@haniffalab/cherita-react 1.4.1-dev.2025-10-20.528e0f75 → 1.4.1-dev.2025-10-22.61540191

package/dist/cjs/components/icons/MatrixPlotIcon.js

@@ -0,0 +1,53 @@
+"use strict";
+
+Object.defineProperty(exports, "__esModule", {
+  value: true
+});
+exports.default = MatrixPlotIcon;
+const _excluded = ["size", "colour", "gap"];
+function _extends() { return _extends = Object.assign ? Object.assign.bind() : function (n) { for (var e = 1; e < arguments.length; e++) { var t = arguments[e]; for (var r in t) ({}).hasOwnProperty.call(t, r) && (n[r] = t[r]); } return n; }, _extends.apply(null, arguments); }
+function _objectWithoutProperties(e, t) { if (null == e) return {}; var o, r, i = _objectWithoutPropertiesLoose(e, t); if (Object.getOwnPropertySymbols) { var n = Object.getOwnPropertySymbols(e); for (r = 0; r < n.length; r++) o = n[r], -1 === t.indexOf(o) && {}.propertyIsEnumerable.call(e, o) && (i[o] = e[o]); } return i; }
+function _objectWithoutPropertiesLoose(r, e) { if (null == r) return {}; var t = {}; for (var n in r) if ({}.hasOwnProperty.call(r, n)) { if (-1 !== e.indexOf(n)) continue; t[n] = r[n]; } return t; }
+function MatrixPlotIcon(_ref) {
+  let {
+      size = 40,
+      colour = "#000",
+      gap = 2
+    } = _ref,
+    props = _objectWithoutProperties(_ref, _excluded);
+  const rows = 3;
+  const cols = 3;
+  const squareSize = (size - gap * (cols - 1)) / cols;
+  const squares = [];
+  for (let row = 0; row < rows; row++) {
+    for (let col = 0; col < cols; col++) {
+      squares.push({
+        x: col * (squareSize + gap),
+        y: row * (squareSize + gap)
+      });
+    }
+  }
+
+  // Example: corners semi-transparent
+  const semiTransparentSquares = [0, 2, 6, 8];
+  return /*#__PURE__*/React.createElement("svg", _extends({
+    width: size,
+    height: size,
+    viewBox: "0 0 ".concat(size, " ").concat(size),
+    xmlns: "http://www.w3.org/2000/svg"
+  }, props), squares.map((_ref2, i) => {
+    let {
+      x,
+      y
+    } = _ref2;
+    return /*#__PURE__*/React.createElement("rect", {
+      key: i,
+      x: x,
+      y: y,
+      width: squareSize,
+      height: squareSize,
+      fill: colour,
+      fillOpacity: semiTransparentSquares.includes(i) ? 0.5 : 1
+    });
+  }));
+}

package/dist/cjs/components/icons/ScatterplotIcon.1.js

@@ -0,0 +1,158 @@
+"use strict";
+
+Object.defineProperty(exports, "__esModule", {
+  value: true
+});
+exports.default = ScatterplotIcon;
+const _excluded = ["size", "colour"];
+function _extends() { return _extends = Object.assign ? Object.assign.bind() : function (n) { for (var e = 1; e < arguments.length; e++) { var t = arguments[e]; for (var r in t) ({}).hasOwnProperty.call(t, r) && (n[r] = t[r]); } return n; }, _extends.apply(null, arguments); }
+function _objectWithoutProperties(e, t) { if (null == e) return {}; var o, r, i = _objectWithoutPropertiesLoose(e, t); if (Object.getOwnPropertySymbols) { var n = Object.getOwnPropertySymbols(e); for (r = 0; r < n.length; r++) o = n[r], -1 === t.indexOf(o) && {}.propertyIsEnumerable.call(e, o) && (i[o] = e[o]); } return i; }
+function _objectWithoutPropertiesLoose(r, e) { if (null == r) return {}; var t = {}; for (var n in r) if ({}.hasOwnProperty.call(r, n)) { if (-1 !== e.indexOf(n)) continue; t[n] = r[n]; } return t; }
+function ScatterplotIcon(_ref) {
+  let {
+      size = 40,
+      colour = "#000"
+    } = _ref,
+    props = _objectWithoutProperties(_ref, _excluded);
+  // Points with cluster assignments
+  const points = [
+  // Cluster 0
+  {
+    x: 15.2,
+    y: 35.9,
+    cluster: 0
+  }, {
+    x: 10.0,
+    y: 38.0,
+    cluster: 0
+  }, {
+    x: 12.3,
+    y: 40.7,
+    cluster: 0
+  }, {
+    x: 15.7,
+    y: 39.9,
+    cluster: 0
+  }, {
+    x: 8.1,
+    y: 42.2,
+    cluster: 0
+  }, {
+    x: 10.8,
+    y: 44.5,
+    cluster: 0
+  }, {
+    x: 14.3,
+    y: 44.6,
+    cluster: 0
+  }, {
+    x: 7.4,
+    y: 46.7,
+    cluster: 0
+  }, {
+    x: 11.1,
+    y: 48.8,
+    cluster: 0
+  }, {
+    x: 14.8,
+    y: 48.5,
+    cluster: 0
+  }, {
+    x: 12.6,
+    y: 52.1,
+    cluster: 0
+  },
+  // Cluster 1
+  {
+    x: 29.4,
+    y: 37.0,
+    cluster: 1
+  }, {
+    x: 26.1,
+    y: 40.2,
+    cluster: 1
+  }, {
+    x: 29.8,
+    y: 42.0,
+    cluster: 1
+  }, {
+    x: 33.0,
+    y: 39.5,
+    cluster: 1
+  }, {
+    x: 34.9,
+    y: 43.6,
+    cluster: 1
+  }, {
+    x: 31.5,
+    y: 46.2,
+    cluster: 1
+  }, {
+    x: 29.3,
+    y: 49.5,
+    cluster: 1
+  }, {
+    x: 26.7,
+    y: 45.2,
+    cluster: 1
+  },
+  // Cluster 2
+  {
+    x: 21.6,
+    y: 53.1,
+    cluster: 2
+  }, {
+    x: 25.3,
+    y: 53.9,
+    cluster: 2
+  }, {
+    x: 25.8,
+    y: 57.9,
+    cluster: 2
+  }, {
+    x: 22.1,
+    y: 57.4,
+    cluster: 2
+  }, {
+    x: 18.4,
+    y: 56.0,
+    cluster: 2
+  }, {
+    x: 18.6,
+    y: 59.8,
+    cluster: 2
+  }, {
+    x: 22.5,
+    y: 61.7,
+    cluster: 2
+  }];
+  const radius = 1.8;
+  const opacity = 1.0; // uniform expression
+
+  // Compute viewBox dynamically
+  const xs = points.map(p => p.x);
+  const ys = points.map(p => p.y);
+  const minX = Math.min(...xs) - radius;
+  const minY = Math.min(...ys) - radius;
+  const maxX = Math.max(...xs) + radius;
+  const maxY = Math.max(...ys) + radius;
+  return /*#__PURE__*/React.createElement("svg", _extends({
+    width: size,
+    height: size,
+    viewBox: "".concat(minX, " ").concat(minY, " ").concat(maxX - minX, " ").concat(maxY - minY),
+    xmlns: "http://www.w3.org/2000/svg"
+  }, props), points.map((_ref2, i) => {
+    let {
+      x,
+      y
+    } = _ref2;
+    return /*#__PURE__*/React.createElement("circle", {
+      key: i,
+      cx: x,
+      cy: y,
+      r: radius,
+      fill: colour,
+      opacity: opacity
+    });
+  }));
+}

package/dist/cjs/components/icons/ScatterplotIcon.js

@@ -0,0 +1,138 @@
+"use strict";
+
+Object.defineProperty(exports, "__esModule", {
+  value: true
+});
+exports.default = ScatterplotIcon;
+const _excluded = ["size", "colour"];
+function _extends() { return _extends = Object.assign ? Object.assign.bind() : function (n) { for (var e = 1; e < arguments.length; e++) { var t = arguments[e]; for (var r in t) ({}).hasOwnProperty.call(t, r) && (n[r] = t[r]); } return n; }, _extends.apply(null, arguments); }
+function _objectWithoutProperties(e, t) { if (null == e) return {}; var o, r, i = _objectWithoutPropertiesLoose(e, t); if (Object.getOwnPropertySymbols) { var n = Object.getOwnPropertySymbols(e); for (r = 0; r < n.length; r++) o = n[r], -1 === t.indexOf(o) && {}.propertyIsEnumerable.call(e, o) && (i[o] = e[o]); } return i; }
+function _objectWithoutPropertiesLoose(r, e) { if (null == r) return {}; var t = {}; for (var n in r) if ({}.hasOwnProperty.call(r, n)) { if (-1 !== e.indexOf(n)) continue; t[n] = r[n]; } return t; }
+function ScatterplotIcon(_ref) {
+  let {
+      size = 40,
+      colour = "#000"
+    } = _ref,
+    props = _objectWithoutProperties(_ref, _excluded);
+  // Points with cluster assignments
+  const points = [
+  // Cluster 0
+  {
+    x: 15.2,
+    y: 35.9,
+    cluster: 0
+  }, {
+    x: 10.0,
+    y: 38.0,
+    cluster: 0
+  }, {
+    x: 12.3,
+    y: 40.7,
+    cluster: 0
+  }, {
+    x: 15.7,
+    y: 39.9,
+    cluster: 0
+  }, {
+    x: 8.1,
+    y: 42.2,
+    cluster: 0
+  }, {
+    x: 10.8,
+    y: 44.5,
+    cluster: 0
+  }, {
+    x: 14.3,
+    y: 44.6,
+    cluster: 0
+  }, {
+    x: 7.4,
+    y: 46.7,
+    cluster: 0
+  }, {
+    x: 11.1,
+    y: 48.8,
+    cluster: 0
+  },
+  // Cluster 1
+  {
+    x: 29.4,
+    y: 37.0,
+    cluster: 1
+  }, {
+    x: 26.1,
+    y: 40.2,
+    cluster: 1
+  }, {
+    x: 29.8,
+    y: 42.0,
+    cluster: 1
+  }, {
+    x: 33.0,
+    y: 39.5,
+    cluster: 1
+  }, {
+    x: 34.9,
+    y: 43.6,
+    cluster: 1
+  }, {
+    x: 31.5,
+    y: 46.2,
+    cluster: 1
+  },
+  // Cluster 2
+  {
+    x: 21.6,
+    y: 53.1,
+    cluster: 2
+  }, {
+    x: 25.3,
+    y: 53.9,
+    cluster: 2
+  }, {
+    x: 25.8,
+    y: 57.9,
+    cluster: 2
+  }, {
+    x: 22.1,
+    y: 57.4,
+    cluster: 2
+  }, {
+    x: 18.4,
+    y: 56.0,
+    cluster: 2
+  }, {
+    x: 22.5,
+    y: 61.7,
+    cluster: 2
+  }];
+  const radius = 1.8;
+  const opacity = 1.0; // uniform expression
+
+  // Compute viewBox dynamically
+  const xs = points.map(p => p.x);
+  const ys = points.map(p => p.y);
+  const minX = Math.min(...xs) - radius;
+  const minY = Math.min(...ys) - radius;
+  const maxX = Math.max(...xs) + radius;
+  const maxY = Math.max(...ys) + radius;
+  return /*#__PURE__*/React.createElement("svg", _extends({
+    width: size,
+    height: size,
+    viewBox: "".concat(minX, " ").concat(minY, " ").concat(maxX - minX, " ").concat(maxY - minY),
+    xmlns: "http://www.w3.org/2000/svg"
+  }, props), points.map((_ref2, i) => {
+    let {
+      x,
+      y
+    } = _ref2;
+    return /*#__PURE__*/React.createElement("circle", {
+      key: i,
+      cx: x,
+      cy: y,
+      r: radius,
+      fill: colour,
+      opacity: opacity
+    });
+  }));
+}

package/dist/cjs/components/icons/ViolinPlotIcon.js

@@ -0,0 +1,34 @@
+"use strict";
+
+Object.defineProperty(exports, "__esModule", {
+  value: true
+});
+exports.default = ViolinPlotIcon;
+const _excluded = ["size", "colour"];
+function _extends() { return _extends = Object.assign ? Object.assign.bind() : function (n) { for (var e = 1; e < arguments.length; e++) { var t = arguments[e]; for (var r in t) ({}).hasOwnProperty.call(t, r) && (n[r] = t[r]); } return n; }, _extends.apply(null, arguments); }
+function _objectWithoutProperties(e, t) { if (null == e) return {}; var o, r, i = _objectWithoutPropertiesLoose(e, t); if (Object.getOwnPropertySymbols) { var n = Object.getOwnPropertySymbols(e); for (r = 0; r < n.length; r++) o = n[r], -1 === t.indexOf(o) && {}.propertyIsEnumerable.call(e, o) && (i[o] = e[o]); } return i; }
+function _objectWithoutPropertiesLoose(r, e) { if (null == r) return {}; var t = {}; for (var n in r) if ({}.hasOwnProperty.call(r, n)) { if (-1 !== e.indexOf(n)) continue; t[n] = r[n]; } return t; }
+function ViolinPlotIcon(_ref) {
+  let {
+      size = 40,
+      colour = "#000"
+    } = _ref,
+    props = _objectWithoutProperties(_ref, _excluded);
+  return /*#__PURE__*/React.createElement("svg", _extends({
+    viewBox: "0 0 37 40",
+    width: size,
+    height: size,
+    xmlns: "http://www.w3.org/2000/svg"
+  }, props), /*#__PURE__*/React.createElement("g", {
+    fill: colour,
+    stroke: colour,
+    strokeWidth: "0.5",
+    transform: "translate(-12 -8)"
+  }, /*#__PURE__*/React.createElement("path", {
+    d: "M19.9971,24.5 A6.3078,6.3078 0 0 0 18.5732,20.8389 7.1479,7.1479 0 0 1 16.9971,16.5 V16.0029 H16.0029 V16.5 a7.1479,7.1479 0 0 1 -1.5761,4.3389 6.3078,6.3078 0 0 0 -1.4239,3.6611 12.4967,12.4967 0 0 1 -0.4853,3.38 13.5076,13.5076 0 0 0 -0.5147,3.62 6.3078,6.3078 0 0 0 1.4239,3.6611 7.1479,7.1479 0 0 1 1.5761,4.3389 19.2486,19.2486 0 0 0 0.5664,4.7246 13.6883,13.6883 0 0 1 0.4336,3.2754 v0.4971 h0.9942 V47.5 A13.6883,13.6883 0 0 1 17.4307,44.2246 19.2486,19.2486 0 0 0 17.9971,39.5 7.1479,7.1479 0 0 1 19.5732,35.1611 6.3078,6.3078 0 0 0 20.9971,31.5 13.5076,13.5076 0 0 0 20.4824,27.88 12.4967,12.4967 0 0 1 19.9971,24.5 Z"
+  }), /*#__PURE__*/React.createElement("path", {
+    d: "M34.6436,12.6963 C32.8506,11.5537 30.9971,10.3711 30.9971,8.5 V8.0029 H30.0029 V8.5 c0,1.8711 -1.8535,3.0537 -3.6465,4.1963 -1.7246,1.1006 -3.3535,2.1387 -3.3535,3.8037 0,1.6152 1.2188,2.7031 2.3975,3.7549 1.2793,1.1426 2.6025,2.3242 2.6025,4.2451 a18.1508,18.1508 0 0 1 -0.542,4.5068 14.5,14.5 0 0 0 -0.458,3.4932 6.038,6.038 0 0 0 1.6,3.7979 5.179,5.179 0 0 1 1.4,3.2021 v0.4971 h0.9942 V39.5 a5.179,5.179 0 0 1 1.4,-3.2021 6.038,6.038 0 0 0 1.6,-3.7979 14.5,14.5 0 0 0 -0.458,-3.4932 18.1508,18.1508 0 0 1 -0.542,-4.5068 c0,-1.9209 1.3232,-3.1025 2.6025,-4.2451 1.1787,-1.0518 2.3975,-2.14 2.3975,-3.7549 0,-1.665 -1.6289,-2.7031 -3.3535,-3.8037 z"
+  }), /*#__PURE__*/React.createElement("path", {
+    d: "M47.3975,35.7021 A5.179,5.179 0 0 1 45.9975,32.5 14.5,14.5 0 0 0 45.5395,29.0068 18.1508,18.1508 0 0 1 44.9975,24.5 V24.0029 H44.0033 V24.5 a18.1508,18.1508 0 0 1 -0.542,4.5068 14.5,14.5 0 0 0 -0.458,3.4932 5.179,5.179 0 0 1 -1.4,3.2021 6.038,6.038 0 0 0 -1.6,3.7979 c0,1.582 0.9717,2.667 1.9121,3.7158 1.0264,1.1455 2.0879,2.3311 2.0879,4.2842 v0.4971 h0.9942 V47.5 c0,-1.9531 1.0615,-3.1387 2.0879,-4.2842 0.94,-1.0488 1.9121,-2.1338 1.9121,-3.7158 a6.038,6.038 0 0 0 -1.6,-3.7979 z"
+  })));
+}

package/dist/cjs/components/matrixplot/Matrixplot.js

@@ -4,7 +4,7 @@ Object.defineProperty(exports, "__esModule", {
   value: true
 });
 exports.Matrixplot = Matrixplot;
-var _react = _interopRequireWildcard(require("react"));
+var _react = require("react");
 var _lodash = _interopRequireDefault(require("lodash"));
 var _reactBootstrap = require("react-bootstrap");
 var _reactPlotly = _interopRequireDefault(require("react-plotly.js"));
@@ -15,9 +15,9 @@ var _SettingsContext = require("../../context/SettingsContext");
 var _LoadingIndicators = require("../../utils/LoadingIndicators");
 var _requests = require("../../utils/requests");
 var _Resolver = require("../../utils/Resolver");
+var _PlotAlert = require("../full-page/PlotAlert");
 var _Toolbar = require("../toolbar/Toolbar");
 function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
-function _interopRequireWildcard(e, t) { if ("function" == typeof WeakMap) var r = new WeakMap(), n = new WeakMap(); return (_interopRequireWildcard = function (e, t) { if (!t && e && e.__esModule) return e; var o, i, f = { __proto__: null, default: e }; if (null === e || "object" != typeof e && "function" != typeof e) return f; if (o = t ? n : r) { if (o.has(e)) return o.get(e); o.set(e, f); } for (const t in e) "default" !== t && {}.hasOwnProperty.call(e, t) && ((i = (o = Object.defineProperty) && Object.getOwnPropertyDescriptor(e, t)) && (i.get || i.set) ? o(f, t, i) : f[t] = e[t]); return f; })(e, t); }
 function ownKeys(e, r) { var t = Object.keys(e); if (Object.getOwnPropertySymbols) { var o = Object.getOwnPropertySymbols(e); r && (o = o.filter(function (r) { return Object.getOwnPropertyDescriptor(e, r).enumerable; })), t.push.apply(t, o); } return t; }
 function _objectSpread(e) { for (var r = 1; r < arguments.length; r++) { var t = null != arguments[r] ? arguments[r] : {}; r % 2 ? ownKeys(Object(t), !0).forEach(function (r) { _defineProperty(e, r, t[r]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(e, Object.getOwnPropertyDescriptors(t)) : ownKeys(Object(t)).forEach(function (r) { Object.defineProperty(e, r, Object.getOwnPropertyDescriptor(t, r)); }); } return e; }
 function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
@@ -30,7 +30,9 @@ function Matrixplot(_ref) {
     showCtrlsBtn = false,
     setShowObs,
     setShowVars,
-    setShowControls
+    setShowControls,
+    plotType,
+    setPlotType
   } = _ref;
   const ENDPOINT = "matrixplot";
   const dataset = (0, _DatasetContext.useDataset)();
@@ -115,9 +117,9 @@ function Matrixplot(_ref) {
   const modeBarButtons = customModeBarButtons.length ? [customModeBarButtons, _constants.PLOTLY_MODEBAR_BUTTONS] : [_constants.PLOTLY_MODEBAR_BUTTONS];
   if (!serverError) {
     if (hasSelections) {
-      return /*#__PURE__*/_react.default.createElement("div", {
+      return /*#__PURE__*/React.createElement("div", {
         className: "cherita-plot cherita-matrixplot position-relative"
-      }, isPending && /*#__PURE__*/_react.default.createElement(_LoadingIndicators.LoadingSpinner, null), /*#__PURE__*/_react.default.createElement(_reactPlotly.default, {
+      }, isPending && /*#__PURE__*/React.createElement(_LoadingIndicators.LoadingSpinner, null), /*#__PURE__*/React.createElement(_reactPlotly.default, {
         data: data,
         layout: layout,
         useResizeHandler: true,
@@ -131,22 +133,28 @@ function Matrixplot(_ref) {
         }
       }));
     }
-    return /*#__PURE__*/_react.default.createElement("div", {
-      className: "cherita-matrixplot"
-    }, /*#__PURE__*/_react.default.createElement(_reactBootstrap.Alert, {
-      variant: "light"
-    }, "Select", " ", showVarsBtn ? /*#__PURE__*/_react.default.createElement(_reactBootstrap.Button, {
+    return /*#__PURE__*/React.createElement(_PlotAlert.PlotAlert, {
+      variant: "info",
+      heading: "Matrixplot",
+      plotType: plotType,
+      setPlotType: setPlotType
+    }, /*#__PURE__*/React.createElement("p", {
+      className: "p-0 m-0"
+    }, "Select a", " ", showObsBtn ? /*#__PURE__*/React.createElement(_reactBootstrap.Button, {
       variant: "link",
       className: "border-0 p-0 align-baseline",
-      onClick: setShowVars
-    }, "features") : "features", " ", "and a", " ", showObsBtn ? /*#__PURE__*/_react.default.createElement(_reactBootstrap.Button, {
+      onClick: setShowObs
+    }, "category") : "category", " ", "to group observations, then choose one or more", " ", showVarsBtn ? /*#__PURE__*/React.createElement(_reactBootstrap.Button, {
       variant: "link",
       className: "border-0 p-0 align-baseline",
-      onClick: setShowObs
-    }, "category") : "category"));
+      onClick: setShowVars
+    }, "features") : "features", " ", "to display the matrix plot."));
   } else {
-    return /*#__PURE__*/_react.default.createElement("div", null, /*#__PURE__*/_react.default.createElement(_reactBootstrap.Alert, {
-      variant: "danger"
-    }, serverError.message));
+    return /*#__PURE__*/React.createElement(_PlotAlert.PlotAlert, {
+      variant: "danger",
+      heading: "Matrixplot",
+      plotType: plotType,
+      setPlotType: setPlotType
+    }, serverError.message || "An unexpected error occurred while generating the plot.");
   }
 }

package/dist/cjs/components/pseudospatial/Pseudospatial.js

@@ -5,8 +5,7 @@ Object.defineProperty(exports, "__esModule", {
 });
 exports.Pseudospatial = Pseudospatial;
 exports.PseudospatialImage = PseudospatialImage;
-var _react = _interopRequireWildcard(require("react"));
-var _fontawesomeSvgCore = require("@fortawesome/fontawesome-svg-core");
+var _react = require("react");
 var _freeSolidSvgIcons = require("@fortawesome/free-solid-svg-icons");
 var _lodash = _interopRequireDefault(require("lodash"));
 var _reactBootstrap = require("react-bootstrap");
@@ -22,13 +21,11 @@ var _LoadingIndicators = require("../../utils/LoadingIndicators");
 var _requests = require("../../utils/requests");
 var _Resolver = require("../../utils/Resolver");
 function _interopRequireDefault(e) { return e && e.__esModule ? e : { default: e }; }
-function _interopRequireWildcard(e, t) { if ("function" == typeof WeakMap) var r = new WeakMap(), n = new WeakMap(); return (_interopRequireWildcard = function (e, t) { if (!t && e && e.__esModule) return e; var o, i, f = { __proto__: null, default: e }; if (null === e || "object" != typeof e && "function" != typeof e) return f; if (o = t ? n : r) { if (o.has(e)) return o.get(e); o.set(e, f); } for (const t in e) "default" !== t && {}.hasOwnProperty.call(e, t) && ((i = (o = Object.defineProperty) && Object.getOwnPropertyDescriptor(e, t)) && (i.get || i.set) ? o(f, t, i) : f[t] = e[t]); return f; })(e, t); }
 function ownKeys(e, r) { var t = Object.keys(e); if (Object.getOwnPropertySymbols) { var o = Object.getOwnPropertySymbols(e); r && (o = o.filter(function (r) { return Object.getOwnPropertyDescriptor(e, r).enumerable; })), t.push.apply(t, o); } return t; }
 function _objectSpread(e) { for (var r = 1; r < arguments.length; r++) { var t = null != arguments[r] ? arguments[r] : {}; r % 2 ? ownKeys(Object(t), !0).forEach(function (r) { _defineProperty(e, r, t[r]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(e, Object.getOwnPropertyDescriptors(t)) : ownKeys(Object(t)).forEach(function (r) { Object.defineProperty(e, r, Object.getOwnPropertyDescriptor(t, r)); }); } return e; }
 function _defineProperty(e, r, t) { return (r = _toPropertyKey(r)) in e ? Object.defineProperty(e, r, { value: t, enumerable: !0, configurable: !0, writable: !0 }) : e[r] = t, e; }
 function _toPropertyKey(t) { var i = _toPrimitive(t, "string"); return "symbol" == typeof i ? i : i + ""; }
 function _toPrimitive(t, r) { if ("object" != typeof t || !t) return t; var e = t[Symbol.toPrimitive]; if (void 0 !== e) { var i = e.call(t, r || "default"); if ("object" != typeof i) return i; throw new TypeError("@@toPrimitive must return a primitive value."); } return ("string" === r ? String : Number)(t); }
-_fontawesomeSvgCore.library.add(_freeSolidSvgIcons.faSliders);
 function usePseudospatialData(plotType) {
   const ENDPOINT = "pseudospatial";
   const dataset = (0, _DatasetContext.useDataset)();
@@ -82,7 +79,7 @@ function usePseudospatialData(plotType) {
   });
 }
 function Pseudospatial(_ref) {
-  var _layout$coloraxis3, _layout$coloraxis4;
+  var _layout$coloraxis3, _layout$coloraxis4, _settings$pseudospati2;
   let {
     showLegend = true,
     sharedScaleRange = false,
@@ -91,6 +88,9 @@ function Pseudospatial(_ref) {
     plotType,
     setPlotType
   } = _ref;
+  const {
+    imageUrl
+  } = (0, _DatasetContext.useDataset)();
   const settings = (0, _SettingsContext.useSettings)();
   const dispatch = (0, _SettingsContext.useSettingsDispatch)();
   const [data, setData] = (0, _react.useState)([]);
@@ -197,45 +197,84 @@ function Pseudospatial(_ref) {
     }
   }, [settings.controls.range, settings.controls.valueMax, settings.controls.valueMin, getColor, sharedScaleRange, valueMax, valueMin]);
   const hasSelections = !!plotType && !!settings.pseudospatial.maskSet;
-  const faSlidersPath = _freeSolidSvgIcons.faSliders.icon[4];
+  const images = (0, _react.useMemo)(() => {
+    if (imageUrl) {
+      return [_objectSpread({
+        source: imageUrl,
+        xref: "paper",
+        yref: "paper",
+        x: 0.5,
+        y: 0.5,
+        sizex: 1,
+        sizey: 1,
+        sizing: "contain",
+        layer: "above",
+        xanchor: "center",
+        yanchor: "middle",
+        name: "Reference Image"
+      }, settings.pseudospatial.refImg)];
+    }
+    return [];
+  }, [imageUrl, settings.pseudospatial.refImg]);
+  const modeBarButtons = (0, _react.useMemo)(() => {
+    var _settings$pseudospati;
+    const isRefImgVisible = (_settings$pseudospati = settings.pseudospatial) === null || _settings$pseudospati === void 0 || (_settings$pseudospati = _settings$pseudospati.refImg) === null || _settings$pseudospati === void 0 ? void 0 : _settings$pseudospati.visible;
+    return [{
+      name: "Open plot controls",
+      icon: {
+        width: 512,
+        height: 512,
+        path: _freeSolidSvgIcons.faSliders.icon[4]
+      },
+      click: () => setShowControls(prev => !prev)
+    }, ...(imageUrl ? [{
+      name: isRefImgVisible ? "Hide reference image" : "Show reference image",
+      icon: {
+        width: 600,
+        height: 512,
+        path: _freeSolidSvgIcons.faEye.icon[4]
+      },
+      click: () => dispatch({
+        type: "toggle.pseudospatial.refImg.visible"
+      })
+    }] : [])];
+  }, [dispatch, imageUrl, setShowControls, (_settings$pseudospati2 = settings.pseudospatial) === null || _settings$pseudospati2 === void 0 || (_settings$pseudospati2 = _settings$pseudospati2.refImg) === null || _settings$pseudospati2 === void 0 ? void 0 : _settings$pseudospati2.visible]);
   if (!_lodash.default.keys(settings.data.pseudospatial).length) {
-    return /*#__PURE__*/_react.default.createElement(_react.default.Fragment, null, /*#__PURE__*/_react.default.createElement(_reactBootstrap.Alert, {
+    return /*#__PURE__*/React.createElement(React.Fragment, null, /*#__PURE__*/React.createElement(_reactBootstrap.Alert, {
       variant: "warning"
     }, "No pseudospatial data"));
   } else if (!serverError) {
     var _layout$coloraxis5, _layout$coloraxis6;
-    return /*#__PURE__*/_react.default.createElement("div", {
+    return /*#__PURE__*/React.createElement("div", {
       className: "cherita-pseudospatial"
-    }, /*#__PURE__*/_react.default.createElement(_react.default.Fragment, null, hasSelections && isPending && /*#__PURE__*/_react.default.createElement(_LoadingIndicators.LoadingSpinner, null), hasSelections && /*#__PURE__*/_react.default.createElement(_reactPlotly.default, {
+    }, /*#__PURE__*/React.createElement(React.Fragment, null, hasSelections && isPending && /*#__PURE__*/React.createElement(_LoadingIndicators.LoadingSpinner, null), hasSelections && /*#__PURE__*/React.createElement(_reactPlotly.default, {
       data: data,
       layout: _objectSpread(_objectSpread({}, layout), {}, {
         autosize: true,
-        height: height
+        height: height,
+        margin: {
+          l: 0,
+          r: 0,
+          t: 0,
+          b: 0,
+          pad: 0
+        },
+        images: images
       }),
       useResizeHandler: true,
       className: "cherita-pseudospatial-plot",
       config: {
         displaylogo: false,
         displayModeBar: true,
-        modeBarButtonsToAdd: [{
-          name: "Open plot controls",
-          icon: {
-            width: 512,
-            height: 512,
-            path: faSlidersPath,
-            ascent: 512,
-            descent: 0
-          },
-          click: () => setShowControls(prev => !prev)
-        }]
+        modeBarButtonsToAdd: modeBarButtons
       }
-    }), hasSelections && showLegend && /*#__PURE__*/_react.default.createElement(_Legend.Legend, {
+    }), hasSelections && showLegend && /*#__PURE__*/React.createElement(_Legend.Legend, {
       min: layout === null || layout === void 0 || (_layout$coloraxis5 = layout.coloraxis) === null || _layout$coloraxis5 === void 0 ? void 0 : _layout$coloraxis5.cmin,
       max: layout === null || layout === void 0 || (_layout$coloraxis6 = layout.coloraxis) === null || _layout$coloraxis6 === void 0 ? void 0 : _layout$coloraxis6.cmax,
       addText: plotType === _constants.PSEUDOSPATIAL_PLOT_TYPES.GENE ? " - Mean expression" : plotType === _constants.PSEUDOSPATIAL_PLOT_TYPES.CATEGORICAL ? " - %" : plotType === _constants.PSEUDOSPATIAL_PLOT_TYPES.CONTINUOUS ? " - Mean value" : ""
     })));
   } else {
-    return /*#__PURE__*/_react.default.createElement(_react.default.Fragment, null, /*#__PURE__*/_react.default.createElement(_reactBootstrap.Alert, {
+    return /*#__PURE__*/React.createElement(React.Fragment, null, /*#__PURE__*/React.createElement(_reactBootstrap.Alert, {
       variant: "danger"
     }, serverError.message));
   }
@@ -245,11 +284,11 @@ function Pseudospatial(_ref) {
 function PseudospatialImage() {
   const dataset = (0, _DatasetContext.useDataset)();
   if (dataset.imageUrl) {
-    return /*#__PURE__*/_react.default.createElement(_ImageViewer.ImageViewer, {
+    return /*#__PURE__*/React.createElement(_ImageViewer.ImageViewer, {
       src: dataset.imageUrl,
       alt: "Pseudospatial reference image"
     });
   } else {
-    return /*#__PURE__*/_react.default.createElement(_react.default.Fragment, null);
+    return /*#__PURE__*/React.createElement(React.Fragment, null);
   }
 }