@vitessce/all 3.6.13 → 3.6.14

package/dist/{ReactNeuroglancer-D4Xivd2K.js → ReactNeuroglancer-BCLqTed3.js}

@@ -1,4 +1,4 @@
-import { g as getDefaultExportFromCjs, aV as requireAssign, aW as require_export, aX as require_core, aY as require_fails, aZ as require_toObject, a_ as require_objectKeys, a$ as require_cof, b0 as require_wks, b1 as require_iterators, b2 as requireWeb_dom_iterable, b3 as requireEs6_string_iterator, b4 as require_anObject, b5 as require_hide, b6 as require_ctx, b7 as require_toLength, b8 as require_global, b9 as require_objectDp, ba as require_descriptors, bb as require_isObject, bc as require_objectCreate, bd as require_iterDefine, be as require_iterStep, bf as require_meta, bg as require_isArray, bh as require_iobject, bi as require_setToStringTag, bj as require_aFunction, bk as requireIterator, bl as require_propertyDesc, aS as commonjsGlobal, bm as requireEs6_symbol, bn as requireDefineProperty, bo as require_toIobject, bp as require_objectGopd, bq as require_html, br as require_domCreate, bs as require_library, bt as requireSymbol, bu as require_objectPie, bv as require_has, bw as require_redefine, bx as require_objectAssign, by as getAugmentedNamespace, bz as requirePropTypes, aI as jsxRuntimeExports } from "./index-DcZv7teI.js";
+import { g as getDefaultExportFromCjs, aV as requireAssign, aW as require_export, aX as require_core, aY as require_fails, aZ as require_toObject, a_ as require_objectKeys, a$ as require_cof, b0 as require_wks, b1 as require_iterators, b2 as requireWeb_dom_iterable, b3 as requireEs6_string_iterator, b4 as require_anObject, b5 as require_hide, b6 as require_ctx, b7 as require_toLength, b8 as require_global, b9 as require_objectDp, ba as require_descriptors, bb as require_isObject, bc as require_objectCreate, bd as require_iterDefine, be as require_iterStep, bf as require_meta, bg as require_isArray, bh as require_iobject, bi as require_setToStringTag, bj as require_aFunction, bk as requireIterator, bl as require_propertyDesc, aS as commonjsGlobal, bm as requireEs6_symbol, bn as requireDefineProperty, bo as require_toIobject, bp as require_objectGopd, bq as require_html, br as require_domCreate, bs as require_library, bt as requireSymbol, bu as require_objectPie, bv as require_has, bw as require_redefine, bx as require_objectAssign, by as getAugmentedNamespace, bz as requirePropTypes, aI as jsxRuntimeExports } from "./index-CHatE_p-.js";
 import React__default from "react";
 var lib = {};
 var assignExports = requireAssign();

package/dist/{deflate-B2CAUF5S.js → deflate-Bt_dyQeb.js}

@@ -1,5 +1,5 @@
 import { i as inflate_1 } from "./pako.esm-SxljTded.js";
-import { aP as BaseDecoder } from "./index-DcZv7teI.js";
+import { aP as BaseDecoder } from "./index-CHatE_p-.js";
 class DeflateDecoder extends BaseDecoder {
   decodeBlock(buffer) {
     return inflate_1(new Uint8Array(buffer)).buffer;

package/dist/{higlass-DNEa7gM7.js → higlass-DISnb5Ei.js}

@@ -1,7 +1,7 @@
 import * as React$7 from "react";
 import React__default, { isValidElement, PureComponent, Component, createElement, createContext, createRef } from "react";
 import ReactDOM__default, { findDOMNode as findDOMNode$1 } from "react-dom";
-import { aS as commonjsGlobal$1, aT as requireObjectAssign, g as getDefaultExportFromCjs$1, aU as earcut } from "./index-DcZv7teI.js";
+import { aS as commonjsGlobal$1, aT as requireObjectAssign, g as getDefaultExportFromCjs$1, aU as earcut } from "./index-CHatE_p-.js";
 var promise = {};
 var hasRequiredPromise;
 function requirePromise() {

package/dist/{index-DG6RbZza.js → index-07ia_ScM.js}

@@ -1,4 +1,4 @@
-import { g as getDefaultExportFromCjs, R as Raycaster, O as OrthographicCamera, P as PerspectiveCamera, S as Scene, a as PCFSoftShadowMap, V as VSMShadowMap, b as PCFShadowMap, B as BasicShadowMap, N as NoToneMapping, A as ACESFilmicToneMapping, c as Vector3, d as Vector2, C as Clock, W as WebGLRenderer, e as Camera, f as BufferGeometry, M as Material, L as Layers, T as Texture, h as RGBAFormat, U as UnsignedByteType, i as Color, _ as _extends, j as THREE, G as Group, k as Matrix4, l as TrianglesDrawMode, m as TriangleFanDrawMode, n as TriangleStripDrawMode, o as REVISION, E as EventDispatcher, p as MOUSE, q as TOUCH, r as Spherical, Q as Quaternion, s as Ray$1, t as Plane, u as Loader, v as LoaderUtils, F as FileLoader, w as MeshPhysicalMaterial, x as SpotLight, y as PointLight, D as DirectionalLight, I as InstancedMesh, z as Object3D, H as TextureLoader, J as ImageBitmapLoader, K as BufferAttribute, X as InterleavedBuffer, Y as LinearMipmapLinearFilter, Z as NearestMipmapLinearFilter, $ as LinearMipmapNearestFilter, a0 as NearestMipmapNearestFilter, a1 as LinearFilter, a2 as NearestFilter, a3 as RepeatWrapping, a4 as MirroredRepeatWrapping, a5 as ClampToEdgeWrapping, a6 as PointsMaterial, a7 as LineBasicMaterial, a8 as MeshStandardMaterial, a9 as DoubleSide, aa as MeshBasicMaterial, ab as PropertyBinding, ac as SkinnedMesh, ad as Mesh, ae as LineSegments, af as Line$1, ag as LineLoop, ah as Points, ai as MathUtils, aj as Skeleton, ak as InterpolateDiscrete, al as InterpolateLinear, am as AnimationClip, an as Bone, ao as InterleavedBufferAttribute, ap as VectorKeyframeTrack, aq as QuaternionKeyframeTrack, ar as NumberKeyframeTrack, as as FrontSide, at as Interpolant, au as Box3, av as Sphere, aw as InstancedBufferGeometry, ax as Float32BufferAttribute, ay as InstancedInterleavedBuffer, az as WireframeGeometry, aA as ShaderMaterial, aB as UniformsUtils, aC as UniformsLib, aD as Vector4, aE as Line3, aF as SphereGeometry, aG as Triangle, aH as BackSide, aI as jsxRuntimeExports, aJ as Matrix3, aK as CoordinationType, aL as Data3DTexture, aM as RedFormat, aN as FloatType, aO as getImageSize } from "./index-DcZv7teI.js";
+import { g as getDefaultExportFromCjs, R as Raycaster, O as OrthographicCamera, P as PerspectiveCamera, S as Scene, a as PCFSoftShadowMap, V as VSMShadowMap, b as PCFShadowMap, B as BasicShadowMap, N as NoToneMapping, A as ACESFilmicToneMapping, c as Vector3, d as Vector2, C as Clock, W as WebGLRenderer, e as Camera, f as BufferGeometry, M as Material, L as Layers, T as Texture, h as RGBAFormat, U as UnsignedByteType, i as Color, _ as _extends, j as THREE, G as Group, k as Matrix4, l as TrianglesDrawMode, m as TriangleFanDrawMode, n as TriangleStripDrawMode, o as REVISION, E as EventDispatcher, p as MOUSE, q as TOUCH, r as Spherical, Q as Quaternion, s as Ray$1, t as Plane, u as Loader, v as LoaderUtils, F as FileLoader, w as MeshPhysicalMaterial, x as SpotLight, y as PointLight, D as DirectionalLight, I as InstancedMesh, z as Object3D, H as TextureLoader, J as ImageBitmapLoader, K as BufferAttribute, X as InterleavedBuffer, Y as LinearMipmapLinearFilter, Z as NearestMipmapLinearFilter, $ as LinearMipmapNearestFilter, a0 as NearestMipmapNearestFilter, a1 as LinearFilter, a2 as NearestFilter, a3 as RepeatWrapping, a4 as MirroredRepeatWrapping, a5 as ClampToEdgeWrapping, a6 as PointsMaterial, a7 as LineBasicMaterial, a8 as MeshStandardMaterial, a9 as DoubleSide, aa as MeshBasicMaterial, ab as PropertyBinding, ac as SkinnedMesh, ad as Mesh, ae as LineSegments, af as Line$1, ag as LineLoop, ah as Points, ai as MathUtils, aj as Skeleton, ak as InterpolateDiscrete, al as InterpolateLinear, am as AnimationClip, an as Bone, ao as InterleavedBufferAttribute, ap as VectorKeyframeTrack, aq as QuaternionKeyframeTrack, ar as NumberKeyframeTrack, as as FrontSide, at as Interpolant, au as Box3, av as Sphere, aw as InstancedBufferGeometry, ax as Float32BufferAttribute, ay as InstancedInterleavedBuffer, az as WireframeGeometry, aA as ShaderMaterial, aB as UniformsUtils, aC as UniformsLib, aD as Vector4, aE as Line3, aF as SphereGeometry, aG as Triangle, aH as BackSide, aI as jsxRuntimeExports, aJ as Matrix3, aK as CoordinationType, aL as Data3DTexture, aM as RedFormat, aN as FloatType, aO as getImageSize } from "./index-CHatE_p-.js";
 import * as React from "react";
 import React__default, { useReducer, useRef, useEffect, useLayoutEffect, useDebugValue, useState, useMemo, forwardRef } from "react";
 var constants = { exports: {} };
@@ -23637,7 +23637,7 @@ const Text = /* @__PURE__ */ React.forwardRef(({
   const {
     Text: TextMeshImpl,
     preloadFont
-  } = suspend(async () => import("./troika-three-text.esm-DLsbwboO.js"), []);
+  } = suspend(async () => import("./troika-three-text.esm-CheqkRn_.js"), []);
   const invalidate2 = useThree(({
     invalidate: invalidate3
   }) => invalidate3);

package/dist/{index-DcZv7teI.js → index-CHatE_p-.js}

@@ -9169,6 +9169,7 @@ const FileType$1 = {
   OBS_SPOTS_SPATIALDATA_ZARR: "obsSpots.spatialdata.zarr",
   FEATURE_LABELS_SPATIALDATA_ZARR: "featureLabels.spatialdata.zarr",
   OBS_POINTS_SPATIALDATA_ZARR: "obsPoints.spatialdata.zarr",
+  OBS_EMBEDDING_SPATIALDATA_ZARR: "obsEmbedding.spatialdata.zarr",
   // SpatialData - zipped
   IMAGE_SPATIALDATA_ZARR_ZIP: "image.spatialdata.zarr.zip",
   LABELS_SPATIALDATA_ZARR_ZIP: "labels.spatialdata.zarr.zip",
@@ -9178,6 +9179,7 @@ const FileType$1 = {
   OBS_SPOTS_SPATIALDATA_ZARR_ZIP: "obsSpots.spatialdata.zarr.zip",
   FEATURE_LABELS_SPATIALDATA_ZARR_ZIP: "featureLabels.spatialdata.zarr.zip",
   OBS_POINTS_SPATIALDATA_ZARR_ZIP: "obsPoints.spatialdata.zarr.zip",
+  OBS_EMBEDDING_SPATIALDATA_ZARR_ZIP: "obsEmbedding.spatialdata.zarr.zip",
   // MuData
   OBS_FEATURE_MATRIX_MUDATA_ZARR: "obsFeatureMatrix.mudata.zarr",
   OBS_SETS_MUDATA_ZARR: "obsSets.mudata.zarr",
@@ -9455,6 +9457,7 @@ const ViewHelpMapping = {
   [FileType$1.OBS_SETS_SPATIALDATA_ZARR]: DataType$3.OBS_SETS,
   [FileType$1.FEATURE_LABELS_SPATIALDATA_ZARR]: DataType$3.FEATURE_LABELS,
   [FileType$1.OBS_POINTS_SPATIALDATA_ZARR]: DataType$3.OBS_POINTS,
+  [FileType$1.OBS_EMBEDDING_SPATIALDATA_ZARR]: DataType$3.OBS_EMBEDDING,
   // For new file types to support old file types
   [FileType$1.OBS_EMBEDDING_CELLS_JSON]: DataType$3.OBS_EMBEDDING,
   [FileType$1.OBS_LOCATIONS_CELLS_JSON]: DataType$3.OBS_LOCATIONS,
@@ -9631,6 +9634,9 @@ const ALT_ZARR_STORE_TYPES = {
   },
   [FileType$1.OBS_POINTS_SPATIALDATA_ZARR]: {
     zip: FileType$1.OBS_POINTS_SPATIALDATA_ZARR_ZIP
+  },
+  [FileType$1.OBS_EMBEDDING_SPATIALDATA_ZARR]: {
+    zip: FileType$1.OBS_EMBEDDING_SPATIALDATA_ZARR_ZIP
   }
 };
 [
@@ -10744,6 +10750,16 @@ const obsSetsSpatialdataSchema = z.object({
   tablePath: z.string().optional().describe("The path to a table which contains the index for the set values."),
   obsSets: annDataObsSetsArr
 });
+const obsEmbeddingSpatialdataSchema = annDataObsEmbedding.extend({
+  // We extend anndataObsEmbedding which already has properties like `dims` and `path`.
+  region: z.string().describe("The name of a region to use to filter instances (i.e., rows) in the table").optional(),
+  tablePath: z.string().optional().describe("The path to a table which contains the index for the set values.")
+});
+const obsEmbeddingSpatialdataSchemaConvenience = z.union([
+  annDataObsEmbedding,
+  // For convenience, allow an array of items with `embeddingType` properties.
+  z.array(annDataConvenienceObsEmbeddingItem)
+]);
 const meshGlbSchema = z.object({
   targetX: z.number(),
   targetY: z.number(),
@@ -10868,9 +10884,10 @@ const spatialdataZarrSchema = z.object({
   // TODO: obsPoints
   // TODO: obsLocations
   obsSets: obsSetsSpatialdataSchema,
-  // TODO: obsEmbedding
+  obsEmbedding: obsEmbeddingSpatialdataSchemaConvenience,
   // TODO: obsLabels
   // TODO: featureLabels
+  // TODO: allow specifying tablePath and region at the top-level here.
   coordinateSystem: z.string().optional().describe("The name of a coordinate transformation output used to transform all elements which lack a per-element coordinateSystem property.")
 }).partial();
 const cellsJsonSchema = z.object({
@@ -19082,7 +19099,7 @@ const { tss } = createTss({
   },
   "usePlugin": useMuiThemeStyleOverridesPlugin
 });
-const useStyles$u = tss.create({});
+const useStyles$v = tss.create({});
 function chainPropTypes(propType1, propType2) {
   return function validate2(...args) {
     return propType1(...args) || propType2(...args);
@@ -73141,7 +73158,7 @@ const Popper = React.forwardRef((props, ref2) => {
   }, [handlePopperRef]);
   React.useImperativeHandle(popperRefProp, () => popperRef.current, []);
   const [exited, setExited] = React.useState(true);
-  const { theme } = useStyles$u();
+  const { theme } = useStyles$v();
   const rtlPlacement = flipPlacement(initialPlacement, theme);
   const [placement, setPlacement] = React.useState(rtlPlacement);
   React.useEffect(() => {
@@ -82788,7 +82805,7 @@ function defaultUrlTransform(value2) {
   }
   return "";
 }
-const useStyles$t = makeStyles()((theme) => ({
+const useStyles$u = makeStyles()((theme) => ({
   description: {
     "& p, details, table": {
       fontSize: "80%",
@@ -82825,7 +82842,7 @@ const useStyles$t = makeStyles()((theme) => ({
 }));
 function Description(props) {
   const { description: description2, metadata: metadata2, descriptionType } = props;
-  const { classes: classes2 } = useStyles$t();
+  const { classes: classes2 } = useStyles$u();
   return jsxRuntimeExports.jsxs("div", { className: classes2.description, children: [descriptionType && descriptionType === DescriptionType.MARKDOWN ? jsxRuntimeExports.jsx(Markdown, { children: description2 }) : jsxRuntimeExports.jsx("p", { children: description2 }), metadata2 && Array.from(metadata2.entries()).map(([layerIndex, { name: layerName, metadata: metadataRecord }]) => metadataRecord && Object.entries(metadataRecord).length > 0 ? jsxRuntimeExports.jsxs("details", { children: [jsxRuntimeExports.jsx("summary", { children: layerName }), jsxRuntimeExports.jsx("div", { className: classes2.metadataContainer, children: jsxRuntimeExports.jsx("table", { children: jsxRuntimeExports.jsx("tbody", { children: Object.entries(metadataRecord).map(([key2, value2]) => jsxRuntimeExports.jsxs("tr", { children: [jsxRuntimeExports.jsx("th", { title: key2, children: key2 }), jsxRuntimeExports.jsx("td", { title: value2, children: value2 })] }, key2)) }) }) })] }, layerIndex) : null)] });
 }
 function DescriptionSubscriber(props) {
@@ -97924,7 +97941,7 @@ const Tooltip$2 = /* @__PURE__ */ React.forwardRef((props, ref2) => {
   }, extraProps), getChildren());
 });
 const nodeHeight = 32;
-const useStyles$s = makeStyles()((theme) => ({
+const useStyles$t = makeStyles()((theme) => ({
   setsManager: {
     position: "relative",
     width: "100%",
@@ -98091,7 +98108,7 @@ const useStyles$s = makeStyles()((theme) => ({
 }));
 function SetsManagerTreeGlobalStyles(props) {
   const { classes: classes2 } = props;
-  const { theme } = useStyles$u();
+  const { theme } = useStyles$v();
   return jsxRuntimeExports.jsx(ScopedGlobalStyles, { parentClassName: classes2.setsManagerTree, styles: {
     ".rc-tree": {
       paddingLeft: "0",
@@ -98432,7 +98449,7 @@ function HelpTooltipGlobalStyles(props) {
 }
 function PopoverGlobalStyles(props) {
   const { classes: classes2 } = props;
-  const { theme } = useStyles$u();
+  const { theme } = useStyles$v();
   return jsxRuntimeExports.jsx(ScopedGlobalStyles, { parentClassName: classes2.popover, styles: {
     ".rc-tooltip-inner": {
       boxSizing: "border-box",
@@ -103116,7 +103133,7 @@ function NamedSetNodeStatic(props) {
   const onClick = level === 0 && !expanded ? () => onCheckLevel(nodeKey, nextLevelToCheck) : () => onNodeView(path2);
   const tooltipProps = disableTooltip ? { visible: false } : {};
   const popoverMenuConfig = makeNodeViewMenuConfig(props);
-  const { classes: classes2 } = useStyles$s();
+  const { classes: classes2 } = useStyles$t();
   return jsxRuntimeExports.jsxs("span", { children: [jsxRuntimeExports.jsx(HelpTooltip, { title: tooltipText, ...tooltipProps, children: jsxRuntimeExports.jsx("button", { type: "button", onClick, onKeyPress: (e3) => callbackOnKeyPress(e3, "v", () => onNodeView(path2)), className: classes2.titleButton, children: title2 }) }), popoverMenuConfig.length > 0 ? jsxRuntimeExports.jsx(PopoverMenu, { menuConfig: makeNodeViewMenuConfig(props), color: level > 0 && editable ? color2 || getDefaultColor(theme) : null, setColor: (c2) => onNodeSetColor(path2, c2), children: jsxRuntimeExports.jsx("span", { children: jsxRuntimeExports.jsx(SvgMenu, { className: classes2.nodeMenuIcon, "aria-label": "Open Node View Menu" }) }) }) : null, level > 0 && isChecking ? checkbox2 : null, level > 0 && jsxRuntimeExports.jsx("span", { className: classes2.nodeSizeLabel, children: niceSize })] });
 }
 function NamedSetNodeEditing(props) {
@@ -103128,7 +103145,7 @@ function NamedSetNodeEditing(props) {
       onNodeSetName(path2, currentTitle, true);
     }
   }
-  const { classes: classes2 } = useStyles$s();
+  const { classes: classes2 } = useStyles$t();
   return jsxRuntimeExports.jsxs("span", { className: classes2.titleButtonWithInput, children: [jsxRuntimeExports.jsx("input", {
     // eslint-disable-next-line jsx-a11y/no-autofocus
     autoFocus: true,
@@ -103154,7 +103171,7 @@ function LevelsButtons(props) {
       onCheckLevel(nodeKey, newLevel);
     }
   }
-  const { classes: classes2 } = useStyles$s();
+  const { classes: classes2 } = useStyles$t();
   return jsxRuntimeExports.jsx("div", { className: classes2.levelButtonsContainer, children: range$e(1, height2 + 1).map((i2) => {
     const isChecked = isEqual$3(path2, checkedLevelPath) && i2 === checkedLevelIndex;
     return jsxRuntimeExports.jsx("div", { children: jsxRuntimeExports.jsx(HelpTooltip, { title: getLevelTooltipText(i2), children: jsxRuntimeExports.jsx("input", { className: clsx(classes2.levelRadioButton, { [classes2.levelRadioButtonChecked]: isChecked && !hasColorEncoding }), type: "checkbox", value: i2, checked: isChecked && hasColorEncoding, onChange: onCheck }) }) }, i2);
@@ -103241,7 +103258,7 @@ let TreeNode$1 = class TreeNode extends TreeNode$2 {
 };
 function PlusButton(props) {
   const { datatype, onError, onImportTree, onCreateLevelZeroNode, importable, editable } = props;
-  const { classes: classes2 } = useStyles$s();
+  const { classes: classes2 } = useStyles$t();
   const onImport = useCallback((importHandler, mimeType) => () => {
     const uploadInputNode = document.createElement("input");
     uploadInputNode.setAttribute("type", "file");
@@ -103359,7 +103376,7 @@ function SetsManager(props) {
       }, onNodeCheckNewName, onNodeSetIsEditing: setIsEditingNodeName, onNodeRemove, onExportLevelZeroNodeJSON, onExportLevelZeroNodeTabular, onExportSetJSON, disableTooltip: isDragging, onDragStart: () => setIsDragging(true), onDragEnd: () => setIsDragging(false), children: renderTreeNodes(node2.children, readOnly, newPath) }, pathToKey(newPath));
     });
   }
-  const { classes: classes2 } = useStyles$s();
+  const { classes: classes2 } = useStyles$t();
   return jsxRuntimeExports.jsxs("div", { className: classes2.setsManager, children: [jsxRuntimeExports.jsx(SetsManagerTreeGlobalStyles, { classes: classes2 }), jsxRuntimeExports.jsxs("div", { className: classes2.setsManagerTree, children: [jsxRuntimeExports.jsx(Tree$1, { draggable: false, checkable, checkedKeys: setSelectionKeys, expandedKeys: setExpansionKeys, autoExpandParent, onCheck: (checkedKeys, info2) => onCheckNode(info2.node.props.nodeKey, info2.checked), onExpand: (expandedKeys, info2) => onExpandNode(expandedKeys, info2.node.props.nodeKey, info2.expanded), children: renderTreeNodes(processedSets.tree, true, []) }), jsxRuntimeExports.jsx(Tree$1, { draggable: true, checkable, checkedKeys: additionalSetSelectionKeys, expandedKeys: additionalSetExpansionKeys, autoExpandParent, onCheck: (checkedKeys, info2) => onCheckNode(info2.node.props.nodeKey, info2.checked), onExpand: (expandedKeys, info2) => onExpandNode(expandedKeys, info2.node.props.nodeKey, info2.expanded), onDrop: (info2) => {
     const { eventKey: dropKey } = info2.node.props;
     const { eventKey: dragKey } = info2.dragNode.props;
@@ -209669,22 +209686,22 @@ async function getDecoder(fileDirectory) {
   const Decoder = await importFn();
   return new Decoder(fileDirectory);
 }
-addDecoder([void 0, 1], () => import("./raw-DqALOEt-.js").then((m2) => m2.default));
-addDecoder(5, () => import("./lzw-kKlj6Pam.js").then((m2) => m2.default));
+addDecoder([void 0, 1], () => import("./raw-C7WxxrTS.js").then((m2) => m2.default));
+addDecoder(5, () => import("./lzw-DfqXKt2J.js").then((m2) => m2.default));
 addDecoder(6, () => {
   throw new Error("old style JPEG compression is not supported.");
 });
-addDecoder(7, () => import("./jpeg-DY_DkYi3.js").then((m2) => m2.default));
-addDecoder([8, 32946], () => import("./deflate-B2CAUF5S.js").then((m2) => m2.default));
-addDecoder(32773, () => import("./packbits-DzhxlAeC.js").then((m2) => m2.default));
+addDecoder(7, () => import("./jpeg-D4jHWX80.js").then((m2) => m2.default));
+addDecoder([8, 32946], () => import("./deflate-Bt_dyQeb.js").then((m2) => m2.default));
+addDecoder(32773, () => import("./packbits-DefNknXY.js").then((m2) => m2.default));
 addDecoder(
   34887,
-  () => import("./lerc-Bz6jtDu9.js").then(async (m2) => {
+  () => import("./lerc-B8-eHLyr.js").then(async (m2) => {
     await m2.zstd.init();
     return m2;
   }).then((m2) => m2.default)
 );
-addDecoder(50001, () => import("./webimage-B46sb8Pc.js").then((m2) => m2.default));
+addDecoder(50001, () => import("./webimage-DIFjmNJy.js").then((m2) => m2.default));
 function copyNewSize(array2, width2, height2, samplesPerPixel = 1) {
   return new (Object.getPrototypeOf(array2)).constructor(width2 * height2 * samplesPerPixel);
 }
@@ -226453,7 +226470,7 @@ class ContourLayerWithText extends ContourLayer {
 }
 ContourLayerWithText.layerName = "ContourLayerWithText";
 ContourLayerWithText.defaultProps = defaultProps;
-const useStyles$r = makeStyles()(() => ({
+const useStyles$s = makeStyles()(() => ({
   toolButton: {
     display: "inline-flex",
     "&:active": {
@@ -226515,12 +226532,12 @@ const useStyles$r = makeStyles()(() => ({
 }));
 function IconTool(props) {
   const { alt, onClick, isActive: isActive2, children: children3 } = props;
-  const { classes: classes2 } = useStyles$r();
+  const { classes: classes2 } = useStyles$s();
   return jsxRuntimeExports.jsx("button", { className: clsx(classes2.toolIcon, { [classes2.toolActive]: isActive2 }), onClick, type: "button", title: alt, children: children3 });
 }
 function IconButton(props) {
   const { alt, onClick, children: children3 } = props;
-  const { classes: classes2 } = useStyles$r();
+  const { classes: classes2 } = useStyles$s();
   return jsxRuntimeExports.jsx("button", { className: clsx(classes2.toolIcon, classes2.toolButton), onClick, type: "button", title: alt, children: children3 });
 }
 function ToolMenu(props) {
@@ -226528,7 +226545,7 @@ function ToolMenu(props) {
   const lassoIconAltText = "Select lasso";
   const { setActiveTool, activeTool, visibleTools = { pan: true, selectLasso: true }, recenterOnClick = () => {
   } } = props;
-  const { classes: classes2 } = useStyles$r();
+  const { classes: classes2 } = useStyles$s();
   const onRecenterButtonCLick = () => {
     recenterOnClick();
   };
@@ -227697,7 +227714,7 @@ function ScatterplotOptions(props) {
     id: `feature-aggregation-strategy-${scatterplotOptionsId}`
   }, children: FEATURE_AGGREGATION_STRATEGIES$1.map((opt) => jsxRuntimeExports.jsx("option", { value: opt, children: capitalize$3(opt) }, opt)) }) })] }) : null] });
 }
-const useStyles$q = makeStyles()((theme) => ({
+const useStyles$r = makeStyles()((theme) => ({
   tooltipAnchor: {
     position: "relative",
     width: "0px",
@@ -227728,7 +227745,7 @@ const useStyles$q = makeStyles()((theme) => ({
 function Tooltip3(props) {
   const { x: x2, y: y2, parentWidth, parentHeight, children: children3 } = props;
   const ref2 = useRef();
-  const { classes: classes2 } = useStyles$q();
+  const { classes: classes2 } = useStyles$r();
   const [placementX, setPlacementX] = useState("start");
   const [placementY, setPlacementY] = useState("bottom");
   const getTooltipContainer = useVitessceContainer(ref2);
@@ -227744,7 +227761,7 @@ function Tooltip3(props) {
   }, [x2, y2, parentWidth, parentHeight]);
   return jsxRuntimeExports.jsx("div", { ref: ref2, className: classes2.tooltipAnchor, children: ref2 && ref2.current ? jsxRuntimeExports.jsx(Popper, { open: true, anchorEl: ref2.current, container: getTooltipContainer, transition: true, placement: `${placementY}-${placementX}`, children: jsxRuntimeExports.jsx(Paper, { elevation: 8, className: classes2.tooltipContent, children: children3 }) }) : null });
 }
-const useStyles$p = makeStyles()((theme) => ({
+const useStyles$q = makeStyles()((theme) => ({
   cellEmphasisCrosshair: {
     zIndex: 50,
     position: "absolute",
@@ -227755,7 +227772,7 @@ const useStyles$p = makeStyles()((theme) => ({
 }));
 function Tooltip2D(props) {
   const { parentUuid, sourceUuid, x: x2, y: y2, parentWidth, parentHeight, children: children3 } = props;
-  const { classes: classes2 } = useStyles$p();
+  const { classes: classes2 } = useStyles$q();
   if (x2 < 0 || x2 > parentWidth || y2 < 0 || y2 > parentHeight) {
     return null;
   }
@@ -231642,7 +231659,7 @@ function getXlinkHref(cmap) {
   const xlinkHref = ramp(color2.copy().domain(quantize$3(interpolate$1$1(0, 1), n3))).toDataURL();
   return xlinkHref;
 }
-const useStyles$o = makeStyles()(() => ({
+const useStyles$p = makeStyles()(() => ({
   legend: {
     top: "2px",
     right: "2px",
@@ -231730,7 +231747,7 @@ function combineMissings(missings, featureAggregationStrategy) {
 function Legend(props) {
   const { visible: visibleProp, positionRelative = false, highContrast = false, obsType, featureValueType, considerSelections = true, obsColorEncoding, featureSelection, featureLabelsMap, featureValueColormap, featureValueColormapRange, spatialChannelColor, spatialLayerColor, obsSetSelection, obsSetColor, featureAggregationStrategy, extent: extent2, missing, width: width2 = 100, height: height2 = 36, theme, showObsLabel = false, pointsVisible = true, contoursVisible = false, contoursFilled, contourPercentiles, contourThresholds } = props;
   const svgRef = useRef();
-  const { classes: classes2 } = useStyles$o();
+  const { classes: classes2 } = useStyles$p();
   const isDarkTheme = theme === "dark";
   const isStaticColor = obsColorEncoding === "spatialChannelColor" || obsColorEncoding === "spatialLayerColor";
   const isSetColor = obsColorEncoding === "cellSetSelection";
@@ -231825,6 +231842,8 @@ function Legend(props) {
       featureSelectionLabelRawStr = "Sum of features";
     } else if (featureAggregationStrategy === "mean") {
       featureSelectionLabelRawStr = "Mean of features";
+    } else {
+      featureSelectionLabelRawStr = featureSelectionLabelRaw == null ? void 0 : featureSelectionLabelRaw[0];
     }
     const combinedMissing = combineMissings(missing, featureAggregationStrategy);
     const featureSelectionLabel = combinedMissing ? `${featureSelectionLabelRawStr} (${Math.round(combinedMissing * 100)}% NaN)` : featureSelectionLabelRawStr;
@@ -231875,7 +231894,7 @@ function Legend(props) {
     height: `${dynamicHeight}px`
   } }) });
 }
-const useStyles$n = makeStyles()(() => ({
+const useStyles$o = makeStyles()(() => ({
   multiLegend: {
     position: "absolute",
     top: "0px",
@@ -231900,7 +231919,7 @@ function MultiLegend(props) {
     pointLayerScopes,
     pointLayerCoordination
   } = props;
-  const { classes: classes2 } = useStyles$n();
+  const { classes: classes2 } = useStyles$o();
   const reversedSegmentationLayerScopes = useMemo$1(() => [...segmentationLayerScopes || []].reverse(), [segmentationLayerScopes]);
   const reversedSpotLayerScopes = useMemo$1(() => [...spotLayerScopes || []].reverse(), [spotLayerScopes]);
   const reversedPointLayerScopes = useMemo$1(() => [...pointLayerScopes || []].reverse(), [pointLayerScopes]);
@@ -231974,7 +231993,7 @@ function MultiLegend(props) {
     }) : null;
   }) : null] });
 }
-const useStyles$m = makeStyles()(() => ({
+const useStyles$n = makeStyles()(() => ({
   channelNamesLegendContainer: {
     position: "absolute",
     bottom: "0px",
@@ -231997,7 +232016,7 @@ const useStyles$m = makeStyles()(() => ({
 }));
 function ChannelNamesLegend(props) {
   const { images, imageLayerScopes, imageLayerCoordination, imageChannelScopesByLayer, imageChannelCoordination } = props;
-  const { classes: classes2 } = useStyles$m();
+  const { classes: classes2 } = useStyles$n();
   const reversedImageLayerScopes = useMemo$1(() => [...imageLayerScopes || []].reverse(), [imageLayerScopes]);
   return jsxRuntimeExports.jsx("div", { className: classes2.channelNamesLegendContainer, children: imageLayerScopes ? reversedImageLayerScopes.map((layerScope) => {
     const layerCoordination = imageLayerCoordination[0][layerScope];
@@ -252465,11 +252484,11 @@ class Spatial2 extends AbstractSpatialOrScatterplot {
           obsColorEncoding,
           staticColor,
           layerColors
-        ]
+        ],
+        getExpressionValue: [getExpressionValue]
         /*
         getLineWidth: [stroked],
         isSelected: cellSelection,
-        getExpressionValue,
         getFillColor: [opacity, cellColorEncoding, cellSelection, cellColors],
         getLineColor: [cellColorEncoding, cellSelection, cellColors],
         getPolygon: [radius],
@@ -253560,7 +253579,7 @@ class ErrorBoundary extends React__default.Component {
   }
 }
 const LazySpatialThree = React__default.lazy(async () => {
-  const { SpatialWrapper: SpatialWrapper2 } = await import("./index-DG6RbZza.js");
+  const { SpatialWrapper: SpatialWrapper2 } = await import("./index-07ia_ScM.js");
   return { default: SpatialWrapper2 };
 });
 const SpatialThreeAdapter = React__default.forwardRef((props, ref2) => jsxRuntimeExports.jsx("div", { ref: ref2, style: { width: "100%", height: "100%" }, children: jsxRuntimeExports.jsx(ErrorBoundary, { children: jsxRuntimeExports.jsx(Suspense, { fallback: jsxRuntimeExports.jsx("div", { children: "Loading..." }), children: jsxRuntimeExports.jsx(LazySpatialThree, { ...props }) }) }) }));
@@ -261636,7 +261655,7 @@ _defineProperty$3(WindowScroller, "defaultProps", {
   serverHeight: 0,
   serverWidth: 0
 });
-const useStyles$l = makeStyles()((theme) => ({
+const useStyles$m = makeStyles()((theme) => ({
   selectableTable: {
     flex: "1 1 auto",
     outline: "none"
@@ -261669,7 +261688,8 @@ const useStyles$l = makeStyles()((theme) => ({
     flexBasis: 0,
     flexGrow: 1,
     textOverflow: "ellipsis",
-    whiteSpace: "nowrap"
+    whiteSpace: "nowrap",
+    paddingLeft: "10px"
   },
   inputContainer: {
     width: "1em",
@@ -261713,7 +261733,7 @@ const useStyles$l = makeStyles()((theme) => ({
 }));
 const SHIFT_KEYCODE = 16;
 function SelectableTable(props) {
-  const { hasColorEncoding, columns: columns2, columnLabels, data: data2, onChange, idKey = "id", valueKey = "value", allowMultiple = false, allowUncheck = false, showTableHead = true, showTableInputs = false, testHeight = void 0, testWidth = void 0 } = props;
+  const { hasColorEncoding, columns: columns2, columnLabels, data: data2, onChange, idKey = "id", valueKey = "value", allowMultiple = false, allowUncheck = false, showTableHead = true, showTableInputs = false, testHeight = void 0, testWidth = void 0, width: width2, height: height2 } = props;
   const [selectedRows, setSelectedRows] = useState(null);
   const [isCheckingMultiple, setIsCheckingMultiple] = useState(false);
   useEffect(() => {
@@ -261784,14 +261804,14 @@ function SelectableTable(props) {
       onChange(null);
     }
   }, [selectedRows, allowMultiple]);
-  const { classes: classes2 } = useStyles$l();
+  const { classes: classes2 } = useStyles$m();
   const inputUuid = v4$1();
   const rowRenderer = ({ index: index2, style: style2 }) => (
     // eslint-disable-next-line jsx-a11y/interactive-supports-focus
     jsxRuntimeExports.jsxs("div", { className: clsx(classes2.tableItem, classes2.tableRow, { "row-checked": isSelected(data2[index2][idKey]) }), style: style2, role: "button", onClick: () => onSelectRow(data2[index2][idKey], !isSelected(data2[index2][idKey]) || !hasColorEncoding), children: [jsxRuntimeExports.jsx("div", { className: clsx(classes2.inputContainer, classes2.tableCell, { [classes2.hiddenInputColumn]: !showTableInputs }), children: jsxRuntimeExports.jsx("label", { htmlFor: `${inputUuid}_${data2[index2][idKey]}`, children: jsxRuntimeExports.jsx("input", { id: `${inputUuid}_${data2[index2][idKey]}`, type: "checkbox", className: clsx(classes2.radioOrCheckbox, isCheckingMultiple ? classes2.tableCheckbox : classes2.tableRadio), name: inputUuid, value: data2[index2][idKey], onChange: handleInputChange, checked: isSelected(data2[index2][idKey]) }) }) }), columns2.map((column2) => jsxRuntimeExports.jsx("div", { className: classes2.tableCell, children: data2[index2][column2] }, column2))] }, data2[index2][idKey])
   );
   const headerRowRenderer = ({ style: style2 }) => jsxRuntimeExports.jsx("div", { className: classes2.tableRow, style: style2, children: columnLabels.map((columnLabel) => jsxRuntimeExports.jsx("div", { className: classes2.tableCell, style: { fontWeight: "bold" }, children: columnLabel }, columnLabel)) });
-  return jsxRuntimeExports.jsx("div", { className: classes2.selectableTable, children: jsxRuntimeExports.jsx(AutoSizer, { children: ({ width: width2, height: height2 }) => jsxRuntimeExports.jsx(Table$1, {
+  return jsxRuntimeExports.jsx("div", { className: classes2.selectableTable, children: jsxRuntimeExports.jsx(Table$1, {
     height: testHeight || height2,
     gridStyle: { outline: "none" },
     rowCount: data2.length,
@@ -261802,15 +261822,18 @@ function SelectableTable(props) {
     width: testWidth || width2,
     headerRowRenderer: showTableHead ? headerRowRenderer : void 0,
     rowGetter: ({ index: index2 }) => data2[index2]
-  }) }) });
+  }) });
 }
 const FEATURELIST_SORT_OPTIONS = [
   "alphabetical",
   "original"
 ];
 const ALT_COLNAME = "Alternate ID";
-const useStyles$k = makeStyles()(() => ({
+const useStyles$l = makeStyles()(() => ({
   searchBar: {
+    marginTop: "10px",
+    marginLeft: "10px",
+    marginRight: "10px",
     marginBottom: "4px",
     border: "0",
     padding: "2px",
@@ -261818,8 +261841,8 @@ const useStyles$k = makeStyles()(() => ({
   }
 }));
 function FeatureList(props) {
-  const { hasColorEncoding, geneList = [], featureLabelsMap, geneSelection = [], geneFilter = null, setGeneSelection, enableMultiSelect, showFeatureTable, featureListSort, featureListSortKey, hasFeatureLabels, primaryColumnName } = props;
-  const { classes: classes2 } = useStyles$k();
+  const { width: width2, height: height2, hasColorEncoding, geneList = [], featureLabelsMap, geneSelection = [], geneFilter = null, setGeneSelection, enableMultiSelect, showFeatureTable, featureListSort, featureListSortKey, hasFeatureLabels, primaryColumnName } = props;
+  const { classes: classes2 } = useStyles$l();
   const [searchTerm, setSearchTerm] = useState("");
   const [searchResults, setSearchResults] = useState(geneList);
   const selectableTableSortKey = featureListSortKey === "featureIndex" ? "key" : "name";
@@ -261876,7 +261899,7 @@ function FeatureList(props) {
       [primaryColumnName]
     ];
   }, [showFeatureTable, primaryColumnName, hasFeatureLabels]);
-  return jsxRuntimeExports.jsxs(jsxRuntimeExports.Fragment, { children: [jsxRuntimeExports.jsx("input", { className: classes2.searchBar, type: "text", placeholder: "Search", value: searchTerm, onChange: handleChange }), jsxRuntimeExports.jsx(SelectableTable, { columns: columns2, columnLabels, data: data2, hasColorEncoding, idKey: "key", valueKey: "value", onChange, allowMultiple: enableMultiSelect, allowUncheck: enableMultiSelect, showTableHead: columnLabels.length > 1 })] });
+  return jsxRuntimeExports.jsxs(jsxRuntimeExports.Fragment, { children: [jsxRuntimeExports.jsx("input", { className: classes2.searchBar, type: "text", placeholder: "Search", value: searchTerm, onChange: handleChange }), jsxRuntimeExports.jsx(SelectableTable, { columns: columns2, columnLabels, data: data2, hasColorEncoding, idKey: "key", valueKey: "value", onChange, allowMultiple: enableMultiSelect, allowUncheck: enableMultiSelect, showTableHead: columnLabels.length > 1, width: width2, height: height2 - 34 })] });
 }
 function FeatureListOptions(props) {
   const { children: children3, featureListSort, setFeatureListSort, featureListSortKey, setFeatureListSortKey, showFeatureTable, setShowFeatureTable, hasFeatureLabels, primaryColumnName } = props;
@@ -261901,9 +261924,21 @@ function FeatureListOptions(props) {
     id: `feature-list-show-alternative-ids-${featureListId}`
   } } }) })] })] }) : null] });
 }
+const useStyles$k = makeStyles()((theme) => ({
+  featureListContainer: {
+    width: "100%",
+    height: "100%",
+    display: "flex",
+    flexDirection: "column",
+    backgroundColor: theme.palette.primaryBackground,
+    color: theme.palette.primaryForeground
+  }
+}));
 function FeatureListSubscriber(props) {
   const { coordinationScopes, removeGridComponent, variablesLabelOverride, theme, title: titleOverride, enableMultiSelect = false, showTable = false, sort: sort2 = "alphabetical", sortKey: sortKey2 = null, closeButtonVisible, downloadButtonVisible, helpText = ViewHelpMapping.FEATURE_LIST } = props;
   const loaders = useLoaders();
+  const [width2, height2, containerRef] = useGridItemSize();
+  const { classes: classes2 } = useStyles$k();
   const [{ dataset, obsType, featureType, featureSelection: geneSelection, featureFilter: geneFilter, obsColorEncoding: cellColorEncoding }, { setFeatureSelection: setGeneSelection, setFeatureFilter: setGeneFilter, setFeatureHighlight: setGeneHighlight, setObsColorEncoding: setCellColorEncoding }] = useCoordination(COMPONENT_COORDINATION_TYPES[ViewType$1.FEATURE_LIST], coordinationScopes);
   const variablesLabel = variablesLabelOverride || featureType;
   const title2 = titleOverride || `${capitalize$3(variablesLabel)} List`;
@@ -261935,24 +261970,7 @@ function FeatureListSubscriber(props) {
   const [featureListSortKey, setFeatureListSortKey] = useState(null);
   const initialSortKey = sortKey2 || (hasFeatureLabels ? "featureLabels" : "featureIndex");
   const primaryColumnName = `${capitalize$3(featureType)} ID`;
-  return jsxRuntimeExports.jsx(TitleInfo, {
-    title: title2,
-    info: `${commaNumber(numGenes)} ${pluralize(variablesLabel, numGenes)}`,
-    theme,
-    // Virtual scroll is used but this allows for the same styling as a scroll component
-    // even though this no longer uses the TitleInfo component's
-    // scroll css (SelectableTable is virtual scroll).
-    isScroll: true,
-    closeButtonVisible,
-    downloadButtonVisible,
-    removeGridComponent,
-    isReady,
-    urls: urls2,
-    helpText,
-    errors,
-    options: jsxRuntimeExports.jsx(FeatureListOptions, { featureListSort, setFeatureListSort, featureListSortKey: featureListSortKey || initialSortKey, setFeatureListSortKey, showFeatureTable, setShowFeatureTable, hasFeatureLabels, primaryColumnName }),
-    children: jsxRuntimeExports.jsx(FeatureList, { hasColorEncoding: cellColorEncoding === "geneSelection", showFeatureTable, geneList, featureListSort, featureListSortKey: featureListSortKey || initialSortKey, featureLabelsMap: expandedFeatureLabelsMap, featureType, geneSelection, geneFilter, setGeneSelection: setGeneSelectionAndColorEncoding, setGeneFilter, setGeneHighlight, enableMultiSelect, hasFeatureLabels, primaryColumnName })
-  });
+  return jsxRuntimeExports.jsx(TitleInfo, { title: title2, info: `${commaNumber(numGenes)} ${pluralize(variablesLabel, numGenes)}`, theme, withPadding: false, closeButtonVisible, downloadButtonVisible, removeGridComponent, isReady, urls: urls2, helpText, errors, options: jsxRuntimeExports.jsx(FeatureListOptions, { featureListSort, setFeatureListSort, featureListSortKey: featureListSortKey || initialSortKey, setFeatureListSortKey, showFeatureTable, setShowFeatureTable, hasFeatureLabels, primaryColumnName }), children: jsxRuntimeExports.jsx("div", { ref: containerRef, className: classes2.featureListContainer, children: jsxRuntimeExports.jsx(FeatureList, { width: width2, height: height2, hasColorEncoding: cellColorEncoding === "geneSelection", showFeatureTable, geneList, featureListSort, featureListSortKey: featureListSortKey || initialSortKey, featureLabelsMap: expandedFeatureLabelsMap, featureType, geneSelection, geneFilter, setGeneSelection: setGeneSelectionAndColorEncoding, setGeneFilter, setGeneHighlight, enableMultiSelect, hasFeatureLabels, primaryColumnName }) }) });
 }
 const useSpanStyles = makeStyles()(() => ({
   span: {
@@ -265401,7 +265419,7 @@ function HiglassGlobalStyles(props) {
 }
 register({ dataFetcher: ZarrMultivecDataFetcher_default, config: ZarrMultivecDataFetcher_default.config }, { pluginType: "dataFetcher" });
 const LazyHiGlassComponent = React__default.lazy(async () => {
-  const { HiGlassComponent } = await import("./higlass-DNEa7gM7.js");
+  const { HiGlassComponent } = await import("./higlass-DISnb5Ei.js");
   return { default: HiGlassComponent };
 });
 const HG_SIZE = 800;
@@ -268345,7 +268363,7 @@ function NeuroglancerGlobalStyles(props) {
   const { classes: classes2 } = props;
   return jsxRuntimeExports.jsxs(jsxRuntimeExports.Fragment, { children: [jsxRuntimeExports.jsx(GlobalStyles$3, { styles: globalNeuroglancerCss }), jsxRuntimeExports.jsx(ScopedGlobalStyles, { styles: globalNeuroglancerStyles, parentClassName: classes2.neuroglancerWrapper })] });
 }
-const LazyReactNeuroglancer = React__default.lazy(() => import("./ReactNeuroglancer-D4Xivd2K.js"));
+const LazyReactNeuroglancer = React__default.lazy(() => import("./ReactNeuroglancer-BCLqTed3.js"));
 function createWorker() {
   return new WorkerFactory();
 }
@@ -321471,7 +321489,7 @@ const VEGA_THEMES = {
 };
 const DATASET_NAME = "table";
 function VegaGlobalStyles() {
-  const { theme } = useStyles$u();
+  const { theme } = useStyles$v();
   return jsxRuntimeExports.jsx(GlobalStyles$3, { styles: {
     "#vg-tooltip-element.vg-tooltip.custom-theme": {
       boxShadow: "0px 2px 4px -1px rgba(0,0,0,0.2),0px 4px 5px 0px rgba(0,0,0,0.14),0px 1px 10px 0px rgba(0,0,0,0.12)",
@@ -321505,7 +321523,7 @@ function renderTooltipContents(tooltipText) {
 }
 function VegaPlot(props) {
   const { spec: partialSpec, data: data2, getTooltipText, signalListeners, renderer = "svg", onNewView } = props;
-  const { classes: tooltipClasses2 } = useStyles$q();
+  const { classes: tooltipClasses2 } = useStyles$r();
   const tooltipHandler = useMemo$1(() => {
     if (typeof getTooltipText === "function") {
       const tooltipConfig = {
@@ -326712,6 +326730,13 @@ class SpatialDataObsSetsLoader extends ObsSetsAnndataLoader {
     this.tablePath = this.options.tablePath;
   }
 }
+class SpatialDataObsEmbeddingLoader extends ObsEmbeddingAnndataLoader {
+  constructor(dataSource, params2) {
+    super(dataSource, params2);
+    this.region = this.options.region;
+    this.tablePath = this.options.tablePath;
+  }
+}
 const decoder = new TextDecoder("utf-8");
 const decodeUtf8 = (buffer2) => decoder.decode(buffer2);
 const encoder = new TextEncoder();
@@ -377634,7 +377659,39 @@ function expandSpatialdataZarr(fileDef) {
     // TODO: obsLocations?
     // TODO: obsLabels
     // TODO: featureLabels
-    // TODO: obsEmbedding
+    // obsEmbedding
+    // eslint-disable-next-line no-nested-ternary
+    ...options.obsEmbedding ? Array.isArray(options.obsEmbedding) ? options.obsEmbedding.map((oe) => ({
+      // obsEmbedding was an array, process each element.
+      ...baseFileDef,
+      fileType: getFileType(FileType$1.OBS_EMBEDDING_SPATIALDATA_ZARR),
+      options: {
+        path: oe.path,
+        dims: oe.dims,
+        tablePath: options.tablePath,
+        region: options.region
+      },
+      coordinationValues: {
+        ...extraCoordinationValues,
+        obsType: baseFileDef.coordinationValues.obsType,
+        // Move embedding type property out of options and into coordinationValues.
+        embeddingType: oe.embeddingType
+      }
+    })) : [{
+      // obsEmbedding was an object.
+      ...baseFileDef,
+      fileType: getFileType(FileType$1.OBS_EMBEDDING_SPATIALDATA_ZARR),
+      options: {
+        ...options.obsEmbedding,
+        tablePath: options.tablePath,
+        region: options.region
+      },
+      coordinationValues: {
+        ...extraCoordinationValues,
+        obsType: baseFileDef.coordinationValues.obsType,
+        embeddingType: baseFileDef.coordinationValues.embeddingType
+      }
+    }] : [],
     // image
     // TODO: handle multiple image elements?
     ...options.image ? [{
@@ -378061,6 +378118,7 @@ const baseFileTypes = [
   ...makeZarrFileTypes(FileType$1.OBS_POINTS_SPATIALDATA_ZARR, DataType$3.OBS_POINTS, SpatialDataObsPointsLoader, SpatialDataPointsSource, obsPointsSpatialdataSchema),
   ...makeZarrFileTypes(FileType$1.OBS_FEATURE_MATRIX_SPATIALDATA_ZARR, DataType$3.OBS_FEATURE_MATRIX, ObsFeatureMatrixAnndataLoader, SpatialDataTableSource, obsFeatureMatrixSpatialdataSchema),
   ...makeZarrFileTypes(FileType$1.OBS_SETS_SPATIALDATA_ZARR, DataType$3.OBS_SETS, SpatialDataObsSetsLoader, SpatialDataTableSource, obsSetsSpatialdataSchema),
+  ...makeZarrFileTypes(FileType$1.OBS_EMBEDDING_SPATIALDATA_ZARR, DataType$3.OBS_EMBEDDING, SpatialDataObsEmbeddingLoader, SpatialDataTableSource, obsEmbeddingSpatialdataSchema),
   ...makeZarrFileTypes(FileType$1.FEATURE_LABELS_SPATIALDATA_ZARR, DataType$3.FEATURE_LABELS, FeatureLabelsAnndataLoader, SpatialDataTableSource, featureLabelsAnndataSchema),
   makeFileType(FileType$1.OBS_SEGMENTATIONS_GLB, DataType$3.OBS_SEGMENTATIONS, GlbDataLoader, GlbSource, meshGlbSchema),
   // All legacy file types

package/dist/index.js

@@ -1,4 +1,4 @@
-import { bL, bJ, bH, bK, bI, bG, bM } from "./index-DcZv7teI.js";
+import { bL, bJ, bH, bK, bI, bG, bM } from "./index-CHatE_p-.js";
 import { useComplexCoordination, useComplexCoordinationSecondary, useCoordination, useCoordinationScopes, useCoordinationScopesBy, useGridItemSize, useMultiCoordinationScopesNonNull, useMultiCoordinationScopesSecondaryNonNull, usePageModeView } from "@vitessce/vit-s";
 export {
   bL as PluginAsyncFunction,

package/dist/{jpeg-DY_DkYi3.js → jpeg-D4jHWX80.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-DcZv7teI.js";
+import { aP as BaseDecoder } from "./index-CHatE_p-.js";
 const dctZigZag = new Int32Array([
   0,
   1,

package/dist/{lerc-Bz6jtDu9.js → lerc-B8-eHLyr.js}

@@ -1,5 +1,5 @@
 import { i as inflate_1 } from "./pako.esm-SxljTded.js";
-import { g as getDefaultExportFromCjs, aP as BaseDecoder, aQ as LercParameters, aR as LercAddCompression } from "./index-DcZv7teI.js";
+import { g as getDefaultExportFromCjs, aP as BaseDecoder, aQ as LercParameters, aR as LercAddCompression } from "./index-CHatE_p-.js";
 var LercDecode = { exports: {} };
 var hasRequiredLercDecode;
 function requireLercDecode() {

package/dist/{lzw-kKlj6Pam.js → lzw-DfqXKt2J.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-DcZv7teI.js";
+import { aP as BaseDecoder } from "./index-CHatE_p-.js";
 const MIN_BITS = 9;
 const CLEAR_CODE = 256;
 const EOI_CODE = 257;

package/dist/{packbits-DzhxlAeC.js → packbits-DefNknXY.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-DcZv7teI.js";
+import { aP as BaseDecoder } from "./index-CHatE_p-.js";
 class PackbitsDecoder extends BaseDecoder {
   decodeBlock(buffer) {
     const dataView = new DataView(buffer);

package/dist/{raw-DqALOEt-.js → raw-C7WxxrTS.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-DcZv7teI.js";
+import { aP as BaseDecoder } from "./index-CHatE_p-.js";
 class RawDecoder extends BaseDecoder {
   decodeBlock(buffer) {
     return buffer;

package/dist/{troika-three-text.esm-DLsbwboO.js → troika-three-text.esm-CheqkRn_.js}

@@ -1,4 +1,4 @@
-import { bA as MeshDistanceMaterial, bB as MeshDepthMaterial, bC as RGBADepthPacking, aB as UniformsUtils, bD as ShaderChunk, aw as InstancedBufferGeometry, av as Sphere, au as Box3, aH as BackSide, a9 as DoubleSide, ad as Mesh, as as FrontSide, aa as MeshBasicMaterial, i as Color, c as Vector3, k as Matrix4, d as Vector2, aJ as Matrix3, aD as Vector4, T as Texture, a1 as LinearFilter, bE as PlaneGeometry, f as BufferGeometry, ax as Float32BufferAttribute, bF as InstancedBufferAttribute } from "./index-DcZv7teI.js";
+import { bA as MeshDistanceMaterial, bB as MeshDepthMaterial, bC as RGBADepthPacking, aB as UniformsUtils, bD as ShaderChunk, aw as InstancedBufferGeometry, av as Sphere, au as Box3, aH as BackSide, a9 as DoubleSide, ad as Mesh, as as FrontSide, aa as MeshBasicMaterial, i as Color, c as Vector3, k as Matrix4, d as Vector2, aJ as Matrix3, aD as Vector4, T as Texture, a1 as LinearFilter, bE as PlaneGeometry, f as BufferGeometry, ax as Float32BufferAttribute, bF as InstancedBufferAttribute } from "./index-CHatE_p-.js";
 function workerBootstrap() {
   var modules = /* @__PURE__ */ Object.create(null);
   function registerModule(ref, callback) {

package/dist/{webimage-B46sb8Pc.js → webimage-DIFjmNJy.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-DcZv7teI.js";
+import { aP as BaseDecoder } from "./index-CHatE_p-.js";
 class WebImageDecoder extends BaseDecoder {
   constructor() {
     super();

package/dist-tsc/base-plugins.d.ts

@@ -341,6 +341,28 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
         region?: string | undefined;
         tablePath?: string | undefined;
     }>>;
+    obsEmbedding: z.ZodOptional<z.ZodUnion<[z.ZodObject<{
+        path: z.ZodString;
+        dims: z.ZodOptional<z.ZodArray<z.ZodNumber, "many">>;
+    }, "strip", z.ZodTypeAny, {
+        path: string;
+        dims?: number[] | undefined;
+    }, {
+        path: string;
+        dims?: number[] | undefined;
+    }>, z.ZodArray<z.ZodObject<{
+        path: z.ZodString;
+        dims: z.ZodOptional<z.ZodArray<z.ZodNumber, "many">>;
+        embeddingType: z.ZodString;
+    }, "strip", z.ZodTypeAny, {
+        path: string;
+        embeddingType: string;
+        dims?: number[] | undefined;
+    }, {
+        path: string;
+        embeddingType: string;
+        dims?: number[] | undefined;
+    }>, "many">]>>;
     coordinateSystem: z.ZodOptional<z.ZodOptional<z.ZodString>>;
 }, "strip", z.ZodTypeAny, {
     image?: {
@@ -378,6 +400,14 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
         region?: string | undefined;
         tablePath?: string | undefined;
     } | undefined;
+    obsEmbedding?: {
+        path: string;
+        dims?: number[] | undefined;
+    } | {
+        path: string;
+        embeddingType: string;
+        dims?: number[] | undefined;
+    }[] | undefined;
     coordinateSystem?: string | undefined;
 }, {
     image?: {
@@ -415,6 +445,14 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
         region?: string | undefined;
         tablePath?: string | undefined;
     } | undefined;
+    obsEmbedding?: {
+        path: string;
+        dims?: number[] | undefined;
+    } | {
+        path: string;
+        embeddingType: string;
+        dims?: number[] | undefined;
+    }[] | undefined;
     coordinateSystem?: string | undefined;
 }>> | PluginJointFileType<z.ZodObject<{
     xy: z.ZodOptional<z.ZodString>;

package/dist-tsc/base-plugins.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"base-plugins.d.ts","sourceRoot":"","sources":["../src/base-plugins.ts"],"names":[],"mappings":"AAWA,OAAO,EACL,cAAc,EACd,mBAAmB,EACnB,cAAc,EACd,sBAAsB,EACtB,mBAAmB,EACpB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EACV,UAAU,EACV,UAAU,EACX,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EACL,CAAC,EAmDF,MAAM,mBAAmB,CAAC;AA8K3B,eAAO,MAAM,aAAa,kBA8BzB,CAAC;AAEF,eAAO,MAAM,aAAa,wDAyEzB,CAAC;AAEF,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;yBAiFG,CAAC;gCAGhC,CAAC;;;yBAEF,CAAF;gCAAsD,CAAC;;;;;;;;;;;;;;;;iBAS3C,CAAC;;;;iBAEkG,CAAC;;;;;;;YAMV,CAAC;;;YAEnF,CAAC;;;;;;;YAOjB,CAAH;;;YAGU,CAAC;;;;;;;YAM2F,CAAC;;;YAE9C,CAAC;;;;;;;;;;;;;;YAUvD,CAAD;;;YAEM,CAAC;;;;;;;;YAOwH,CAAC;;;;YAI5H,CAAC;;;;;;;;;;;;;;;;;;;;;;;;yBAmBJ,CAAC;gCAEK,CAAC;;;;;;;;iBAUN,CAAC;;;;YAGwB,CAAC;;;;YAK1B,CAAC;;;;YAIO,CAAC;;;;;;;YAEQ,CAAC;;;;YACQ,CAAC;;;;;;;;;;;;;;;;;;;;yBAKvB,CAAC;gCAAsD,CAAC;;;;;;;;iBAGnD,CAAC;;;;YACb,CAAD;;;;YACC,CAAC;;;;YACI,CAAC;;;;;;;YAC2E,CAAC;;;;YACY,CAAC;;;;;;;;;;;wBAkE4uC,CAAC;;;wBAA6E,CAAC;;;;;;;;iBAAwR,CAAC;wBAA8C,CAAC;;;iBAAsE,CAAC;wBAA8C,CAAC;;;;;;;;iBAAiR,CAAC;wBAA8C,CAAC;;;iBAAsE,CAAC;wBAA8C,CAAC;;;;;;;;;;yBAAkZ,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;yBAA8E,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;;;;;iBAAgR,CAAC;wBAA8C,CAAC;;;iBAAsE,CAAC;wBAA8C,CAAC;;;;;;;;;;;;qBAAygB,CAAC;;;;qBAA2J,CAAC;;;;;;qBAAsN,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;qBAA0K,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;wBAAwL,CAAC;;;;iBAAyG,CAAC;wBAA8C,CAAC;;;;iBAAkG,CAAC;wBAA8C,CAAC;;;;yBAAiH,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;iBAAiG,CAAC;wBAA8C,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;wBAAqJ,CAAC;;;;iBAAyG,CAAC;wBAA8C,CAAC;;;;iBAAkG,CAAC;wBAA8C,CAAC;;;;yBAAiH,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;iBAAiG,CAAC;wBAA8C,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;sBA7hB72N,CAAC;;;;;qBAGkB,CAAC;qBAC5B,CAAC;;;;;;;;;qBAGyC,CAAC;6BACvC,CAAC;;sBAEjB,CAAC;;;;;qBAQvB,CAAC;qBACK,CAAC;;;;;;;;;qBAYR,CAAA;6BAEC,CAAC;;;;;;;;;;;;;kBAwBQ,CAAC;mBACQ,CAAC;gBAEZ,CAAC;gBACa,CAAC;uBAEV,CAAC;iBACM,CAAC;oBAER,CAAC;oBAEd,CAAD;qBACgB,CAAC;;kBAEX,CAAC;mBACS,CAAC;gBAIhB,CAAA;gBACoB,CAAC;uBAErB,CAAA;iBAGI,CAAC;oBAEgB,CAAC;oBAEV,CAAC;qBAEV,CAAC;;;;;;gBAKS,CAAC;sBACX,CAAC;;;;;qBAWH,CAAC;qBAGD,CAAC;;;;;;;;;qBAUW,CAAC;6BAEM,CAAC;;mBAGN,CAAC;kBACJ,CAAC;mBACI,CAAC;gBAGZ,CAAC;gBACQ,CAAC;uBAGhB,CAAA;iBACgB,CAAC;oBAEE,CAAC;oBAEX,CAAC;qBACZ,CAAA;;;;;;gBACiF,CAAC;sBAG5E,CAAC;;;;;qBAC2B,CAAA;qBAA4C,CAAC;;;;;;;;;qBAIJ,CAAC;6BAAoD,CAAC;;mBACxH,CAAC;kBAAsB,CAAC;mBAE7B,CAAH;gBAAoD,CAAA;gBAEnD,CAAF;uBACkC,CAAC;iBAAuC,CAAC;oBAC3D,CAAC;oBAA0C,CAAC;qBACpB,CAAC;;;;;;;;;gBAG+E,CAAC;sBAKhH,CAAC;;;;;qBAGgD,CAAC;qBAC1B,CAAC;;;;;;;;;qBAIA,CAAC;6BACD,CAAC;;mBACE,CAAC;kBAAsB,CAAC;mBAC7B,CAAC;gBAC5B,CAAC;gBAAsC,CAAC;uBACN,CAAC;iBAAuC,CAAC;oBACpD,CAAC;oBAC1B,CAAC;qBAA2C,CAAC;;;;;;;;;;;gBAK9C,CAAA;sBAA0B,CAAC;;;;;qBAGN,CAAC;qBACtB,CAAD;;;;;;;;;qBAGqD,CAAC;6BAC9B,CAAC;;mBAAgE,CAAC;kBACtE,CAAC;mBAAyC,CAAC;gBAGlD,CAAC;gBACO,CAAC;uBACqB,CAAC;iBAAuC,CAAC;oBAC/D,CAAC;oBAA0C,CAAC;qBAA2C,CAAC;;;;;;;;;;;;;;OA0F7G,CAAC;AAIF,eAAO,MAAM,qBAAqB;;;;;;;;aArWtB,CAAC;cAGX,CAAD;eAES,CAAC;;;aAIH,CAAC;cAEP,CAAF;eACgB,CAAC;;;;;;;;;;;;;;;;;;;aAgCd,CAAC;cACQ,CAAC;eAEH,CAAC;;;;;;;;;;;;;;;;;;;aAmBF,CAAA;cAAsC,CAAC;eACf,CAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;aAnErB,CAAC;cAGX,CAAD;eAES,CAAC;;;aAIH,CAAC;cAEP,CAAF;eACgB,CAAC;;;;;;;;;;;;;;;;;;;aAgCd,CAAC;cACQ,CAAC;eAEH,CAAC;;;;;;;;;;;;;;;;;;;aAmBF,CAAA;cAAsC,CAAC;eACf,CAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;kzBAmhBhC,CAAC;AAEF,eAAO,MAAM,kBAAkB,uBAK9B,CAAC"}
+{"version":3,"file":"base-plugins.d.ts","sourceRoot":"","sources":["../src/base-plugins.ts"],"names":[],"mappings":"AAWA,OAAO,EACL,cAAc,EACd,mBAAmB,EACnB,cAAc,EACd,sBAAsB,EACtB,mBAAmB,EACpB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EACV,UAAU,EACV,UAAU,EACX,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EACL,CAAC,EAoDF,MAAM,mBAAmB,CAAC;AA+K3B,eAAO,MAAM,aAAa,kBA8BzB,CAAC;AAEF,eAAO,MAAM,aAAa,wDA0EzB,CAAC;AAEF,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;yBAuFsB,CAAC;gCAC1B,CAAC;;;yBACF,CAAC;gCAAsD,CAAC;;;;;;;;;;;;;;;;iBAYpD,CAAC;;;;iBAGtB,CAAC;;;;;;;YAOP,CAAD;;;YAGG,CAAJ;;;;;;;YAOgE,CAAC;;;YAE9C,CAAC;;;;;;;YAGQ,CAAC;;;YAIxB,CAAC;;;;;;;;;;;;;;YAYwC,CAAC;;;YAAmE,CAAC;;;;;;;;YAOnH,CAAA;;;;YAGY,CAAC;;;;;;;;;;;;;;;;;;;;;;;;yBAuBiC,CAAC;gCAG/C,CAAA;;;;;;;;iBASmB,CAAC;;;;YAGhB,CAAC;;;;YACiB,CAAC;;;;YACO,CAAC;;;;;;;YAE3B,CAAC;;;;YACG,CAAC;;;;;;;;;;;;;;;;;;;;yBAI6E,CAAC;gCAC5C,CAAC;;;;;;;;iBAE+B,CAAC;;;;YACA,CAAC;;;;YACM,CAAC;;;;YACW,CAAC;;;;;;;YAEhG,CAAC;;;;YAAmG,CAAC;;;;;;;;;;;wBAgEg/C,CAAC;;;wBAA6E,CAAC;;;;;;;;iBAAwR,CAAC;wBAA8C,CAAC;;;iBAAsE,CAAC;wBAA8C,CAAC;;;;;;;;iBAAiR,CAAC;wBAA8C,CAAC;;;iBAAsE,CAAC;wBAA8C,CAAC;;;;;;;;;;yBAAkZ,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;yBAA8E,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;;;;;iBAAgR,CAAC;wBAA8C,CAAC;;;iBAAsE,CAAC;wBAA8C,CAAC;;;;;;;;;;;;qBAAygB,CAAC;;;;qBAA2J,CAAC;;;;;;qBAAsN,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;qBAA0K,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;;YAAoP,CAAC;;;YAAmE,CAAC;;;;;;;;YAAuR,CAAC;;;;YAAkG,CAAC;;;;;;wBAAqM,CAAC;;;;iBAAyG,CAAC;wBAA8C,CAAC;;;;iBAAkG,CAAC;wBAA8C,CAAC;;;;yBAAiH,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;iBAAiG,CAAC;wBAA8C,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;YAAgG,CAAC;;;;YAAmG,CAAC;;;;;;wBAAyJ,CAAC;;;;iBAAyG,CAAC;wBAA8C,CAAC;;;;iBAAkG,CAAC;wBAA8C,CAAC;;;;yBAAiH,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;iBAAiG,CAAC;wBAA8C,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;YAAgG,CAAC;;;;YAAmG,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;sBA/hBvuQ,CAAC;;;;;qBAGkB,CAAC;qBAC5B,CAAC;;;;;;;;;qBAGyC,CAAC;6BACtC,CAAA;;sBACR,CAAC;;;;;qBAQA,CAAA;qBACa,CAAC;;;;;;;;;qBAWD,CAAC;6BAGd,CAAF;;;;;;;;;;;;;kBAuBS,CAAC;mBAEW,CAAC;gBAEhB,CAAC;gBACS,CAAC;uBAEN,CAAC;iBACU,CAAC;oBAEf,CAAC;oBACgB,CAAC;qBAEf,CAAC;;kBAET,CAAC;mBACY,CAAC;gBAET,CAAC;gBAGF,CAAC;uBAC2B,CAAC;iBAE5B,CAAC;oBAIF,CAAC;oBACyB,CAAC;qBAGhC,CAAF;;;;;;gBAKY,CAAC;sBACJ,CAAC;;;;;qBASR,CAAA;qBAEM,CAAC;;;;;;;;;qBAYI,CAAC;6BAGZ,CAAC;;mBAEkB,CAAC;kBAEnB,CAAC;mBACY,CAAC;gBAEZ,CAAC;gBAEH,CAAC;uBACuB,CAAC;iBAEV,CAAC;oBAED,CAAC;oBAMnB,CAJA;qBAC0C,CAAC;;;;;;gBAI5B,CAAC;sBAA0B,CAAC;;;;;qBAGmG,CAAC;qBAClI,CAAA;;;;;;;;;qBAIJ,CAAC;6BAAoD,CAAC;;mBAAgE,CAAC;kBAAsB,CAAC;mBAC/I,CAAC;gBACA,CAAC;gBACe,CAAC;uBAA6C,CAAC;iBAGhE,CAAC;oBAA0C,CAAC;oBAA0C,CAAC;qBAC1D,CAAC;;;;;;;;;gBAIgB,CAAC;sBAA0B,CAAC;;;;;qBAO7B,CAAC;qBACjB,CAAC;;;;;;;;;qBAIR,CAAC;6BACV,CAAC;;mBACW,CAAC;kBAAsB,CAAC;mBACrB,CAAC;gBACnB,CAAC;gBAAsC,CAAC;uBAClC,CAAC;iBACZ,CAAC;oBAA0C,CAAC;oBACpD,CAAC;qBAA2C,CAAC;;;;;;;;;;;gBAIS,CAAC;sBAC5C,CAAC;;;;;qBAGU,CAAC;qBAC1B,CAAC;;;;;;;;;qBAG6D,CAAC;6BACxB,CAAC;;mBAClB,CAAC;kBAAsB,CAAC;mBAAyC,CAAC;gBACzC,CAAC;gBAAsC,CAAC;uBAKvF,CADC;iBACe,CAAC;oBAA0C,CAAC;oBAC5D,CAAF;qBAA2C,CAAC;;;;;;;;;;;;;;OA2F3C,CAAC;AAIF,eAAO,MAAM,qBAAqB;;;;;;;;aAxWtB,CAAC;cAGX,CAAD;eAES,CAAC;;;aAIH,CAAC;cAEP,CAAF;eACgB,CAAC;;;;;;;;;;;;;;;;;;;aAgCd,CAAC;cACQ,CAAC;eACW,CAAC;;;;;;;;;;;;;;;;;;;aAoBc,CAAC;cAC1B,CAAC;eACf,CAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;aApEY,CAAC;cAGX,CAAD;eAES,CAAC;;;aAIH,CAAC;cAEP,CAAF;eACgB,CAAC;;;;;;;;;;;;;;;;;;;aAgCd,CAAC;cACQ,CAAC;eACW,CAAC;;;;;;;;;;;;;;;;;;;aAoBc,CAAC;cAC1B,CAAC;eACf,CAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;kzBAqhBC,CAAC;AAEF,eAAO,MAAM,kBAAkB,uBAK9B,CAAC"}

package/dist-tsc/base-plugins.js

@@ -1,6 +1,6 @@
 import { FileType, DataType, ViewType, CoordinationType, AsyncFunctionType, COMPONENT_COORDINATION_TYPES, ALT_ZARR_STORE_TYPES, } from '@vitessce/constants-internal';
 import { PluginFileType, PluginJointFileType, PluginViewType, PluginCoordinationType, PluginAsyncFunction, } from '@vitessce/plugins';
-import { z, obsEmbeddingCsvSchema, obsSetsCsvSchema, obsSpotsCsvSchema, obsPointsCsvSchema, obsLocationsCsvSchema, obsLabelsCsvSchema, featureLabelsCsvSchema, sampleSetsCsvSchema, obsSetsAnndataSchema, sampleSetsAnndataSchema, obsEmbeddingAnndataSchema, obsSpotsAnndataSchema, obsPointsAnndataSchema, obsLocationsAnndataSchema, obsLabelsAnndataSchema, obsFeatureMatrixAnndataSchema, obsFeatureColumnsAnndataSchema, obsSegmentationsAnndataSchema, featureLabelsAnndataSchema, sampleEdgesAnndataSchema, comparisonMetadataAnndataSchema, featureStatsAnndataSchema, featureSetStatsAnndataSchema, obsSetStatsAnndataSchema, rasterJsonSchema, anndataZarrSchema, anndataH5adSchema, spatialdataZarrSchema, anndataCellsZarrSchema, anndataCellSetsZarrSchema, anndataExpressionMatrixZarrSchema, cellsJsonSchema, imageOmeZarrSchema, imageOmeTiffSchema, imageSpatialdataSchema, obsSegmentationsOmeTiffSchema, obsSegmentationsOmeZarrSchema, obsSegmentationsSpatialdataSchema, obsFeatureMatrixSpatialdataSchema, obsSpotsSpatialdataSchema, obsPointsSpatialdataSchema, obsSetsSpatialdataSchema, obsSetPath, rgbArray, obsSetsSchema, imageLayerObj, cellsLayerObj, neighborhoodsLayerObj, moleculesLayerObj, meshGlbSchema, } from '@vitessce/schemas';
+import { z, obsEmbeddingCsvSchema, obsSetsCsvSchema, obsSpotsCsvSchema, obsPointsCsvSchema, obsLocationsCsvSchema, obsLabelsCsvSchema, featureLabelsCsvSchema, sampleSetsCsvSchema, obsSetsAnndataSchema, sampleSetsAnndataSchema, obsEmbeddingAnndataSchema, obsSpotsAnndataSchema, obsPointsAnndataSchema, obsLocationsAnndataSchema, obsLabelsAnndataSchema, obsFeatureMatrixAnndataSchema, obsFeatureColumnsAnndataSchema, obsSegmentationsAnndataSchema, featureLabelsAnndataSchema, sampleEdgesAnndataSchema, comparisonMetadataAnndataSchema, featureStatsAnndataSchema, featureSetStatsAnndataSchema, obsSetStatsAnndataSchema, rasterJsonSchema, anndataZarrSchema, anndataH5adSchema, spatialdataZarrSchema, anndataCellsZarrSchema, anndataCellSetsZarrSchema, anndataExpressionMatrixZarrSchema, cellsJsonSchema, imageOmeZarrSchema, imageOmeTiffSchema, imageSpatialdataSchema, obsSegmentationsOmeTiffSchema, obsSegmentationsOmeZarrSchema, obsSegmentationsSpatialdataSchema, obsFeatureMatrixSpatialdataSchema, obsSpotsSpatialdataSchema, obsPointsSpatialdataSchema, obsSetsSpatialdataSchema, obsEmbeddingSpatialdataSchema, obsSetPath, rgbArray, obsSetsSchema, imageLayerObj, cellsLayerObj, neighborhoodsLayerObj, moleculesLayerObj, meshGlbSchema, } from '@vitessce/schemas';
 // Register view type plugins
 import { DescriptionSubscriber } from '@vitessce/description';
 import { ObsSetsManagerSubscriber } from '@vitessce/obs-sets-manager';
@@ -37,7 +37,7 @@ import {
 // OME
 OmeZarrLoader, OmeZarrAsObsSegmentationsLoader, 
 // SpatialData
-SpatialDataTableSource, SpatialDataShapesSource, SpatialDataPointsSource, SpatialDataImageLoader, SpatialDataLabelsLoader, SpatialDataObsSpotsLoader, SpatialDataObsPointsLoader, SpatialDataObsSegmentationsLoader, SpatialDataObsSetsLoader, } from '@vitessce/spatial-zarr';
+SpatialDataTableSource, SpatialDataShapesSource, SpatialDataPointsSource, SpatialDataImageLoader, SpatialDataLabelsLoader, SpatialDataObsSpotsLoader, SpatialDataObsPointsLoader, SpatialDataObsSegmentationsLoader, SpatialDataObsSetsLoader, SpatialDataObsEmbeddingLoader, } from '@vitessce/spatial-zarr';
 import { OmeTiffAsObsSegmentationsLoader, OmeTiffLoader, OmeTiffSource, } from '@vitessce/ome-tiff';
 import { GlbSource, GlbLoader, } from '@vitessce/glb';
 // Joint file types
@@ -154,6 +154,7 @@ export const baseFileTypes = [
     ...makeZarrFileTypes(FileType.OBS_POINTS_SPATIALDATA_ZARR, DataType.OBS_POINTS, SpatialDataObsPointsLoader, SpatialDataPointsSource, obsPointsSpatialdataSchema),
     ...makeZarrFileTypes(FileType.OBS_FEATURE_MATRIX_SPATIALDATA_ZARR, DataType.OBS_FEATURE_MATRIX, ObsFeatureMatrixAnndataLoader, SpatialDataTableSource, obsFeatureMatrixSpatialdataSchema),
     ...makeZarrFileTypes(FileType.OBS_SETS_SPATIALDATA_ZARR, DataType.OBS_SETS, SpatialDataObsSetsLoader, SpatialDataTableSource, obsSetsSpatialdataSchema),
+    ...makeZarrFileTypes(FileType.OBS_EMBEDDING_SPATIALDATA_ZARR, DataType.OBS_EMBEDDING, SpatialDataObsEmbeddingLoader, SpatialDataTableSource, obsEmbeddingSpatialdataSchema),
     ...makeZarrFileTypes(FileType.FEATURE_LABELS_SPATIALDATA_ZARR, DataType.FEATURE_LABELS, FeatureLabelsAnndataLoader, SpatialDataTableSource, featureLabelsAnndataSchema),
     makeFileType(FileType.OBS_SEGMENTATIONS_GLB, DataType.OBS_SEGMENTATIONS, GlbLoader, GlbSource, meshGlbSchema),
     // All legacy file types

package/dist-tsc/joint-file-types.d.ts

@@ -1,31 +1,5 @@
 import type { z } from 'zod';
 import type { latestFileDefSchema } from '@vitessce/schemas';
 export declare function expandAnndataZarr(fileDef: z.infer<typeof latestFileDefSchema>): any[];
-export declare function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchema>): ({
-    fileType: string;
-    options: any;
-    coordinationValues: {
-        obsType: string;
-        featureType: string;
-        featureValueType: string;
-    };
-    url?: string;
-    requestInit?: any;
-} | {
-    fileType: string;
-    options: any;
-    coordinationValues: {
-        obsType: string;
-    };
-    url?: string;
-    requestInit?: any;
-} | {
-    fileType: string;
-    options: any;
-    coordinationValues: {
-        featureType: string;
-    };
-    url?: string;
-    requestInit?: any;
-})[];
+export declare function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchema>): any[];
 //# sourceMappingURL=joint-file-types.d.ts.map

package/dist-tsc/joint-file-types.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"joint-file-types.d.ts","sourceRoot":"","sources":["../src/joint-file-types.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAC7B,OAAO,KAAK,EAAE,mBAAmB,EAAE,MAAM,mBAAmB,CAAC;AA6B7D,wBAAgB,iBAAiB,CAAC,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC,SAsO7E;AAED,wBAAgB,qBAAqB,CAAC,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC;;;;;;;;UAjQ1E,MAAM;kBACE,GAAG;;;;;;;UADX,MAAM;kBACE,GAAG;;;;;;;UADX,MAAM;kBACE,GAAG;KAkXlB"}
+{"version":3,"file":"joint-file-types.d.ts","sourceRoot":"","sources":["../src/joint-file-types.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAC7B,OAAO,KAAK,EAAE,mBAAmB,EAAE,MAAM,mBAAmB,CAAC;AA6B7D,wBAAgB,iBAAiB,CAAC,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC,SAsO7E;AAED,wBAAgB,qBAAqB,CAAC,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC,SAoJjF"}

package/dist-tsc/joint-file-types.js

@@ -304,7 +304,39 @@ export function expandSpatialdataZarr(fileDef) {
         // TODO: obsLocations?
         // TODO: obsLabels
         // TODO: featureLabels
-        // TODO: obsEmbedding
+        // obsEmbedding
+        // eslint-disable-next-line no-nested-ternary
+        ...(options.obsEmbedding ? (Array.isArray(options.obsEmbedding) ? options.obsEmbedding.map((oe) => ({
+            // obsEmbedding was an array, process each element.
+            ...baseFileDef,
+            fileType: getFileType(FileType.OBS_EMBEDDING_SPATIALDATA_ZARR),
+            options: {
+                path: oe.path,
+                dims: oe.dims,
+                tablePath: options.tablePath,
+                region: options.region,
+            },
+            coordinationValues: {
+                ...extraCoordinationValues,
+                obsType: baseFileDef.coordinationValues.obsType,
+                // Move embedding type property out of options and into coordinationValues.
+                embeddingType: oe.embeddingType,
+            },
+        })) : [{
+                // obsEmbedding was an object.
+                ...baseFileDef,
+                fileType: getFileType(FileType.OBS_EMBEDDING_SPATIALDATA_ZARR),
+                options: {
+                    ...options.obsEmbedding,
+                    tablePath: options.tablePath,
+                    region: options.region,
+                },
+                coordinationValues: {
+                    ...extraCoordinationValues,
+                    obsType: baseFileDef.coordinationValues.obsType,
+                    embeddingType: baseFileDef.coordinationValues.embeddingType,
+                },
+            }]) : []),
         // image
         // TODO: handle multiple image elements?
         ...(options.image ? [{

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@vitessce/all",
-  "version": "3.6.13",
+  "version": "3.6.14",
   "author": "HIDIVE Lab at HMS",
   "homepage": "http://vitessce.io",
   "repository": {
@@ -17,37 +17,37 @@
   ],
   "dependencies": {
     "zod": "^3.21.4",
-    "@vitessce/styles": "3.6.13",
-    "@vitessce/constants-internal": "3.6.13",
-    "@vitessce/abstract": "3.6.13",
-    "@vitessce/error": "3.6.13",
-    "@vitessce/csv": "3.6.13",
-    "@vitessce/description": "3.6.13",
-    "@vitessce/feature-list": "3.6.13",
-    "@vitessce/genomic-profiles": "3.6.13",
-    "@vitessce/heatmap": "3.6.13",
-    "@vitessce/glb": "3.6.13",
-    "@vitessce/json": "3.6.13",
-    "@vitessce/layer-controller": "3.6.13",
-    "@vitessce/layer-controller-beta": "3.6.13",
-    "@vitessce/link-controller": "3.6.13",
-    "@vitessce/obs-sets-manager": "3.6.13",
-    "@vitessce/ome-tiff": "3.6.13",
-    "@vitessce/plugins": "3.6.13",
-    "@vitessce/scatterplot-embedding": "3.6.13",
-    "@vitessce/scatterplot-gating": "3.6.13",
-    "@vitessce/schemas": "3.6.13",
-    "@vitessce/spatial": "3.6.13",
-    "@vitessce/spatial-beta": "3.6.13",
-    "@vitessce/statistical-plots": "3.6.13",
-    "@vitessce/status": "3.6.13",
-    "@vitessce/vit-s": "3.6.13",
-    "@vitessce/zarr": "3.6.13",
-    "@vitessce/globals": "3.6.13",
-    "@vitessce/spatial-zarr": "3.6.13",
-    "@vitessce/spatial-three": "3.6.13",
-    "@vitessce/biomarker-select": "3.6.13",
-    "@vitessce/neuroglancer": "3.6.13"
+    "@vitessce/styles": "3.6.14",
+    "@vitessce/constants-internal": "3.6.14",
+    "@vitessce/abstract": "3.6.14",
+    "@vitessce/error": "3.6.14",
+    "@vitessce/csv": "3.6.14",
+    "@vitessce/description": "3.6.14",
+    "@vitessce/feature-list": "3.6.14",
+    "@vitessce/genomic-profiles": "3.6.14",
+    "@vitessce/heatmap": "3.6.14",
+    "@vitessce/glb": "3.6.14",
+    "@vitessce/json": "3.6.14",
+    "@vitessce/layer-controller": "3.6.14",
+    "@vitessce/layer-controller-beta": "3.6.14",
+    "@vitessce/link-controller": "3.6.14",
+    "@vitessce/obs-sets-manager": "3.6.14",
+    "@vitessce/ome-tiff": "3.6.14",
+    "@vitessce/plugins": "3.6.14",
+    "@vitessce/scatterplot-embedding": "3.6.14",
+    "@vitessce/scatterplot-gating": "3.6.14",
+    "@vitessce/schemas": "3.6.14",
+    "@vitessce/spatial": "3.6.14",
+    "@vitessce/spatial-beta": "3.6.14",
+    "@vitessce/statistical-plots": "3.6.14",
+    "@vitessce/status": "3.6.14",
+    "@vitessce/vit-s": "3.6.14",
+    "@vitessce/zarr": "3.6.14",
+    "@vitessce/globals": "3.6.14",
+    "@vitessce/spatial-zarr": "3.6.14",
+    "@vitessce/spatial-three": "3.6.14",
+    "@vitessce/biomarker-select": "3.6.14",
+    "@vitessce/neuroglancer": "3.6.14"
   },
   "devDependencies": {
     "@types/react": "^18.0.28",

package/src/base-plugins.ts

@@ -64,6 +64,7 @@ import {
   obsSpotsSpatialdataSchema,
   obsPointsSpatialdataSchema,
   obsSetsSpatialdataSchema,
+  obsEmbeddingSpatialdataSchema,
   obsSetPath,
   rgbArray,
   obsSetsSchema,
@@ -178,6 +179,7 @@ import {
   SpatialDataObsPointsLoader,
   SpatialDataObsSegmentationsLoader,
   SpatialDataObsSetsLoader,
+  SpatialDataObsEmbeddingLoader,
 } from '@vitessce/spatial-zarr';
 
 import {
@@ -333,6 +335,7 @@ export const baseFileTypes = [
   ...makeZarrFileTypes(FileType.OBS_POINTS_SPATIALDATA_ZARR, DataType.OBS_POINTS, SpatialDataObsPointsLoader, SpatialDataPointsSource, obsPointsSpatialdataSchema),
   ...makeZarrFileTypes(FileType.OBS_FEATURE_MATRIX_SPATIALDATA_ZARR, DataType.OBS_FEATURE_MATRIX, ObsFeatureMatrixAnndataLoader, SpatialDataTableSource, obsFeatureMatrixSpatialdataSchema),
   ...makeZarrFileTypes(FileType.OBS_SETS_SPATIALDATA_ZARR, DataType.OBS_SETS, SpatialDataObsSetsLoader, SpatialDataTableSource, obsSetsSpatialdataSchema),
+  ...makeZarrFileTypes(FileType.OBS_EMBEDDING_SPATIALDATA_ZARR, DataType.OBS_EMBEDDING, SpatialDataObsEmbeddingLoader, SpatialDataTableSource, obsEmbeddingSpatialdataSchema),
   ...makeZarrFileTypes(FileType.FEATURE_LABELS_SPATIALDATA_ZARR, DataType.FEATURE_LABELS, FeatureLabelsAnndataLoader, SpatialDataTableSource, featureLabelsAnndataSchema),
 
   makeFileType(FileType.OBS_SEGMENTATIONS_GLB, DataType.OBS_SEGMENTATIONS, GlbLoader, GlbSource, meshGlbSchema),

package/src/joint-file-types.ts

@@ -323,7 +323,41 @@ export function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchem
     // TODO: obsLocations?
     // TODO: obsLabels
     // TODO: featureLabels
-    // TODO: obsEmbedding
+    // obsEmbedding
+    // eslint-disable-next-line no-nested-ternary
+    ...(options.obsEmbedding ? (
+      Array.isArray(options.obsEmbedding) ? options.obsEmbedding.map((oe: any) => ({
+        // obsEmbedding was an array, process each element.
+        ...baseFileDef,
+        fileType: getFileType(FileType.OBS_EMBEDDING_SPATIALDATA_ZARR),
+        options: {
+          path: oe.path,
+          dims: oe.dims,
+          tablePath: options.tablePath,
+          region: options.region,
+        },
+        coordinationValues: {
+          ...extraCoordinationValues,
+          obsType: baseFileDef.coordinationValues.obsType,
+          // Move embedding type property out of options and into coordinationValues.
+          embeddingType: oe.embeddingType,
+        },
+      })) : [{
+        // obsEmbedding was an object.
+        ...baseFileDef,
+        fileType: getFileType(FileType.OBS_EMBEDDING_SPATIALDATA_ZARR),
+        options: {
+          ...options.obsEmbedding,
+          tablePath: options.tablePath,
+          region: options.region,
+        },
+        coordinationValues: {
+          ...extraCoordinationValues,
+          obsType: baseFileDef.coordinationValues.obsType,
+          embeddingType: baseFileDef.coordinationValues.embeddingType,
+        },
+      }]
+    ) : []),
     // image
     // TODO: handle multiple image elements?
     ...(options.image ? [{