@vitessce/vit-s 3.5.9 → 3.5.11

package/dist/index.js

@@ -28076,7 +28076,9 @@ const ViewType$1 = {
   LINK_CONTROLLER: "linkController",
   NEUROGLANCER: "neuroglancer",
   DUAL_SCATTERPLOT: "dualScatterplot",
-  TREEMAP: "treemap"
+  TREEMAP: "treemap",
+  SAMPLE_SET_PAIR_MANAGER: "sampleSetPairManager",
+  FEATURE_STATS_TABLE: "featureStatsTable"
 };
 const DataType$1 = {
   OBS_LABELS: "obsLabels",
@@ -28316,6 +28318,7 @@ const CoordinationType$1 = {
   FEATURE_VALUE_COLORMAP: "featureValueColormap",
   FEATURE_VALUE_TRANSFORM: "featureValueTransform",
   FEATURE_VALUE_COLORMAP_RANGE: "featureValueColormapRange",
+  FEATURE_AGGREGATION_STRATEGY: "featureAggregationStrategy",
   OBS_COLOR_ENCODING: "obsColorEncoding",
   SPATIAL_IMAGE_LAYER: "spatialImageLayer",
   SPATIAL_SEGMENTATION_LAYER: "spatialSegmentationLayer",
@@ -28481,13 +28484,14 @@ const AUTO_INDEPENDENT_COORDINATION_TYPES = [
   CoordinationType$1.EMBEDDING_OBS_SET_LABELS_VISIBLE,
   CoordinationType$1.EMBEDDING_OBS_SET_LABEL_SIZE,
   CoordinationType$1.EMBEDDING_OBS_RADIUS,
-  CoordinationType$1.EMBEDDING_OBS_OPACITY
+  CoordinationType$1.EMBEDDING_OBS_OPACITY,
+  CoordinationType$1.FEATURE_AGGREGATION_STRATEGY
 ];
 const note = "This file is autogenerated by .changeset/post-changelog.mjs.";
-const version = "3.5.9";
-const date = "2025-03-12";
+const version = "3.5.11";
+const date = "2025-04-03";
 const branch = "changeset-release/main";
-const hash = "7ec4174e";
+const hash = "8043908f";
 const META_VERSION = {
   note,
   version,
@@ -28834,6 +28838,7 @@ z.object({
   termColumn: z.string().optional(),
   pValueColumn: z.string(),
   pValueAdjusted: z.boolean().optional(),
+  featureSetLibrary: z.string().optional().describe("Optionally, provide a feature set library name. By default, Reactome_2022."),
   analysisType: z.string().optional().describe("Optionally, provide an analysis_type name. By default, pertpy_hypergeometric.")
 });
 z.object({
@@ -28844,7 +28849,6 @@ z.object({
   foldChangeColumn: z.string().describe("The log-fold change is then calculated between this expected sample and the expected sample with no active covariates from the intercept section."),
   foldChangeTransformation: z.enum(["log2"]).optional(),
   isCredibleEffectColumn: z.string().describe("Column which annotates effects as being credible or not (boolean)."),
-  covariateColumn: z.string().describe("Column which defines the covariate used in the analysis."),
   analysisType: z.string().optional().describe("Optionally, provide an analysis_type name. By default, sccoda_df.")
 });
 const annDataObsLabels = annDataObs;
@@ -37803,7 +37807,14 @@ function useColumnNameMapping(loader, reverse = false) {
       const optionsArray = loader.options.obsSets ? loader.options.obsSets : loader.options.sampleSets;
       optionsArray.forEach((optionObject) => {
         const { name, path } = optionObject;
-        const columnName = path.split("/").at(-1);
+        let columnName;
+        if (optionObject.column) {
+          columnName = optionObject.column;
+        } else if (path) {
+          columnName = path.split("/").at(-1);
+        } else {
+          columnName = name;
+        }
         result[name] = columnName;
       });
     }
@@ -38065,7 +38076,6 @@ const useTitleStyles = makeStyles((theme) => ({
     border: `${theme.cardBorderSize} solid ${theme.palette.cardBorder}`,
     flex: "1 1 auto",
     minHeight: "1px",
-    padding: "12px",
     marginTop: "8px",
     marginBottom: "8px",
     position: "relative",
@@ -38076,6 +38086,12 @@ const useTitleStyles = makeStyles((theme) => ({
     backgroundClip: "border-box",
     borderRadius: "4px"
   },
+  paddingCard: {
+    padding: "12px"
+  },
+  noPaddingCard: {
+    padding: 0
+  },
   noScrollCard: {
     backgroundColor: theme.palette.secondaryBackground,
     color: theme.palette.secondaryForeground
@@ -38992,7 +39008,8 @@ function TitleInfo(props) {
     options,
     closeButtonVisible = true,
     downloadButtonVisible = true,
-    helpText
+    helpText,
+    withPadding = true
   } = props;
   const classes = useTitleStyles();
   return (
@@ -39037,7 +39054,9 @@ function TitleInfo(props) {
             {
               [classes.scrollCard]: isScroll,
               [classes.spatialCard]: isSpatial,
-              [classes.noScrollCard]: !isScroll && !isSpatial
+              [classes.noScrollCard]: !isScroll && !isSpatial,
+              [classes.noPaddingCard]: !withPadding,
+              [classes.paddingCard]: withPadding
             }
           ),
           "aria-busy": !isReady,

package/dist-tsc/TitleInfo.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"TitleInfo.d.ts","sourceRoot":"","sources":["../src/TitleInfo.js"],"names":[],"mappings":"AA8JA,mDA2DC"}
+{"version":3,"file":"TitleInfo.d.ts","sourceRoot":"","sources":["../src/TitleInfo.js"],"names":[],"mappings":"AA8JA,mDA6DC"}

package/dist-tsc/TitleInfo.js

@@ -80,7 +80,7 @@ function ClosePaneButton(props) {
     return (_jsx(IconButton, { onClick: removeGridComponent, size: "small", className: classes.iconButton, title: "close", "aria-label": "Close panel button", children: _jsx(CloseIcon, {}) }));
 }
 export function TitleInfo(props) {
-    const { title, info, children, isScroll, isSpatial, removeGridComponent, urls, isReady, options, closeButtonVisible = true, downloadButtonVisible = true, helpText, } = props;
+    const { title, info, children, isScroll, isSpatial, removeGridComponent, urls, isReady, options, closeButtonVisible = true, downloadButtonVisible = true, helpText, withPadding = true, } = props;
     const classes = useTitleStyles();
     return (
     // d-flex without wrapping div is not always full height; I don't understand the root cause.
@@ -88,6 +88,8 @@ export function TitleInfo(props) {
                     [classes.scrollCard]: isScroll,
                     [classes.spatialCard]: isSpatial,
                     [classes.noScrollCard]: !isScroll && !isSpatial,
+                    [classes.noPaddingCard]: !withPadding,
+                    [classes.paddingCard]: withPadding,
                 }), "aria-busy": !isReady, role: "main", children: [!isReady ? _jsx(LoadingIndicator, {}) : null, children] })] })
     // "pl-2" only matters when the window is very narrow.
     );

package/dist-tsc/hooks.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"hooks.d.ts","sourceRoot":"","sources":["../src/hooks.js"],"names":[],"mappings":"AAqBA,oDAOC;AAED;;;;GAIG;AACH,uCAHa,KAAK,CAmBjB;AAED;;;;GAIG;AACH,mCAHa,KAAK,CAoCjB;AAED;;;;;GAKG;AACH,qCAJa,KAAK,CAqCjB;AAED;;;;;;GAMG;AACH,uCAHW,MAAM,EAAE,GACN,OAAO,CAOnB;AAED;;;;GAIG;AACH,8BAHW,CAAC,IAAI,GAAC,MAAM,EAAE,CAAC,EAAE,GACf,KAAK,CAYjB;AAED;;;;;;GAMG;AACH,qDAJW,GAAG,GACD,KAAK,CA0BjB;AAED;;;;;;;;;;GAUG;AACH,+DARG;IAAuB,gBAAgB,EAA/B,MAAM;CAEd,GAAU,KAAK,CAmBjB;AAED;;;;;;;;;;;;;;;GAeG;AACH,yDAbW,YAAY,EAAE,GAAG,IAAI,GAInB;IACZ,QAAW,EAAE,UAAU,EAAE,GAAG,IAAI,CAAC;IACjC,OAAU,EAAE,CAAC,MAAM,EAAE,MAAM,CAAC,EAAE,GAAG,IAAI,CAAC;IACtC,OAAU,EAAE,MAAM,EAAE,CAAA;CACjB,CAwBH;AAED;;;;QA2BC;AAED,iEAOC;AAED,kHA4BC;AAED;;;;;;;;;;GAUG;AACH,yDALW,MAAM,oBACN,gBAAI,IAAI,iBAEN;IAAE,kBAAkB,EAAE,OAAO,CAAA;CAAE,GAAC,IAAI,CAkChD;AAED;;;;;;;GAOG;AACH,6CALW,GAAC,YACD,CAAC,OAAO,CAAC,GAEP,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAuBlC"}
+{"version":3,"file":"hooks.d.ts","sourceRoot":"","sources":["../src/hooks.js"],"names":[],"mappings":"AAqBA,oDAOC;AAED;;;;GAIG;AACH,uCAHa,KAAK,CAmBjB;AAED;;;;GAIG;AACH,mCAHa,KAAK,CAoCjB;AAED;;;;;GAKG;AACH,qCAJa,KAAK,CAqCjB;AAED;;;;;;GAMG;AACH,uCAHW,MAAM,EAAE,GACN,OAAO,CAOnB;AAED;;;;GAIG;AACH,8BAHW,CAAC,IAAI,GAAC,MAAM,EAAE,CAAC,EAAE,GACf,KAAK,CAYjB;AAED;;;;;;GAMG;AACH,qDAJW,GAAG,GACD,KAAK,CA0BjB;AAED;;;;;;;;;;GAUG;AACH,+DARG;IAAuB,gBAAgB,EAA/B,MAAM;CAEd,GAAU,KAAK,CAmBjB;AAED;;;;;;;;;;;;;;;GAeG;AACH,yDAbW,YAAY,EAAE,GAAG,IAAI,GAInB;IACZ,QAAW,EAAE,UAAU,EAAE,GAAG,IAAI,CAAC;IACjC,OAAU,EAAE,CAAC,MAAM,EAAE,MAAM,CAAC,EAAE,GAAG,IAAI,CAAC;IACtC,OAAU,EAAE,MAAM,EAAE,CAAA;CACjB,CAwBH;AAED;;;;QA2BC;AAED,iEAOC;AAED,kHA4BC;AAED;;;;;;;;;;GAUG;AACH,yDALW,MAAM,oBACN,gBAAI,IAAI,iBAEN;IAAE,kBAAkB,EAAE,OAAO,CAAA;CAAE,GAAC,IAAI,CAkChD;AAED;;;;;;;GAOG;AACH,6CALW,GAAC,YACD,CAAC,OAAO,CAAC,GAEP,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CA8BlC"}

package/dist-tsc/hooks.js

@@ -333,7 +333,16 @@ export function useColumnNameMapping(loader, reverse = false) {
                 : loader.options.sampleSets;
             optionsArray.forEach((optionObject) => {
                 const { name, path } = optionObject;
-                const columnName = path.split('/').at(-1);
+                let columnName;
+                if (optionObject.column) {
+                    columnName = optionObject.column;
+                }
+                else if (path) {
+                    columnName = path.split('/').at(-1);
+                }
+                else {
+                    columnName = name;
+                }
                 result[name] = columnName;
             });
         }

package/dist-tsc/title-styles.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"title-styles.d.ts","sourceRoot":"","sources":["../src/title-styles.js"],"names":[],"mappings":"AAEA,gHAsEI"}
+{"version":3,"file":"title-styles.d.ts","sourceRoot":"","sources":["../src/title-styles.js"],"names":[],"mappings":"AAEA,gHA2EI"}

package/dist-tsc/title-styles.js

@@ -39,7 +39,6 @@ export const useTitleStyles = makeStyles(theme => ({
         border: `${theme.cardBorderSize} solid ${theme.palette.cardBorder}`,
         flex: '1 1 auto',
         minHeight: '1px',
-        padding: '12px',
         marginTop: '8px',
         marginBottom: '8px',
         position: 'relative',
@@ -50,6 +49,12 @@ export const useTitleStyles = makeStyles(theme => ({
         backgroundClip: 'border-box',
         borderRadius: '4px',
     },
+    paddingCard: {
+        padding: '12px',
+    },
+    noPaddingCard: {
+        padding: 0,
+    },
     noScrollCard: {
         backgroundColor: theme.palette.secondaryBackground,
         color: theme.palette.secondaryForeground,

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@vitessce/vit-s",
-  "version": "3.5.9",
+  "version": "3.5.11",
   "author": "HIDIVE Lab at HMS",
   "homepage": "http://vitessce.io",
   "repository": {
@@ -30,14 +30,14 @@
     "zustand": "^3.5.10",
     "react-aria": "^3.28.0",
     "react-error-boundary": "^5.0.0",
-    "@vitessce/abstract": "3.5.9",
-    "@vitessce/constants-internal": "3.5.9",
-    "@vitessce/plugins": "3.5.9",
-    "@vitessce/schemas": "3.5.9",
-    "@vitessce/utils": "3.5.9",
-    "@vitessce/sets-utils": "3.5.9",
-    "@vitessce/config": "3.5.9",
-    "@vitessce/globals": "3.5.9"
+    "@vitessce/abstract": "3.5.11",
+    "@vitessce/constants-internal": "3.5.11",
+    "@vitessce/plugins": "3.5.11",
+    "@vitessce/schemas": "3.5.11",
+    "@vitessce/utils": "3.5.11",
+    "@vitessce/sets-utils": "3.5.11",
+    "@vitessce/config": "3.5.11",
+    "@vitessce/globals": "3.5.11"
   },
   "devDependencies": {
     "@testing-library/jest-dom": "^5.16.4",
@@ -45,7 +45,7 @@
     "react": "^18.0.0",
     "vite": "^4.3.0",
     "vitest": "^0.32.2",
-    "@vitessce/types": "3.5.9"
+    "@vitessce/types": "3.5.11"
   },
   "peerDependencies": {
     "react": "^16.8.0 || ^17.0.0 || ^18.0.0"

package/src/TitleInfo.js

@@ -160,7 +160,7 @@ export function TitleInfo(props) {
   const {
     title, info, children, isScroll, isSpatial, removeGridComponent, urls,
     isReady, options, closeButtonVisible = true, downloadButtonVisible = true,
-    helpText,
+    helpText, withPadding = true,
   } = props;
 
   const classes = useTitleStyles();
@@ -204,6 +204,8 @@ export function TitleInfo(props) {
             [classes.scrollCard]: isScroll,
             [classes.spatialCard]: isSpatial,
             [classes.noScrollCard]: !isScroll && !isSpatial,
+            [classes.noPaddingCard]: !withPadding,
+            [classes.paddingCard]: withPadding,
           },
         )}
         aria-busy={!isReady}

package/src/hooks.js

@@ -388,7 +388,14 @@ export function useColumnNameMapping(loader, reverse = false) {
         : loader.options.sampleSets;
       optionsArray.forEach((optionObject) => {
         const { name, path } = optionObject;
-        const columnName = path.split('/').at(-1);
+        let columnName;
+        if (optionObject.column) {
+          columnName = optionObject.column;
+        } else if (path) {
+          columnName = path.split('/').at(-1);
+        } else {
+          columnName = name;
+        }
         result[name] = columnName;
       });
     }

package/src/title-styles.js

@@ -40,7 +40,6 @@ export const useTitleStyles = makeStyles(theme => ({
     border: `${theme.cardBorderSize} solid ${theme.palette.cardBorder}`,
     flex: '1 1 auto',
     minHeight: '1px',
-    padding: '12px',
     marginTop: '8px',
     marginBottom: '8px',
     position: 'relative',
@@ -51,6 +50,12 @@ export const useTitleStyles = makeStyles(theme => ({
     backgroundClip: 'border-box',
     borderRadius: '4px',
   },
+  paddingCard: {
+    padding: '12px',
+  },
+  noPaddingCard: {
+    padding: 0,
+  },
   noScrollCard: {
     backgroundColor: theme.palette.secondaryBackground,
     color: theme.palette.secondaryForeground,