@jbrowse/plugin-variants 3.7.0 → 4.0.0

package/dist/StructuralVariantChordRenderer/configSchema.d.ts

@@ -1,21 +0,0 @@
-declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    strokeColor: {
-        type: string;
-        description: string;
-        defaultValue: string;
-        contextVariable: string[];
-    };
-    strokeColorSelected: {
-        type: string;
-        description: string;
-        defaultValue: string;
-        contextVariable: string[];
-    };
-    strokeColorHover: {
-        type: string;
-        description: string;
-        defaultValue: string;
-        contextVariable: string[];
-    };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-export default configSchema;

package/dist/StructuralVariantChordRenderer/configSchema.js

@@ -1,25 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-function x() { }
-const configSchema = (0, configuration_1.ConfigurationSchema)('StructuralVariantChordRenderer', {
-    strokeColor: {
-        type: 'color',
-        description: 'the line color of each arc',
-        defaultValue: 'rgba(255,133,0,0.32)',
-        contextVariable: ['feature'],
-    },
-    strokeColorSelected: {
-        type: 'color',
-        description: 'the line color of an arc that has been selected',
-        defaultValue: 'black',
-        contextVariable: ['feature'],
-    },
-    strokeColorHover: {
-        type: 'color',
-        description: 'the line color of an arc that is being hovered over with the mouse',
-        defaultValue: '#555',
-        contextVariable: ['feature'],
-    },
-}, { explicitlyTyped: true });
-exports.default = configSchema;

package/dist/StructuralVariantChordRenderer/index.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function StructuralVariantChordRendererF(pluginManager: PluginManager): void;

package/dist/StructuralVariantChordRenderer/index.js

@@ -1,18 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = StructuralVariantChordRendererF;
-const CircularChordRendererType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/renderers/CircularChordRendererType"));
-const ReactComponent_1 = __importDefault(require("./ReactComponent"));
-const configSchema_1 = __importDefault(require("./configSchema"));
-function StructuralVariantChordRendererF(pluginManager) {
-    pluginManager.addRendererType(() => new CircularChordRendererType_1.default({
-        name: 'StructuralVariantChordRenderer',
-        displayName: 'SV chord renderer',
-        ReactComponent: ReactComponent_1.default,
-        configSchema: configSchema_1.default,
-        pluginManager,
-    }));
-}

package/dist/StructuralVariantChordRenderer/types.d.ts

@@ -1,17 +0,0 @@
-export interface Region {
-    end: number;
-    start: number;
-    refName: string;
-    elided?: false;
-}
-export interface ElidedRegion {
-    elided: true;
-    regions: Region[];
-}
-export type AnyRegion = Region | ElidedRegion;
-export interface Block {
-    flipped: boolean;
-    bpPerRadian: number;
-    startRadians: number;
-    region: AnyRegion;
-}

package/dist/StructuralVariantChordRenderer/types.js

@@ -1,2 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });

package/dist/Tooltip.d.ts

@@ -1,19 +0,0 @@
-import type React from 'react';
-import type { Feature } from '@jbrowse/core/util';
-type Coord = [number, number];
-export type TooltipContentsComponent = React.ForwardRefExoticComponent<{
-    feature: Feature;
-    model: any;
-} & React.RefAttributes<HTMLDivElement>>;
-declare const Tooltip: ({ model, height, clientMouseCoord, offsetMouseCoord, clientRect, TooltipContents, useClientY, }: {
-    model: {
-        featureUnderMouse?: Feature;
-    };
-    useClientY?: boolean;
-    height: number;
-    clientMouseCoord: Coord;
-    offsetMouseCoord: Coord;
-    clientRect?: DOMRect;
-    TooltipContents: TooltipContentsComponent;
-}) => import("react/jsx-runtime").JSX.Element | null;
-export default Tooltip;

package/dist/Tooltip.js

@@ -1,32 +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 jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const BaseTooltip_1 = __importDefault(require("@jbrowse/core/ui/BaseTooltip"));
-const mobx_react_1 = require("mobx-react");
-const mui_1 = require("tss-react/mui");
-const useStyles = (0, mui_1.makeStyles)()({
-    hoverVertical: {
-        background: '#333',
-        border: 'none',
-        width: 1,
-        height: '100%',
-        cursor: 'default',
-        position: 'absolute',
-        pointerEvents: 'none',
-    },
-});
-const Tooltip = (0, mobx_react_1.observer)(function Tooltip({ model, height, clientMouseCoord, offsetMouseCoord, clientRect, TooltipContents, useClientY, }) {
-    const { featureUnderMouse } = model;
-    const { classes } = useStyles();
-    const x = clientMouseCoord[0] + 5;
-    const y = useClientY ? clientMouseCoord[1] : (clientRect === null || clientRect === void 0 ? void 0 : clientRect.top) || 0;
-    return featureUnderMouse ? ((0, jsx_runtime_1.jsxs)(jsx_runtime_1.Fragment, { children: [(0, jsx_runtime_1.jsx)(react_1.Suspense, { fallback: null, children: (0, jsx_runtime_1.jsx)(BaseTooltip_1.default, { clientPoint: { x, y }, children: (0, jsx_runtime_1.jsx)(TooltipContents, { model: model, feature: featureUnderMouse }) }) }), (0, jsx_runtime_1.jsx)("div", { className: classes.hoverVertical, style: {
-                    left: offsetMouseCoord[0],
-                    height: height,
-                } })] })) : null;
-});
-exports.default = Tooltip;

package/dist/VariantFeatureWidget/AltFormatter.d.ts

@@ -1,4 +0,0 @@
-export default function AltFormatter({ value, refString, }: {
-    value: string;
-    refString: string;
-}): string | import("react/jsx-runtime").JSX.Element;

package/dist/VariantFeatureWidget/AltFormatter.js

@@ -1,13 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = AltFormatter;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const util_1 = require("../VcfFeature/util");
-function AltFormatter({ value, refString, }) {
-    const [show, setShow] = (0, react_1.useState)(false);
-    const alt = (0, react_1.useMemo)(() => (0, util_1.getMinimalDesc)(refString, value), [refString, value]);
-    return alt !== value ? ((0, jsx_runtime_1.jsxs)("div", { children: [(0, jsx_runtime_1.jsx)("button", { onClick: () => {
-                    setShow(!show);
-                }, children: show ? 'Show simplified ALT' : 'Show raw ALT' }), ' ', show ? value : alt] })) : (value);
-}

package/dist/VariantFeatureWidget/Checkbox2.d.ts

@@ -1,6 +0,0 @@
-export default function Checkbox2({ checked, disabled, label, onChange, }: {
-    checked: boolean;
-    disabled?: boolean;
-    label: string;
-    onChange: (event: React.ChangeEvent<HTMLInputElement>) => void;
-}): import("react/jsx-runtime").JSX.Element;

package/dist/VariantFeatureWidget/Checkbox2.js

@@ -1,8 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = Checkbox2;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const material_1 = require("@mui/material");
-function Checkbox2({ checked, disabled, label, onChange, }) {
-    return ((0, jsx_runtime_1.jsx)(material_1.FormControlLabel, { disabled: disabled, control: (0, jsx_runtime_1.jsx)(material_1.Checkbox, { checked: checked, onChange: onChange }), label: (0, jsx_runtime_1.jsx)(material_1.Typography, { variant: "body2", children: label }) }));
-}

package/dist/VariantFeatureWidget/Formatter.d.ts

@@ -1,3 +0,0 @@
-export default function Formatter({ value }: {
-    value: unknown;
-}): import("react/jsx-runtime").JSX.Element;

package/dist/VariantFeatureWidget/Formatter.js

@@ -1,23 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = Formatter;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const copy_to_clipboard_1 = __importDefault(require("copy-to-clipboard"));
-function Formatter({ value }) {
-    const [show, setShow] = (0, react_1.useState)(false);
-    const [copied, setCopied] = (0, react_1.useState)(false);
-    const display = String(value);
-    return display.length > 100 ? ((0, jsx_runtime_1.jsxs)(jsx_runtime_1.Fragment, { children: [(0, jsx_runtime_1.jsx)("button", { type: "button", onClick: () => {
-                    (0, copy_to_clipboard_1.default)(display);
-                    setCopied(true);
-                    setTimeout(() => {
-                        setCopied(false);
-                    }, 700);
-                }, children: copied ? 'Copied to clipboard' : 'Copy' }), (0, jsx_runtime_1.jsx)("button", { type: "button", onClick: () => {
-                    setShow(val => !val);
-                }, children: show ? 'Show less' : 'Show more' }), (0, jsx_runtime_1.jsx)("div", { children: show ? display : `${display.slice(0, 100)}...` })] })) : ((0, jsx_runtime_1.jsx)("div", { children: display }));
-}

package/dist/VariantFeatureWidget/LaunchBreakendPanel/BreakendMultiLevelOptionDialog.d.ts

@@ -1 +0,0 @@
-export { BreakendMultiLevelOptionDialog as default } from '@jbrowse/sv-core';

package/dist/VariantFeatureWidget/LaunchBreakendPanel/BreakendMultiLevelOptionDialog.js

@@ -1,5 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = void 0;
-var sv_core_1 = require("@jbrowse/sv-core");
-Object.defineProperty(exports, "default", { enumerable: true, get: function () { return sv_core_1.BreakendMultiLevelOptionDialog; } });

package/dist/VariantFeatureWidget/LaunchBreakendPanel/BreakendSingleLevelOptionDialog.d.ts

@@ -1 +0,0 @@
-export { BreakendSingleLevelOptionDialog as default } from '@jbrowse/sv-core';

package/dist/VariantFeatureWidget/LaunchBreakendPanel/BreakendSingleLevelOptionDialog.js

@@ -1,5 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = void 0;
-var sv_core_1 = require("@jbrowse/sv-core");
-Object.defineProperty(exports, "default", { enumerable: true, get: function () { return sv_core_1.BreakendSingleLevelOptionDialog; } });

package/dist/VariantFeatureWidget/LaunchBreakendPanel/LaunchBreakendPanel.d.ts

@@ -1,7 +0,0 @@
-import type { VariantFeatureWidgetModel } from '../stateModelFactory';
-import type { SimpleFeatureSerialized } from '@jbrowse/core/util';
-export default function LaunchBreakendPanel(props: {
-    locStrings: string[];
-    model: VariantFeatureWidgetModel;
-    feature: SimpleFeatureSerialized;
-}): import("react/jsx-runtime").JSX.Element;

package/dist/VariantFeatureWidget/LaunchBreakendPanel/LaunchBreakendPanel.js

@@ -1,111 +0,0 @@
-"use strict";
-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 __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || (function () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __setModuleDefault(result, mod);
-        return result;
-    };
-})();
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = LaunchBreakendPanel;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const BaseCard_1 = __importDefault(require("@jbrowse/core/BaseFeatureWidget/BaseFeatureDetail/BaseCard"));
-const util_1 = require("@jbrowse/core/util");
-const material_1 = require("@mui/material");
-const BreakendMultiLevelOptionDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./BreakendMultiLevelOptionDialog'))));
-const BreakendSingleLevelOptionDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./BreakendSingleLevelOptionDialog'))));
-function LocStringList({ locStrings, model, }) {
-    const session = (0, util_1.getSession)(model);
-    return ((0, jsx_runtime_1.jsxs)("div", { children: [(0, jsx_runtime_1.jsx)(material_1.Typography, { children: "Navigate to breakend endpoint in linear view:" }), (0, jsx_runtime_1.jsx)("ul", { children: locStrings.map((locString, index) => ((0, jsx_runtime_1.jsxs)("li", { children: [locString, ' ', (0, jsx_runtime_1.jsx)(material_1.Link, { href: "#", onClick: event => {
-                                var _a;
-                                event.preventDefault();
-                                const { view } = model;
-                                try {
-                                    if (view) {
-                                        (_a = view.navToLocString) === null || _a === void 0 ? void 0 : _a.call(view, locString);
-                                    }
-                                    else {
-                                        throw new Error('No view associated with this feature detail panel anymore');
-                                    }
-                                }
-                                catch (e) {
-                                    console.error(e);
-                                    session.notify(`${e}`);
-                                }
-                            }, children: "(LGV)" })] }, `${locString}-${index}`))) })] }));
-}
-function LaunchBreakpointSplitViewPanel({ locStrings, model, feature, }) {
-    var _a, _b;
-    const session = (0, util_1.getSession)(model);
-    const simpleFeature = new util_1.SimpleFeature(feature);
-    const assemblyName = (_b = (_a = model.view) === null || _a === void 0 ? void 0 : _a.displayedRegions[0]) === null || _b === void 0 ? void 0 : _b.assemblyName;
-    return ((0, jsx_runtime_1.jsxs)("div", { children: [(0, jsx_runtime_1.jsx)(material_1.Typography, { children: "Launch split view" }), (0, jsx_runtime_1.jsx)("ul", { children: locStrings.map(locString => ((0, jsx_runtime_1.jsxs)("li", { children: [`${feature.refName}:${feature.start} // ${locString}`, ' ', (0, jsx_runtime_1.jsx)(material_1.Link, { href: "#", onClick: event => {
-                                event.preventDefault();
-                                session.queueDialog(handleClose => [
-                                    BreakendMultiLevelOptionDialog,
-                                    {
-                                        handleClose,
-                                        session,
-                                        feature: simpleFeature,
-                                        stableViewId: `${model.id}_${assemblyName}_breakpointsplitview_multilevel`,
-                                        view: model.view,
-                                        assemblyName,
-                                    },
-                                ]);
-                            }, children: "(top/bottom)" }), ' ', (0, jsx_runtime_1.jsx)(material_1.Link, { href: "#", onClick: event => {
-                                event.preventDefault();
-                                session.queueDialog(handleClose => [
-                                    BreakendSingleLevelOptionDialog,
-                                    {
-                                        handleClose,
-                                        session,
-                                        feature: simpleFeature,
-                                        stableViewId: `${model.id}_${assemblyName}_breakpointsplitview_singlelevel`,
-                                        view: model.view,
-                                        assemblyName,
-                                    },
-                                ]);
-                            }, children: "(single row)" })] }, JSON.stringify(locString)))) })] }));
-}
-function LaunchBreakendPanel(props) {
-    const { model, locStrings, feature } = props;
-    const session = (0, util_1.getSession)(model);
-    const { pluginManager } = (0, util_1.getEnv)(session);
-    let hasBreakpointSplitView = false;
-    try {
-        hasBreakpointSplitView = !!pluginManager.getViewType('BreakpointSplitView');
-    }
-    catch (e) {
-    }
-    return ((0, jsx_runtime_1.jsxs)(BaseCard_1.default, { ...props, title: "Breakends", children: [(0, jsx_runtime_1.jsx)(LocStringList, { model: model, locStrings: locStrings }), hasBreakpointSplitView ? ((0, jsx_runtime_1.jsx)(LaunchBreakpointSplitViewPanel, { model: model, locStrings: locStrings, feature: feature })) : null] }));
-}

package/dist/VariantFeatureWidget/LaunchBreakendPanel/LaunchBreakendWidgetArea.d.ts

@@ -1,4 +0,0 @@
-import type { VariantFeatureWidgetModel } from '../stateModelFactory';
-export default function LaunchBreakendWidgetArea({ model, }: {
-    model: VariantFeatureWidgetModel;
-}): import("react/jsx-runtime").JSX.Element;

package/dist/VariantFeatureWidget/LaunchBreakendPanel/LaunchBreakendWidgetArea.js

@@ -1,60 +0,0 @@
-"use strict";
-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 __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || (function () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __setModuleDefault(result, mod);
-        return result;
-    };
-})();
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = LaunchBreakendWidgetArea;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const vcf_1 = require("@gmod/vcf");
-const LaunchBreakendPanel = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./LaunchBreakendPanel'))));
-function LaunchBreakendWidgetArea({ model, }) {
-    const { featureData } = model;
-    const feat = JSON.parse(JSON.stringify(featureData));
-    const { type = '' } = feat;
-    return ((0, jsx_runtime_1.jsx)(react_1.Suspense, { fallback: null, children: type === 'breakend' ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: feat, locStrings: feat.ALT.map((alt) => { var _a; return ((_a = (0, vcf_1.parseBreakend)(alt)) === null || _a === void 0 ? void 0 : _a.MatePosition) || ''; }), model: model })) : type === 'translocation' ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: feat, model: model, locStrings: [`${feat.INFO.CHR2[0]}:${feat.INFO.END}`] })) : type === 'paired_feature' ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: feat, model: model, locStrings: [`${feat.mate.refName}:${feat.mate.start}`] })) : type.includes('inversion') ||
-            type.includes('deletion') ||
-            type.includes('duplication') ||
-            type.includes('cnv') ||
-            type.includes('sv') ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: {
-                uniqueId: 'random',
-                refName: feat.refName,
-                start: feat.start,
-                end: feat.start + 1,
-                mate: {
-                    refName: feat.refName,
-                    start: feat.end,
-                    end: feat.end + 1,
-                },
-            }, model: model, locStrings: [`${feat.refName}:${feat.end}`] })) : null }));
-}

package/dist/VariantFeatureWidget/LaunchBreakendPanel/index.d.ts

@@ -1 +0,0 @@
-export { default } from './LaunchBreakendPanel';

package/dist/VariantFeatureWidget/LaunchBreakendPanel/index.js

@@ -1,8 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = void 0;
-var LaunchBreakendPanel_1 = require("./LaunchBreakendPanel");
-Object.defineProperty(exports, "default", { enumerable: true, get: function () { return __importDefault(LaunchBreakendPanel_1).default; } });

package/dist/VariantFeatureWidget/VariantConsequence/VariantConsequenceDataGrid.d.ts

@@ -1,5 +0,0 @@
-export default function VariantConsequenceDataGrid({ data, fields, title, }: {
-    data: string[];
-    fields: string[];
-    title: string;
-}): import("react/jsx-runtime").JSX.Element | null;

package/dist/VariantFeatureWidget/VariantConsequence/VariantConsequenceDataGrid.js

@@ -1,15 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = VariantConsequenceDataGrid;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const BaseCard_1 = __importDefault(require("@jbrowse/core/BaseFeatureWidget/BaseFeatureDetail/BaseCard"));
-const VariantConsequenceDataGridWrapper_1 = __importDefault(require("./VariantConsequenceDataGridWrapper"));
-function VariantConsequenceDataGrid({ data, fields, title, }) {
-    return data.length ? ((0, jsx_runtime_1.jsx)(BaseCard_1.default, { title: title, children: (0, jsx_runtime_1.jsx)(VariantConsequenceDataGridWrapper_1.default, { rows: data.map((elt, id) => ({
-                id,
-                ...Object.fromEntries(elt.split('|').map((e, i) => [fields[i], e])),
-            })), columns: fields.map(c => ({ field: c })) }) })) : null;
-}

package/dist/VariantFeatureWidget/VariantConsequence/VariantConsequenceDataGridWrapper.d.ts

@@ -1,5 +0,0 @@
-import type { GridColDef, GridValidRowModel } from '@mui/x-data-grid';
-export default function VariantConsequenceDataGridWrapper({ rows, columns, }: {
-    rows: GridValidRowModel[];
-    columns: GridColDef[];
-}): import("react/jsx-runtime").JSX.Element | null;

package/dist/VariantFeatureWidget/VariantConsequence/VariantConsequenceDataGridWrapper.js

@@ -1,18 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.default = VariantConsequenceDataGridWrapper;
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const util_1 = require("@jbrowse/core/util");
-const material_1 = require("@mui/material");
-const x_data_grid_1 = require("@mui/x-data-grid");
-function VariantConsequenceDataGridWrapper({ rows, columns, }) {
-    const [checked, setChecked] = (0, react_1.useState)(false);
-    const widths = columns.map(e => (0, util_1.measureGridWidth)(rows.map(r => r[e.field])));
-    return rows.length ? ((0, jsx_runtime_1.jsxs)("div", { children: [(0, jsx_runtime_1.jsx)(material_1.FormControlLabel, { label: (0, jsx_runtime_1.jsx)(material_1.Typography, { variant: "body2", children: "Show options" }), control: (0, jsx_runtime_1.jsx)(material_1.Checkbox, { checked: checked, onChange: event => {
-                        setChecked(event.target.checked);
-                    } }) }), (0, jsx_runtime_1.jsx)(x_data_grid_1.DataGrid, { rowHeight: 25, hideFooter: rows.length < 100, rows: rows, showToolbar: checked, columns: columns.map((c, i) => ({
-                    ...c,
-                    width: widths[i],
-                })) })] })) : null;
-}

package/dist/VariantFeatureWidget/VariantFeatureWidget.d.ts

@@ -1,5 +0,0 @@
-import type { VariantFeatureWidgetModel } from './stateModelFactory';
-declare const VariantFeatureWidget: (props: {
-    model: VariantFeatureWidgetModel;
-}) => import("react/jsx-runtime").JSX.Element;
-export default VariantFeatureWidget;

package/dist/VariantFeatureWidget/VariantFeatureWidget.js

@@ -1,103 +0,0 @@
-"use strict";
-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 __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
-    Object.defineProperty(o, "default", { enumerable: true, value: v });
-}) : function(o, v) {
-    o["default"] = v;
-});
-var __importStar = (this && this.__importStar) || (function () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __setModuleDefault(result, mod);
-        return result;
-    };
-})();
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const jsx_runtime_1 = require("react/jsx-runtime");
-const react_1 = require("react");
-const vcf_1 = require("@gmod/vcf");
-const FeatureDetails_1 = __importDefault(require("@jbrowse/core/BaseFeatureWidget/BaseFeatureDetail/FeatureDetails"));
-const material_1 = require("@mui/material");
-const mobx_react_1 = require("mobx-react");
-const AltFormatter_1 = __importDefault(require("./AltFormatter"));
-const Formatter_1 = __importDefault(require("./Formatter"));
-const VariantSampleGrid_1 = __importDefault(require("./VariantSampleGrid/VariantSampleGrid"));
-const variantFieldDescriptions_1 = require("./variantFieldDescriptions");
-const LaunchBreakendPanel = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./LaunchBreakendPanel/LaunchBreakendPanel'))));
-const VariantConsequenceDataGrid = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./VariantConsequence/VariantConsequenceDataGrid'))));
-function AnnPanel({ descriptions, feature, }) {
-    var _a, _b, _c, _d, _e;
-    const annDesc = (_b = (_a = descriptions === null || descriptions === void 0 ? void 0 : descriptions.INFO) === null || _a === void 0 ? void 0 : _a.ANN) === null || _b === void 0 ? void 0 : _b.Description;
-    const annFields = ((_d = (_c = annDesc === null || annDesc === void 0 ? void 0 : annDesc.match(/.*Functional annotations:'(.*)'$/)) === null || _c === void 0 ? void 0 : _c[1]) === null || _d === void 0 ? void 0 : _d.split('|')) || [];
-    const ann = ((_e = feature.INFO) === null || _e === void 0 ? void 0 : _e.ANN) || [];
-    return ((0, jsx_runtime_1.jsx)(VariantConsequenceDataGrid, { fields: annFields, data: ann, title: "Variant ANN field" }));
-}
-function CsqPanel({ descriptions, feature, }) {
-    var _a, _b, _c, _d, _e;
-    const csqDescription = (_b = (_a = descriptions === null || descriptions === void 0 ? void 0 : descriptions.INFO) === null || _a === void 0 ? void 0 : _a.CSQ) === null || _b === void 0 ? void 0 : _b.Description;
-    const csqFields = ((_d = (_c = csqDescription === null || csqDescription === void 0 ? void 0 : csqDescription.match(/.*Format: (.*)/)) === null || _c === void 0 ? void 0 : _c[1]) === null || _d === void 0 ? void 0 : _d.split('|')) || [];
-    const csq = ((_e = feature.INFO) === null || _e === void 0 ? void 0 : _e.CSQ) || [];
-    return ((0, jsx_runtime_1.jsx)(VariantConsequenceDataGrid, { fields: csqFields, data: csq, title: "Variant CSQ field" }));
-}
-function LaunchBreakendWidgetArea({ model, }) {
-    const { featureData } = model;
-    const feat = JSON.parse(JSON.stringify(featureData));
-    const { type = '' } = feat;
-    return type === 'breakend' ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: feat, locStrings: feat.ALT.map((alt) => { var _a; return ((_a = (0, vcf_1.parseBreakend)(alt)) === null || _a === void 0 ? void 0 : _a.MatePosition) || ''; }), model: model })) : type === 'translocation' ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: feat, model: model, locStrings: [`${feat.INFO.CHR2[0]}:${feat.INFO.END}`] })) : type === 'paired_feature' ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: feat, model: model, locStrings: [`${feat.mate.refName}:${feat.mate.start}`] })) : type.includes('inversion') ||
-        type.includes('deletion') ||
-        type.includes('duplication') ||
-        type.includes('cnv') ||
-        type.includes('sv') ? ((0, jsx_runtime_1.jsx)(LaunchBreakendPanel, { feature: {
-            uniqueId: 'random',
-            refName: feat.refName,
-            start: feat.start,
-            end: feat.start + 1,
-            mate: {
-                refName: feat.refName,
-                start: feat.end,
-                end: feat.end + 1,
-            },
-        }, model: model, locStrings: [`${feat.refName}:${feat.end}`] })) : null;
-}
-const FeatDefined = (0, mobx_react_1.observer)(function (props) {
-    const { feat, model } = props;
-    const { descriptions } = model;
-    const { samples, ...rest } = feat;
-    const { REF } = rest;
-    return ((0, jsx_runtime_1.jsxs)(material_1.Paper, { "data-testid": "variant-side-drawer", children: [(0, jsx_runtime_1.jsx)(FeatureDetails_1.default, { feature: rest, descriptions: {
-                    ...variantFieldDescriptions_1.variantFieldDescriptions,
-                    ...descriptions,
-                }, formatter: (value, key) => {
-                    return key === 'ALT' ? ((0, jsx_runtime_1.jsx)(AltFormatter_1.default, { value: `${value}`, refString: REF })) : ((0, jsx_runtime_1.jsx)(Formatter_1.default, { value: value }));
-                }, ...props }), (0, jsx_runtime_1.jsxs)(react_1.Suspense, { fallback: null, children: [(0, jsx_runtime_1.jsx)(CsqPanel, { feature: rest, descriptions: descriptions }), (0, jsx_runtime_1.jsx)(AnnPanel, { feature: rest, descriptions: descriptions }), (0, jsx_runtime_1.jsx)(LaunchBreakendWidgetArea, { model: model })] }), (0, jsx_runtime_1.jsx)(VariantSampleGrid_1.default, { feature: feat, ...props, descriptions: descriptions })] }));
-});
-const VariantFeatureWidget = (0, mobx_react_1.observer)(function (props) {
-    const { model } = props;
-    const { featureData } = model;
-    const feat = structuredClone(featureData);
-    return feat ? ((0, jsx_runtime_1.jsx)(FeatDefined, { feat: feat, ...props })) : ((0, jsx_runtime_1.jsx)("div", { children: "No feature loaded, may not be available after page refresh because it was too large for localStorage" }));
-});
-exports.default = VariantFeatureWidget;

package/dist/VariantFeatureWidget/VariantSampleGrid/VariantGenotypeFrequencyTable.d.ts

@@ -1,4 +0,0 @@
-import type { VariantSampleGridRow } from './types';
-export default function VariantGenotypeFrequencyTable({ rows, }: {
-    rows: VariantSampleGridRow[];
-}): import("react/jsx-runtime").JSX.Element;