@haniffalab/cherita-react 1.4.1-dev.2025-10-23.3179e534 → 1.4.1-dev.2025-10-23.55fbe6ff

package/dist/cjs/components/violin/Violin.js

@@ -39,7 +39,7 @@ function Violin(_ref) {
     plotType,
     setPlotType
   } = _ref;
-  const ENDPOINT = "violin";
+  const ENDPOINT = 'violin';
   const dataset = (0, _DatasetContext.useDataset)();
   const settings = (0, _SettingsContext.useSettings)();
   const {
@@ -52,7 +52,7 @@ function Violin(_ref) {
   const selectedMultiVar = (0, _Resolver.useSelectedMultiVar)();
   const selectedVar = (0, _Resolver.useSelectedVar)();
   const selectedObs = (0, _Resolver.useSelectedObs)();
-  const [params, setParams] = (0, _react.useState)(_objectSpread({
+  const params = (0, _react.useMemo)(() => _objectSpread({
     url: dataset.url,
     mode: mode,
     scale: settings.controls.scale.violinplot,
@@ -74,7 +74,7 @@ function Violin(_ref) {
       obsValues: !(selectedObs !== null && selectedObs !== void 0 && selectedObs.omit.length) ? null : _lodash.default.difference(selectedObs === null || selectedObs === void 0 ? void 0 : selectedObs.values, selectedObs === null || selectedObs === void 0 ? void 0 : selectedObs.omit),
       obsIndices: isSliced ? [...(obsIndices || [])] : null
     }
-  }[mode]));
+  }[mode]), [dataset.url, dataset.varNamesCol, isSliced, mode, obsIndices, selectedMultiVar, selectedObs, selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.index, selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.isSet, selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.name, selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.vars, settings.controls.scale.violinplot]);
   // @TODO: set default scale
 
   (0, _react.useEffect)(() => {
@@ -84,39 +84,12 @@ function Violin(_ref) {
       } else {
         setHasSelections(false);
       }
-      setParams(p => {
-        return _objectSpread(_objectSpread({}, p), {}, {
-          url: dataset.url,
-          mode: mode,
-          varKeys: selectedMultiVar.map(i => i.isSet ? {
-            name: i.name,
-            indices: i.vars.map(v => v.index)
-          } : i.index),
-          scale: settings.controls.scale.violinplot,
-          varNamesCol: dataset.varNamesCol
-        });
-      });
     } else if (mode === _constants.VIOLIN_MODES.GROUPBY) {
       if (selectedObs && selectedVar) {
         setHasSelections(true);
       } else {
         setHasSelections(false);
       }
-      setParams(p => {
-        return _objectSpread(_objectSpread({}, p), {}, {
-          url: dataset.url,
-          mode: mode,
-          varKey: selectedVar !== null && selectedVar !== void 0 && selectedVar.isSet ? {
-            name: selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.name,
-            indices: selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.vars.map(v => v.index)
-          } : selectedVar === null || selectedVar === void 0 ? void 0 : selectedVar.index,
-          obsCol: selectedObs,
-          obsValues: !(selectedObs !== null && selectedObs !== void 0 && selectedObs.omit.length) ? null : _lodash.default.difference(selectedObs === null || selectedObs === void 0 ? void 0 : selectedObs.values, selectedObs === null || selectedObs === void 0 ? void 0 : selectedObs.omit),
-          obsIndices: isSliced ? [...(obsIndices || [])] : null,
-          scale: settings.controls.scale.violinplot,
-          varNamesCol: dataset.varNamesCol
-        });
-      });
     }
   }, [settings.controls.scale.violinplot, selectedMultiVar, selectedObs, selectedVar, dataset.url, dataset.varNamesCol, obsIndices, isSliced, mode]);
   const {
@@ -124,12 +97,15 @@ function Violin(_ref) {
     isPending,
     serverError
   } = (0, _requests.useDebouncedFetch)(ENDPOINT, params, 500, {
-    enabled: mode === _constants.VIOLIN_MODES.MULTIKEY && (!!params.varKeys.length || !!params.obsKeys.length) || mode === _constants.VIOLIN_MODES.GROUPBY && !!params.varKey && !!params.obsCol
+    isEnabled: mode === _constants.VIOLIN_MODES.MULTIKEY && (params => !!params.varKeys.length || !!params.obsKeys.length) || mode === _constants.VIOLIN_MODES.GROUPBY && (params => !!params.varKey && !!params.obsCol)
   });
   (0, _react.useEffect)(() => {
-    if (hasSelections && !isPending && !serverError) {
+    if (hasSelections && !!fetchedData && !isPending && !serverError) {
       setData(fetchedData.data);
       setLayout(fetchedData.layout);
+    } else {
+      setData([]);
+      setLayout({});
     }
   }, [fetchedData, hasSelections, isPending, serverError]);
   const customModeBarButtons = _lodash.default.compact([showObsBtn && (0, _Toolbar.ObsPlotlyToolbar)({
@@ -149,15 +125,15 @@ function Violin(_ref) {
           children: [/*#__PURE__*/(0, _jsxRuntime.jsx)("div", {
             className: "flex-grow-1 position-relative",
             style: {
-              minHeight: "0"
+              minHeight: '0'
             },
             children: /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactPlotly.default, {
               data: data,
               layout: layout,
               useResizeHandler: true,
               style: {
-                width: "100%",
-                height: "100%"
+                width: '100%',
+                height: '100%'
               },
               config: {
                 displaylogo: false,
@@ -195,25 +171,25 @@ function Violin(_ref) {
       setPlotType: setPlotType,
       children: [mode === _constants.VIOLIN_MODES.MULTIKEY && /*#__PURE__*/(0, _jsxRuntime.jsxs)("p", {
         className: "p-0 m-0",
-        children: ["Select one or more", " ", showVarsBtn ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
+        children: ["Select one or more", ' ', showVarsBtn ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
           variant: "link",
           className: "border-0 p-0 align-baseline",
           onClick: setShowVars,
           children: "features"
-        }) : "features", " ", "to display their expression distributions across all observations."]
+        }) : 'features', ' ', "to display their expression distributions across all observations."]
       }), mode === _constants.VIOLIN_MODES.GROUPBY && /*#__PURE__*/(0, _jsxRuntime.jsxs)("p", {
         className: "p-0 m-0",
-        children: ["Select a", " ", showObsBtn ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
+        children: ["Select a", ' ', showObsBtn ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
           variant: "link",
           className: "border-0 p-0 align-baseline",
           onClick: setShowObs,
           children: "category"
-        }) : "category", " ", "to group observations, and choose a", " ", showVarsBtn ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
+        }) : 'category', ' ', "to group observations, and choose a", ' ', showVarsBtn ? /*#__PURE__*/(0, _jsxRuntime.jsx)(_reactBootstrap.Button, {
           variant: "link",
           className: "border-0 p-0 align-baseline",
           onClick: setShowVars,
           children: "feature"
-        }) : "feature", " ", "to view its distribution within each group."]
+        }) : 'feature', ' ', "to view its distribution within each group."]
       })]
     });
   } else {
@@ -222,7 +198,7 @@ function Violin(_ref) {
       heading: "Error displaying the violin plot",
       plotType: plotType,
       setPlotType: setPlotType,
-      children: serverError.message || "An unexpected error occurred while generating the plot."
+      children: serverError.message || 'An unexpected error occurred while generating the plot.'
     });
   }
 }

package/dist/cjs/constants/colorscales.js

@@ -6,23 +6,23 @@ Object.defineProperty(exports, "__esModule", {
 exports.COLORSCALES = void 0;
 // From plotly https://github.com/plotly/plotly.js/blob/5bc25b490702e5ed61265207833dbd58e8ab27f1/src/components/colorscale/scales.js
 const COLORSCALES = exports.COLORSCALES = {
-  Greys: ["#000000", "#ffffff"],
-  YlGnBu: ["#081d58", "#253494", "#225ea8", "#1d91c0", "#41b6c4", "#7fcdbb", "#c7e9b4", "#edf8d9", "#ffffd9"],
-  Greens: ["#00441b", "#006d2c", "#238b45", "#41ab5d", "#74c476", "#a1d9a5", "#c7e9c0", "#e5f5e0", "#f7fcf5"],
-  YlOrRd: ["#800026", "#bd0026", "#e31a1c", "#fc4e2a", "#fd8d3c", "#feb24c", "#fed976", "#ffed9f", "#ffffcc"],
-  Bluered: ["#0000ff", "#ff0000"],
-  RdBu: ["#050aac", "#6a89f7", "#bebebe", "#dcaa84", "#e6915a", "#b20a1c"],
-  Reds: ["#dcdcdc", "#f5c39d", "#f5a069", "#b20a1c"],
-  Blues: ["#050aac", "#283cba", "#4664f5", "#5a78f5", "#6a89f7", "#dcdcdc"],
-  Picnic: ["#0000ff", "#3399ff", "#66ccff", "#99ccff", "#ccccff", "#ffffff", "#ffccff", "#ff99ff", "#ff66cc", "#ff6666", "#ff0000"],
-  Rainbow: ["#96005a", "#0000c8", "#0019ff", "#0098ff", "#2cff96", "#97ff00", "#ffe600", "#ff6f00", "#ff0000"],
-  Portland: ["#0c3383", "#0a88ba", "#f2d338", "#f28f38", "#d91e1e"],
-  Jet: ["#000083", "#003caa", "#05ffff", "#ffff00", "#fa0000", "#800000"],
-  Hot: ["#000000", "#e60000", "#ffd200", "#ffffff"],
-  Blackbody: ["#000000", "#e60000", "#e6d200", "#ffffff", "#a0c8ff"],
-  Earth: ["#000082", "#00b4b4", "#28d228", "#e6e632", "#784614", "#ffffff"],
-  Electric: ["#000000", "#1e0064", "#780064", "#a05a00", "#e6c800", "#fffadc"],
-  Viridis: ["#440154", "#48186a", "#472d7b", "#424086", "#3b528b", "#33638d", "#2c728e", "#26828e", "#21918c", "#1fa088", "#28ae80", "#3fbc73", "#5ec962", "#84d44b", "#addc30", "#d8e219", "#fde725"],
-  Cividis: ["#00204c", "#002a66", "#00346e", "#273f6c", "#3c4a6c", "#4c556b", "#5b5f6d", "#686a70", "#757575", "#838178", "#929c78", "#a19676", "#b0a572", "#c0af6d", "#d1ba65", "#e1c75c", "#f3db4f", "#ffe945"],
-  Accent: ["#7fc97f", "#beaed4", "#fdc086", "#ffff99", "#386cb0", "#f0027f", "#bf5b17", "#666666"]
+  Greys: ['#000000', '#ffffff'],
+  YlGnBu: ['#081d58', '#253494', '#225ea8', '#1d91c0', '#41b6c4', '#7fcdbb', '#c7e9b4', '#edf8d9', '#ffffd9'],
+  Greens: ['#00441b', '#006d2c', '#238b45', '#41ab5d', '#74c476', '#a1d9a5', '#c7e9c0', '#e5f5e0', '#f7fcf5'],
+  YlOrRd: ['#800026', '#bd0026', '#e31a1c', '#fc4e2a', '#fd8d3c', '#feb24c', '#fed976', '#ffed9f', '#ffffcc'],
+  Bluered: ['#0000ff', '#ff0000'],
+  RdBu: ['#050aac', '#6a89f7', '#bebebe', '#dcaa84', '#e6915a', '#b20a1c'],
+  Reds: ['#dcdcdc', '#f5c39d', '#f5a069', '#b20a1c'],
+  Blues: ['#050aac', '#283cba', '#4664f5', '#5a78f5', '#6a89f7', '#dcdcdc'],
+  Picnic: ['#0000ff', '#3399ff', '#66ccff', '#99ccff', '#ccccff', '#ffffff', '#ffccff', '#ff99ff', '#ff66cc', '#ff6666', '#ff0000'],
+  Rainbow: ['#96005a', '#0000c8', '#0019ff', '#0098ff', '#2cff96', '#97ff00', '#ffe600', '#ff6f00', '#ff0000'],
+  Portland: ['#0c3383', '#0a88ba', '#f2d338', '#f28f38', '#d91e1e'],
+  Jet: ['#000083', '#003caa', '#05ffff', '#ffff00', '#fa0000', '#800000'],
+  Hot: ['#000000', '#e60000', '#ffd200', '#ffffff'],
+  Blackbody: ['#000000', '#e60000', '#e6d200', '#ffffff', '#a0c8ff'],
+  Earth: ['#000082', '#00b4b4', '#28d228', '#e6e632', '#784614', '#ffffff'],
+  Electric: ['#000000', '#1e0064', '#780064', '#a05a00', '#e6c800', '#fffadc'],
+  Viridis: ['#440154', '#48186a', '#472d7b', '#424086', '#3b528b', '#33638d', '#2c728e', '#26828e', '#21918c', '#1fa088', '#28ae80', '#3fbc73', '#5ec962', '#84d44b', '#addc30', '#d8e219', '#fde725'],
+  Cividis: ['#00204c', '#002a66', '#00346e', '#273f6c', '#3c4a6c', '#4c556b', '#5b5f6d', '#686a70', '#757575', '#838178', '#929c78', '#a19676', '#b0a572', '#c0af6d', '#d1ba65', '#e1c75c', '#f3db4f', '#ffe945'],
+  Accent: ['#7fc97f', '#beaed4', '#fdc086', '#ffff99', '#386cb0', '#f0027f', '#bf5b17', '#666666']
 };

package/dist/cjs/constants/constants.js

@@ -4,106 +4,106 @@ Object.defineProperty(exports, "__esModule", {
   value: true
 });
 exports.VIOLIN_MODES = exports.VIOLINPLOT_SCALES = exports.VAR_SORT_ORDER = exports.VAR_SORT = exports.UNSELECTED_POLYGON_FILLCOLOR = exports.SELECTION_MODES = exports.SELECTED_POLYGON_FILLCOLOR = exports.PSEUDOSPATIAL_PLOT_TYPES = exports.PSEUDOSPATIAL_CATEGORICAL_MODES = exports.PLOT_TYPES = exports.PLOTLY_MODEBAR_BUTTONS = exports.OBS_TYPES = exports.MATRIXPLOT_SCALES = exports.LOCAL_STORAGE_KEY = exports.DOTPLOT_SCALES = exports.DEFAULT_OBS_GROUP = exports.DEFAULT_OBSM_KEYS = exports.COLOR_ENCODINGS = exports.BREAKPOINTS = void 0;
-const LOCAL_STORAGE_KEY = exports.LOCAL_STORAGE_KEY = "CHERITA";
+const LOCAL_STORAGE_KEY = exports.LOCAL_STORAGE_KEY = 'CHERITA';
 const PLOT_TYPES = exports.PLOT_TYPES = {
-  SCATTERPLOT: "scatterplot",
-  DOTPLOT: "dotplot",
-  HEATMAP: "heatmap",
-  MATRIXPLOT: "matrixplot",
-  VIOLINPLOT: "violinplot"
+  SCATTERPLOT: 'scatterplot',
+  DOTPLOT: 'dotplot',
+  HEATMAP: 'heatmap',
+  MATRIXPLOT: 'matrixplot',
+  VIOLINPLOT: 'violinplot'
 };
 const COLOR_ENCODINGS = exports.COLOR_ENCODINGS = {
-  VAR: "var",
-  OBS: "obs"
+  VAR: 'var',
+  OBS: 'obs'
 };
 const OBS_TYPES = exports.OBS_TYPES = {
-  CATEGORICAL: "categorical",
-  DISCRETE: "discrete",
-  CONTINUOUS: "continuous",
-  BOOLEAN: "boolean"
+  CATEGORICAL: 'categorical',
+  DISCRETE: 'discrete',
+  CONTINUOUS: 'continuous',
+  BOOLEAN: 'boolean'
 };
 const VAR_SORT = exports.VAR_SORT = {
   NONE: null,
-  NAME: "name",
-  MATRIX: "matrix"
+  NAME: 'name',
+  MATRIX: 'matrix'
 };
 const VAR_SORT_ORDER = exports.VAR_SORT_ORDER = {
-  ASC: "asc",
-  DESC: "desc"
+  ASC: 'asc',
+  DESC: 'desc'
 };
 const SELECTED_POLYGON_FILLCOLOR = exports.SELECTED_POLYGON_FILLCOLOR = [107, 170, 209, 255 / 2];
 const UNSELECTED_POLYGON_FILLCOLOR = exports.UNSELECTED_POLYGON_FILLCOLOR = [167, 191, 211, 255 / 3];
 const SELECTION_MODES = exports.SELECTION_MODES = {
-  SINGLE: "single",
-  MULTIPLE: "multiple"
+  SINGLE: 'single',
+  MULTIPLE: 'multiple'
 };
 const VIOLIN_MODES = exports.VIOLIN_MODES = {
-  MULTIKEY: "multikey",
-  GROUPBY: "groupby"
+  MULTIKEY: 'multikey',
+  GROUPBY: 'groupby'
 };
 const MATRIXPLOT_SCALES = exports.MATRIXPLOT_SCALES = {
   NONE: {
     value: null,
-    name: "None"
+    name: 'None'
   },
   GROUP: {
-    value: "group",
-    name: "Group"
+    value: 'group',
+    name: 'Group'
   },
   VAR: {
-    value: "var",
-    name: "Var"
+    value: 'var',
+    name: 'Var'
   }
 };
 const DOTPLOT_SCALES = exports.DOTPLOT_SCALES = {
   NONE: {
     value: null,
-    name: "None"
+    name: 'None'
   },
   GROUP: {
-    value: "group",
-    name: "Group"
+    value: 'group',
+    name: 'Group'
   },
   VAR: {
-    value: "var",
-    name: "Var"
+    value: 'var',
+    name: 'Var'
   }
 };
 const VIOLINPLOT_SCALES = exports.VIOLINPLOT_SCALES = {
   WIDTH: {
-    value: "width",
-    name: "Width"
+    value: 'width',
+    name: 'Width'
   },
   COUNT: {
-    value: "count",
-    name: "Count"
+    value: 'count',
+    name: 'Count'
   }
 };
 const PSEUDOSPATIAL_PLOT_TYPES = exports.PSEUDOSPATIAL_PLOT_TYPES = {
-  GENE: "gene",
-  CATEGORICAL: "categorical",
-  CONTINUOUS: "continuous",
-  MASKS: "masks"
+  GENE: 'gene',
+  CATEGORICAL: 'categorical',
+  CONTINUOUS: 'continuous',
+  MASKS: 'masks'
 };
 const PSEUDOSPATIAL_CATEGORICAL_MODES = exports.PSEUDOSPATIAL_CATEGORICAL_MODES = {
   ACROSS: {
-    value: "across",
-    name: "% across sections"
+    value: 'across',
+    name: '% across sections'
   },
   WITHIN: {
-    value: "within",
-    name: "% within section"
+    value: 'within',
+    name: '% within section'
   }
 };
 
 // `default` cols to be shown out of accordion, at top of obslist
 // default values from cellxgene schema
-const DEFAULT_OBS_GROUP = exports.DEFAULT_OBS_GROUP = ["assay", "cell_type", "development_stage", "disease", "donor_id", "organism", "self_reported_ethnicity", "sex", "suspension_type", "tissue", "tissue_type"];
-const PLOTLY_MODEBAR_BUTTONS = exports.PLOTLY_MODEBAR_BUTTONS = ["toImage", "zoom2d", "pan2d", "zoomIn2d", "zoomOut2d", "autoScale2d", "resetScale2d"];
+const DEFAULT_OBS_GROUP = exports.DEFAULT_OBS_GROUP = ['assay', 'cell_type', 'development_stage', 'disease', 'donor_id', 'organism', 'self_reported_ethnicity', 'sex', 'suspension_type', 'tissue', 'tissue_type'];
+const PLOTLY_MODEBAR_BUTTONS = exports.PLOTLY_MODEBAR_BUTTONS = ['toImage', 'zoom2d', 'pan2d', 'zoomIn2d', 'zoomOut2d', 'autoScale2d', 'resetScale2d'];
 const BREAKPOINTS = exports.BREAKPOINTS = {
-  LG: "(max-width: 991.98px)",
-  XL: "(max-width: 1199.98px)"
+  LG: '(max-width: 991.98px)',
+  XL: '(max-width: 1199.98px)'
 };
 
 // In order of priority
-const DEFAULT_OBSM_KEYS = exports.DEFAULT_OBSM_KEYS = ["x_umap", "x_tsne", "x_scvi", "x_pca"];
+const DEFAULT_OBSM_KEYS = exports.DEFAULT_OBSM_KEYS = ['x_umap', 'x_tsne', 'x_scvi', 'x_pca'];

package/dist/cjs/context/DatasetContext.js

@@ -43,7 +43,7 @@ const queryClient = new _reactQuery.QueryClient({
   })
 });
 // Type of queries to store responses
-const persistKeys = ["obs/cols", "var/names", "obsm/keys", "obs/bins", "obs/distribution"];
+const persistKeys = ['obs/cols', 'var/names', 'obsm/keys', 'obs/bins', 'obs/distribution'];
 const persistOptions = {
   persister: (0, _querySyncStoragePersister.createSyncStoragePersister)({
     storage: window.localStorage
@@ -54,13 +54,13 @@ const persistOptions = {
         queryKey,
         state
       } = _ref;
-      if (state.status === "success") {
+      if (state.status === 'success') {
         return persistKeys.includes(queryKey === null || queryKey === void 0 ? void 0 : queryKey[0]);
       }
       return false;
     }
   },
-  buster: "1.4.1-dev.2025-10-23.3179e534" || "0.0.0"
+  buster: "1.4.1-dev.2025-10-23.55fbe6ff" || '0.0.0'
   // @TODO: add maxAge and api version numbers as buster
 };
 const initialDataset = {

package/dist/cjs/context/FilterContext.js

@@ -44,7 +44,7 @@ function useFilteredDataDispatch() {
 }
 function filterReducer(filteredData, action) {
   switch (action.type) {
-    case "set.obs.indices":
+    case 'set.obs.indices':
       {
         return _objectSpread(_objectSpread({}, filteredData), {}, {
           obsIndices: action.indices,
@@ -56,7 +56,7 @@ function filterReducer(filteredData, action) {
       }
     default:
       {
-        throw Error("Unknown action: " + action.type);
+        throw Error('Unknown action: ' + action.type);
       }
   }
 }