renderingComponent, }: {
-            message: string;
-            data: any;
-            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
-            renderingComponent: import("@jbrowse/core/util").AnyReactComponentType;
-        }): void;
-        renderError(error: unknown): void;
-        setRefNameMap(refNameMap: Record<string, string>): void;
-    } & {
-        afterAttach(): void;
-    } & {
-        /**
-         * #getter
-         */
-        readonly rendererTypeName: any;
-        /**
-         * #method
-         */
-        renderProps(): Record<string, unknown>;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-    configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-};
-export default ChordVariantDisplayF;

package/dist/ChordVariantDisplay/models/ChordVariantDisplay.js

@@ -1,62 +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_circular_view_1 = require("@jbrowse/plugin-circular-view");
-const configuration_1 = require("@jbrowse/core/configuration");
-const mobx_state_tree_1 = require("mobx-state-tree");
-const util_1 = require("@jbrowse/core/util");
-const tracks_1 = require("@jbrowse/core/util/tracks");
-// locals
-const configSchema_1 = __importDefault(require("./configSchema"));
-/**
- * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
- */
-const ChordVariantDisplayF = (pluginManager) => {
-    const configSchema = (0, configSchema_1.default)(pluginManager);
-    const stateModel = mobx_state_tree_1.types
-        .compose('ChordVariantDisplay', plugin_circular_view_1.BaseChordDisplayModel, mobx_state_tree_1.types.model({
-        /**
-         * #property
-         */
-        type: mobx_state_tree_1.types.literal('ChordVariantDisplay'),
-        /**
-         * #property
-         */
-        configuration: (0, configuration_1.ConfigurationReference)(configSchema),
-    }))
-        .views(self => ({
-        /**
-         * #getter
-         */
-        get rendererTypeName() {
-            return self.configuration.renderer.type;
-        },
-        /**
-         * #method
-         */
-        renderProps() {
-            const view = (0, util_1.getContainingView)(self);
-            return {
-                ...(0, tracks_1.getParentRenderProps)(self),
-                rpcDriverName: self.rpcDriverName,
-                displayModel: self,
-                bezierRadius: view.radiusPx * self.bezierRadiusRatio,
-                radius: view.radiusPx,
-                // @ts-ignore
-                blockDefinitions: this.blockDefinitions,
-                config: self.configuration.renderer,
-                onChordClick: self.onChordClick,
-            };
-        },
-    }));
-    return { stateModel, configSchema };
-};
-// http://localhost:3000/test_data/hs37d5.HG002-SequelII-CCS.sv.vcf.gz.tbi
-// render request is for 1.5x the current viewing window
-// tracks all have a height
-//
-exports.default = ChordVariantDisplayF;
-//# sourceMappingURL=ChordVariantDisplay.js.map

package/dist/ChordVariantDisplay/models/ChordVariantDisplay.js.map

@@ -1 +0,0 @@
-{"version":3,"file":"ChordVariantDisplay.js","sourceRoot":"","sources":["../../../src/ChordVariantDisplay/models/ChordVariantDisplay.ts"],"names":[],"mappings":";;;;;AAAA,wEAAqE;AACrE,+DAAoE;AACpE,qDAAuC;AACvC,6CAAsD;AACtD,sDAAgE;AAGhE,SAAS;AACT,kEAA0C;AAE1C;;;GAGG;AACH,MAAM,oBAAoB,GAAG,CAAC,aAA4B,EAAE,EAAE;IAC5D,MAAM,YAAY,GAAG,IAAA,sBAAa,EAAC,aAAa,CAAC,CAAA;IACjD,MAAM,UAAU,GAAG,uBAAK;SACrB,OAAO,CACN,qBAAqB,EACrB,4CAAqB,EACrB,uBAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,qBAAqB,CAAC;QAC1C;;WAEG;QACH,aAAa,EAAE,IAAA,sCAAsB,EAAC,YAAY,CAAC;KACpD,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,gBAAgB;YAClB,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAA;QACzC,CAAC;QAED;;WAEG;QACH,WAAW;YACT,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAAC,CAAA;YACpC,OAAO;gBACL,GAAG,IAAA,6BAAoB,EAAC,IAAI,CAAC;gBAC7B,aAAa,EAAE,IAAI,CAAC,aAAa;gBACjC,YAAY,EAAE,IAAI;gBAClB,YAAY,EAAE,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC,iBAAiB;gBACpD,MAAM,EAAE,IAAI,CAAC,QAAQ;gBAErB,aAAa;gBACb,gBAAgB,EAAE,IAAI,CAAC,gBAAgB;gBACvC,MAAM,EAAE,IAAI,CAAC,aAAa,CAAC,QAAQ;gBACnC,YAAY,EAAE,IAAI,CAAC,YAAY;aAChC,CAAA;QACH,CAAC;KACF,CAAC,CAAC,CAAA;IAEL,OAAO,EAAE,UAAU,EAAE,YAAY,EAAE,CAAA;AACrC,CAAC,CAAA;AAED,0EAA0E;AAE1E,wDAAwD;AAExD,2BAA2B;AAC3B,EAAE;AACF,kBAAe,oBAAoB,CAAA"}

package/esm/ChordVariantDisplay/models/ChordVariantDisplay.d.ts

@@ -1,117 +0,0 @@
-/// <reference types="react" />
-import PluginManager from '@jbrowse/core/PluginManager';
-/**
- * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
- */
-declare const ChordVariantDisplayF: (pluginManager: PluginManager) => {
-    stateModel: 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>>;
-    } & {
-        bezierRadiusRatio: import("mobx-state-tree").IType<number | undefined, number, number>;
-        assemblyName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-    } & {
-        /**
-         * #property
-         */
-        type: import("mobx-state-tree").ISimpleType<"ChordVariantDisplay">;
-        /**
-         * #property
-         */
-        configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
-    }, {
-        rendererTypeName: string;
-        error: unknown;
-    } & {
-        readonly RenderingComponent: import("react").FC<{
-            model: {
-                id: string; /**
-                 * #property
-                 */
-                type: string;
-                rpcDriverName: string | undefined;
-            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-                rendererTypeName: string;
-                error: unknown;
-            } & 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;
-                error: unknown;
-            }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-            onHorizontalScroll?: Function | undefined;
-            blockState?: Record<string, any> | undefined;
-        }>;
-        readonly DisplayBlurb: import("react").FC<{
-            model: {
-                id: string;
-                type: string;
-                rpcDriverName: string | undefined;
-            } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-                rendererTypeName: string;
-                error: unknown;
-            } & 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;
-                error: unknown;
-            }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-        }> | null;
-        readonly adapterConfig: any;
-        readonly parentTrack: any;
-        renderProps(): any;
-        readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-        readonly DisplayMessageComponent: import("react").FC<any> | undefined;
-        trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-        readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
-        regionCannotBeRendered(): undefined;
-    } & {
-        setError(error?: unknown): void;
-        setRpcDriverName(rpcDriverName: string): void;
-        reload(): void;
-    } & {
-        filled: boolean;
-        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
-        data: undefined;
-        message: string;
-        renderingComponent: import("@jbrowse/core/util").AnyReactComponentType | undefined;
-        refNameMap: Record<string, string> | undefined;
-    } & {
-        onChordClick(feature: import("@jbrowse/core/util").Feature): void;
-    } & {
-        readonly blockDefinitions: any;
-        renderProps(): any;
-        readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
-        isCompatibleWithRenderer(renderer: import("@jbrowse/core/pluggableElementTypes").RendererType): boolean;
-        readonly selectedFeatureId: string | undefined;
-    } & {
-        renderStarted(): void;
-        renderSuccess({ message, data, reactElement, renderingComponent, }: {
-            message: string;
-            data: any;
-            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
-            renderingComponent: import("@jbrowse/core/util").AnyReactComponentType;
-        }): void;
-        renderError(error: unknown): void;
-        setRefNameMap(refNameMap: Record<string, string>): void;
-    } & {
-        afterAttach(): void;
-    } & {
-        /**
-         * #getter
-         */
-        readonly rendererTypeName: any;
-        /**
-         * #method
-         */
-        renderProps(): Record<string, unknown>;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-    configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-};
-export default ChordVariantDisplayF;

package/esm/ChordVariantDisplay/models/ChordVariantDisplay.js

@@ -1,57 +0,0 @@
-import { BaseChordDisplayModel } from '@jbrowse/plugin-circular-view';
-import { ConfigurationReference } from '@jbrowse/core/configuration';
-import { types } from 'mobx-state-tree';
-import { getContainingView } from '@jbrowse/core/util';
-import { getParentRenderProps } from '@jbrowse/core/util/tracks';
-// locals
-import configSchemaF from './configSchema';
-/**
- * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
- */
-const ChordVariantDisplayF = (pluginManager) => {
-    const configSchema = configSchemaF(pluginManager);
-    const stateModel = types
-        .compose('ChordVariantDisplay', BaseChordDisplayModel, types.model({
-        /**
-         * #property
-         */
-        type: types.literal('ChordVariantDisplay'),
-        /**
-         * #property
-         */
-        configuration: ConfigurationReference(configSchema),
-    }))
-        .views(self => ({
-        /**
-         * #getter
-         */
-        get rendererTypeName() {
-            return self.configuration.renderer.type;
-        },
-        /**
-         * #method
-         */
-        renderProps() {
-            const view = getContainingView(self);
-            return {
-                ...getParentRenderProps(self),
-                rpcDriverName: self.rpcDriverName,
-                displayModel: self,
-                bezierRadius: view.radiusPx * self.bezierRadiusRatio,
-                radius: view.radiusPx,
-                // @ts-ignore
-                blockDefinitions: this.blockDefinitions,
-                config: self.configuration.renderer,
-                onChordClick: self.onChordClick,
-            };
-        },
-    }));
-    return { stateModel, configSchema };
-};
-// http://localhost:3000/test_data/hs37d5.HG002-SequelII-CCS.sv.vcf.gz.tbi
-// render request is for 1.5x the current viewing window
-// tracks all have a height
-//
-export default ChordVariantDisplayF;
-//# sourceMappingURL=ChordVariantDisplay.js.map

package/esm/ChordVariantDisplay/models/ChordVariantDisplay.js.map

@@ -1 +0,0 @@
-{"version":3,"file":"ChordVariantDisplay.js","sourceRoot":"","sources":["../../../src/ChordVariantDisplay/models/ChordVariantDisplay.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,qBAAqB,EAAE,MAAM,+BAA+B,CAAA;AACrE,OAAO,EAAE,sBAAsB,EAAE,MAAM,6BAA6B,CAAA;AACpE,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AACvC,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AACtD,OAAO,EAAE,oBAAoB,EAAE,MAAM,2BAA2B,CAAA;AAGhE,SAAS;AACT,OAAO,aAAa,MAAM,gBAAgB,CAAA;AAE1C;;;GAGG;AACH,MAAM,oBAAoB,GAAG,CAAC,aAA4B,EAAE,EAAE;IAC5D,MAAM,YAAY,GAAG,aAAa,CAAC,aAAa,CAAC,CAAA;IACjD,MAAM,UAAU,GAAG,KAAK;SACrB,OAAO,CACN,qBAAqB,EACrB,qBAAqB,EACrB,KAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,qBAAqB,CAAC;QAC1C;;WAEG;QACH,aAAa,EAAE,sBAAsB,CAAC,YAAY,CAAC;KACpD,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,gBAAgB;YAClB,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAA;QACzC,CAAC;QAED;;WAEG;QACH,WAAW;YACT,MAAM,IAAI,GAAG,iBAAiB,CAAC,IAAI,CAAC,CAAA;YACpC,OAAO;gBACL,GAAG,oBAAoB,CAAC,IAAI,CAAC;gBAC7B,aAAa,EAAE,IAAI,CAAC,aAAa;gBACjC,YAAY,EAAE,IAAI;gBAClB,YAAY,EAAE,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC,iBAAiB;gBACpD,MAAM,EAAE,IAAI,CAAC,QAAQ;gBAErB,aAAa;gBACb,gBAAgB,EAAE,IAAI,CAAC,gBAAgB;gBACvC,MAAM,EAAE,IAAI,CAAC,aAAa,CAAC,QAAQ;gBACnC,YAAY,EAAE,IAAI,CAAC,YAAY;aAChC,CAAA;QACH,CAAC;KACF,CAAC,CAAC,CAAA;IAEL,OAAO,EAAE,UAAU,EAAE,YAAY,EAAE,CAAA;AACrC,CAAC,CAAA;AAED,0EAA0E;AAE1E,wDAAwD;AAExD,2BAA2B;AAC3B,EAAE;AACF,eAAe,oBAAoB,CAAA"}

package/src/ChordVariantDisplay/models/ChordVariantDisplay.ts

@@ -1,69 +0,0 @@
-import { BaseChordDisplayModel } from '@jbrowse/plugin-circular-view'
-import { ConfigurationReference } from '@jbrowse/core/configuration'
-import { types } from 'mobx-state-tree'
-import { getContainingView } from '@jbrowse/core/util'
-import { getParentRenderProps } from '@jbrowse/core/util/tracks'
-import PluginManager from '@jbrowse/core/PluginManager'
-
-// locals
-import configSchemaF from './configSchema'
-
-/**
- * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
- */
-const ChordVariantDisplayF = (pluginManager: PluginManager) => {
-  const configSchema = configSchemaF(pluginManager)
-  const stateModel = types
-    .compose(
-      'ChordVariantDisplay',
-      BaseChordDisplayModel,
-      types.model({
-        /**
-         * #property
-         */
-        type: types.literal('ChordVariantDisplay'),
-        /**
-         * #property
-         */
-        configuration: ConfigurationReference(configSchema),
-      }),
-    )
-    .views(self => ({
-      /**
-       * #getter
-       */
-      get rendererTypeName() {
-        return self.configuration.renderer.type
-      },
-
-      /**
-       * #method
-       */
-      renderProps(): Record<string, unknown> {
-        const view = getContainingView(self)
-        return {
-          ...getParentRenderProps(self),
-          rpcDriverName: self.rpcDriverName,
-          displayModel: self,
-          bezierRadius: view.radiusPx * self.bezierRadiusRatio,
-          radius: view.radiusPx,
-
-          // @ts-ignore
-          blockDefinitions: this.blockDefinitions,
-          config: self.configuration.renderer,
-          onChordClick: self.onChordClick,
-        }
-      },
-    }))
-
-  return { stateModel, configSchema }
-}
-
-// http://localhost:3000/test_data/hs37d5.HG002-SequelII-CCS.sv.vcf.gz.tbi
-
-// render request is for 1.5x the current viewing window
-
-// tracks all have a height
-//
-export default ChordVariantDisplayF