@haniffalab/cherita-react 0.2.0-dev.2024-09-26.775b9a06 → 0.2.0-dev.2024-09-26.1ea62883
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/App.scss +77 -8
- package/dist/components/Offcanvas/index.js +6 -2
- package/dist/components/dotplot/Dotplot.js +22 -5
- package/dist/components/dotplot/DotplotControls.js +11 -10
- package/dist/components/heatmap/Heatmap.js +22 -5
- package/dist/components/matrixplot/Matrixplot.js +22 -5
- package/dist/components/matrixplot/MatrixplotControls.js +8 -7
- package/dist/components/obs-list/ObsItem.js +394 -0
- package/dist/components/obs-list/ObsList.js +116 -299
- package/dist/components/obs-list/ObsToolbar.js +76 -0
- package/dist/components/scatterplot/Legend.js +4 -3
- package/dist/components/scatterplot/Scatterplot.js +129 -61
- package/dist/components/scatterplot/Toolbox.js +3 -2
- package/dist/components/search-bar/SearchBar.js +18 -2
- package/dist/components/search-bar/SearchResults.js +8 -8
- package/dist/components/var-list/VarItem.js +316 -0
- package/dist/components/var-list/VarList.js +167 -149
- package/dist/components/var-list/VarSet.js +214 -0
- package/dist/components/violin/Violin.js +46 -13
- package/dist/components/violin/ViolinControls.js +13 -18
- package/dist/constants/constants.js +41 -29
- package/dist/context/DatasetContext.js +91 -31
- package/dist/context/FilterContext.js +76 -0
- package/dist/helpers/map-helper.js +20 -15
- package/dist/helpers/zarr-helper.js +35 -13
- package/dist/index.js +7 -0
- package/dist/utils/VirtualizedList.js +69 -0
- package/dist/utils/requests.js +2 -2
- package/dist/utils/search.js +3 -56
- package/dist/utils/string.js +18 -0
- package/package.json +3 -2
- package/dist/components/obs-list/ObsValueList.js +0 -101
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@@ -5,29 +5,97 @@ Object.defineProperty(exports, "__esModule", {
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});
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exports.VarNamesList = VarNamesList;
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var _react = _interopRequireWildcard(require("react"));
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var
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var _reactFontawesome = require("@fortawesome/react-fontawesome");
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var _iconsMaterial = require("@mui/icons-material");
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var _lodash = _interopRequireDefault(require("lodash"));
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var _reactBootstrap = require("react-bootstrap");
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var _VarItem = require("./VarItem");
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var _VarSet = require("./VarSet");
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var _constants = require("../../constants/constants");
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var _DatasetContext = require("../../context/DatasetContext");
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var _requests = require("../../utils/requests");
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var _jsxRuntime = require("react/jsx-runtime");
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function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
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function _getRequireWildcardCache(e) { if ("function" != typeof WeakMap) return null; var r = new WeakMap(), t = new WeakMap(); return (_getRequireWildcardCache = function (e) { return e ? t : r; })(e); }
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function _interopRequireWildcard(e, r) { if (!r && e && e.__esModule) return e; if (null === e || "object" != typeof e && "function" != typeof e) return { default: e }; var t = _getRequireWildcardCache(r); if (t && t.has(e)) return t.get(e); var n = { __proto__: null }, a = Object.defineProperty && Object.getOwnPropertyDescriptor; for (var u in e) if ("default" !== u && {}.hasOwnProperty.call(e, u)) { var i = a ? Object.getOwnPropertyDescriptor(e, u) : null; i && (i.get || i.set) ? Object.defineProperty(n, u, i) : n[u] = e[u]; } return n.default = e, t && t.set(e, n), n; }
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function
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var _dataset$
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function DiseaseVarList(_ref) {
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var _dataset$selectedDise, _dataset$selectedDise3;
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let {
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displayName = "genes"
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makeListItem
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} = _ref;
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const ENDPOINT = "disease/genes";
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const dataset = (0, _DatasetContext.useDataset)();
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const dispatch = (0, _DatasetContext.useDatasetDispatch)();
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const [diseaseVars, setDiseaseVars] = (0, _react.useState)([]);
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const [params, setParams] = (0, _react.useState)({
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url: dataset.url,
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col: dataset.varNamesCol,
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diseaseId: (_dataset$selectedDise = dataset.selectedDisease) === null || _dataset$selectedDise === void 0 ? void 0 : _dataset$selectedDise.id,
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diseaseDatasets: dataset.diseaseDatasets
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});
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(0, _react.useEffect)(() => {
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setParams(p => {
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var _dataset$selectedDise2;
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return {
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...p,
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diseaseId: (_dataset$selectedDise2 = dataset.selectedDisease) === null || _dataset$selectedDise2 === void 0 ? void 0 : _dataset$selectedDise2.id
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};
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});
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}, [dataset.selectedDisease]);
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const {
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fetchedData,
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isPending,
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serverError
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} = (0, _requests.useFetch)(ENDPOINT, params, {
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enabled: !!params.diseaseId
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});
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(0, _react.useEffect)(() => {
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if (!isPending && !serverError) {
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setDiseaseVars(fetchedData);
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}
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}, [fetchedData, isPending, serverError]);
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const diseaseVarList = _lodash.default.map(diseaseVars, item => {
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return makeListItem(item, true);
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});
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return /*#__PURE__*/(0, _jsxRuntime.jsx)(_jsxRuntime.Fragment, {
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children: dataset.selectedDisease && (!diseaseVars.length ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Alert, {
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variant: "light",
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children: "No disease genes found."
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}) : /*#__PURE__*/(0, _jsxRuntime.jsxs)(_jsxRuntime.Fragment, {
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children: [/*#__PURE__*/(0, _jsxRuntime.jsxs)("div", {
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className: "d-flex justify-content-between mt-3",
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children: [/*#__PURE__*/(0, _jsxRuntime.jsx)("h5", {
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children: "Disease genes"
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}), /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
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variant: "link",
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onClick: () => {
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dispatch({
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type: "reset.disease"
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});
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},
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children: "clear"
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})]
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}), /*#__PURE__*/(0, _jsxRuntime.jsx)("p", {
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children: (_dataset$selectedDise3 = dataset.selectedDisease) === null || _dataset$selectedDise3 === void 0 ? void 0 : _dataset$selectedDise3.name
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}), /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.ListGroup, {
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children: diseaseVarList
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})]
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}))
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});
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}
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function VarNamesList(_ref2) {
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var _dataset$selectedVar, _dataset$selectedVar2, _dataset$selectedVar6, _dataset$selectedVar7;
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let {
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mode = _constants.SELECTION_MODES.SINGLE,
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displayName = "genes",
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showDiseaseVarList = true
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} = _ref2;
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const dataset = (0, _DatasetContext.useDataset)();
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const dispatch = (0, _DatasetContext.useDatasetDispatch)();
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const [varButtons, setVarButtons] = (0, _react.useState)(mode === _constants.SELECTION_MODES.SINGLE ? [dataset.selectedVar] : dataset.selectedMultiVar);
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const [active, setActive] = (0, _react.useState)(mode === _constants.SELECTION_MODES.SINGLE ? (_dataset$selectedVar = dataset.selectedVar) === null || _dataset$selectedVar === void 0 ? void 0 : _dataset$selectedVar.matrix_index : dataset.selectedMultiVar.map(i => i.matrix_index));
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const [varButtons, setVarButtons] = (0, _react.useState)(mode === _constants.SELECTION_MODES.SINGLE ? dataset.selectedVar ? _lodash.default.unionWith([dataset.selectedVar], dataset.varSets, _lodash.default.isEqual) : [...dataset.varSets] : [...dataset.selectedMultiVar, ...dataset.varSets]);
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const [active, setActive] = (0, _react.useState)(mode === _constants.SELECTION_MODES.SINGLE ? ((_dataset$selectedVar = dataset.selectedVar) === null || _dataset$selectedVar === void 0 ? void 0 : _dataset$selectedVar.matrix_index) || ((_dataset$selectedVar2 = dataset.selectedVar) === null || _dataset$selectedVar2 === void 0 ? void 0 : _dataset$selectedVar2.name) : dataset.selectedMultiVar.map(i => i.matrix_index || i.name));
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var _dataset$selectedVar3, _dataset$selectedVar4;
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setVarButtons(v => {
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return _lodash.default.unionWith(v, [dataset.selectedVar], _lodash.default.isEqual);
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setActive((_dataset$
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setActive(((_dataset$selectedVar3 = dataset.selectedVar) === null || _dataset$selectedVar3 === void 0 ? void 0 : _dataset$selectedVar3.matrix_index) || ((_dataset$selectedVar4 = dataset.selectedVar) === null || _dataset$selectedVar4 === void 0 ? void 0 : _dataset$selectedVar4.name));
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setActive(dataset.selectedMultiVar.map(i => i.matrix_index));
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setActive(dataset.selectedMultiVar.map(i => i.matrix_index || i.name));
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dispatch({
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value: "var"
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} else if (mode === _constants.SELECTION_MODES.MULTIPLE) {
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dispatch({
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type: "select.multivar",
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var: item
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(0, _react.useEffect)(() => {
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setVarButtons(v => {
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const updated = _lodash.default.map(v, i => {
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if (i.isSet) {
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return dataset.varSets.find(s => s.name === i.name);
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} else return i;
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setVarButtons(b => {
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return b.filter(i => i.name !== v.name);
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const newSets = _lodash.default.difference(dataset.varSets, updated);
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return [...updated, ...newSets];
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}
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} else if (mode === _constants.SELECTION_MODES.MULTIPLE) {
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if (active.includes(v.matrix_index)) {
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var _dataset$selectedVar5;
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if ((_dataset$selectedVar5 = dataset.selectedVar) !== null && _dataset$selectedVar5 !== void 0 && _dataset$selectedVar5.isSet) {
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const selectedSet = dataset.varSets.find(s => s.name === dataset.selectedVar.name);
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dispatch({
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var:
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type: "select.var",
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var: selectedSet
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}
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} else {
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dispatch({
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type: "update.multivar",
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vars: dataset.varSets
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});
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} else if (mode === _constants.SELECTION_MODES.MULTIPLE) {
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return /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.ListGroup.Item, {
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type: "button",
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variant: item.matrix_index !== -1 && _lodash.default.includes(active, item.matrix_index) ? "primary" : "outline-primary",
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className: "m-0 p-0 px-1",
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var: item
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}
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},
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title: item.matrix_index === -1 ? "Not present in data" : "",
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children: item.name
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}, item.matrix_index)
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}), /*#__PURE__*/(0, _jsxRuntime.jsxs)("div", {
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children: [" ", /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactFontawesome.FontAwesomeIcon, {
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icon: _freeSolidSvgIcons.faPlus
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})]
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})]
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});
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}, [active, dataset.colorEncoding, dispatch, mode, removeVar, selectVar]);
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const varList = (0, _react.useMemo)(() => {
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return makeList(varButtons);
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}, [makeList, varButtons]);
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return makeList(dataset.selectedDisease.genes);
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}, [makeList, dataset.selectedDisease.genes]);
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}, [mode, dataset.varSets, (_dataset$selectedVar6 = dataset.selectedVar) === null || _dataset$selectedVar6 === void 0 ? void 0 : _dataset$selectedVar6.isSet, (_dataset$selectedVar7 = dataset.selectedVar) === null || _dataset$selectedVar7 === void 0 ? void 0 : _dataset$selectedVar7.name, dispatch]);
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const makeListItem = function (item) {
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let isDiseaseGene = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : false;
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return /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.ListGroup.Item, {
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children: /*#__PURE__*/(0, _jsxRuntime.jsx)(_VarItem.VarItem, {
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item: item,
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active: active,
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200
|
+
isActive: dataset.colorEncoding === _constants.COLOR_ENCODINGS.VAR && active === set.name,
|
|
201
|
+
selectSet: selectSet,
|
|
202
|
+
removeSet: removeSet,
|
|
203
|
+
removeSetVar: v => removeSetVar(v)
|
|
204
|
+
});
|
|
205
|
+
} else if (mode === _constants.SELECTION_MODES.MULTIPLE) {
|
|
206
|
+
return /*#__PURE__*/(0, _jsxRuntime.jsx)(MultipleSelectionSet, {
|
|
207
|
+
set: set,
|
|
208
|
+
isActive: _lodash.default.includes(active, set.name),
|
|
209
|
+
toggleSet: () => toggleSet(set)
|
|
210
|
+
});
|
|
211
|
+
} else {
|
|
212
|
+
return null;
|
|
213
|
+
}
|
|
214
|
+
}
|