@vitessce/all 3.4.12 → 3.4.14

package/dist/index.js

@@ -1,4 +1,4 @@
-import { b4, b2, b0, b3, b1, a$, b5 } from "./index-8ed3997f.js";
+import { b4, b2, b0, b3, b1, a$, b5 } from "./index-5123f7f4.js";
 import { useComplexCoordination, useComplexCoordinationSecondary, useCoordination, useCoordinationScopes, useCoordinationScopesBy, useGridItemSize, useMultiCoordinationScopesNonNull, useMultiCoordinationScopesSecondaryNonNull } from "@vitessce/vit-s";
 import "react";
 import "react-dom";

package/dist/{jpeg-e383d75a.js → jpeg-3ab1634d.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-8ed3997f.js";
+import { aP as BaseDecoder } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

package/dist/{lerc-e0ea6e91.js → lerc-cf7b320e.js}

@@ -1,5 +1,5 @@
 import { i as inflate_1 } from "./pako.esm-68f84e2a.js";
-import { g as getDefaultExportFromCjs, aP as BaseDecoder, aQ as LercParameters, aR as LercAddCompression } from "./index-8ed3997f.js";
+import { g as getDefaultExportFromCjs, aP as BaseDecoder, aQ as LercParameters, aR as LercAddCompression } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

package/dist/{lzw-9502d20a.js → lzw-e9c46047.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-8ed3997f.js";
+import { aP as BaseDecoder } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

package/dist/{packbits-b61051af.js → packbits-92bb11bc.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-8ed3997f.js";
+import { aP as BaseDecoder } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

package/dist/{raw-54997420.js → raw-cf03ea65.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-8ed3997f.js";
+import { aP as BaseDecoder } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

package/dist/{troika-three-text.esm-315428f3.js → troika-three-text.esm-6964fb1f.js}

@@ -1,4 +1,4 @@
-import { aB as UniformsUtils, aV as MeshDepthMaterial, aW as RGBADepthPacking, aX as MeshDistanceMaterial, aY as ShaderChunk, T as Texture, Z as LinearFilter, aw as InstancedBufferGeometry, au as Sphere, at as Box3, aH as BackSide, a4 as DoubleSide, aZ as InstancedBufferAttribute, V as Vector2, aD as Vector4, h as Color, aJ as Matrix3, a7 as Mesh, ao as FrontSide, a_ as PlaneGeometry, f as BufferGeometry, ax as Float32BufferAttribute, y as MeshBasicMaterial, k as Matrix4, b as Vector3 } from "./index-8ed3997f.js";
+import { aB as UniformsUtils, aV as MeshDepthMaterial, aW as RGBADepthPacking, aX as MeshDistanceMaterial, aY as ShaderChunk, T as Texture, Z as LinearFilter, aw as InstancedBufferGeometry, au as Sphere, at as Box3, aH as BackSide, a4 as DoubleSide, aZ as InstancedBufferAttribute, V as Vector2, aD as Vector4, h as Color, aJ as Matrix3, a7 as Mesh, ao as FrontSide, a_ as PlaneGeometry, f as BufferGeometry, ax as Float32BufferAttribute, y as MeshBasicMaterial, k as Matrix4, b as Vector3 } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

package/dist/{webimage-e4eb8c23.js → webimage-439190b4.js}

@@ -1,4 +1,4 @@
-import { aP as BaseDecoder } from "./index-8ed3997f.js";
+import { aP as BaseDecoder } from "./index-5123f7f4.js";
 import "react";
 import "@vitessce/vit-s";
 import "react-dom";

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

@@ -228,87 +228,59 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
     } | undefined;
 }>> | PluginJointFileType<z.ZodObject<{
     image: z.ZodOptional<z.ZodObject<{
-        coordinateTransformations: z.ZodOptional<z.ZodArray<z.ZodUnion<[z.ZodObject<{
-            type: z.ZodLiteral<"identity">;
-        }, "strip", z.ZodTypeAny, {
-            type: "identity";
-        }, {
-            type: "identity";
-        }>, z.ZodObject<{
-            type: z.ZodLiteral<"translation">;
-            translation: z.ZodArray<z.ZodNumber, "many">;
-        }, "strip", z.ZodTypeAny, {
-            type: "translation";
-            translation: number[];
-        }, {
-            type: "translation";
-            translation: number[];
-        }>, z.ZodObject<{
-            type: z.ZodLiteral<"scale">;
-            scale: z.ZodArray<z.ZodNumber, "many">;
-        }, "strip", z.ZodTypeAny, {
-            type: "scale";
-            scale: number[];
-        }, {
-            type: "scale";
-            scale: number[];
-        }>]>, "many">>;
         path: z.ZodString;
+        coordinateSystem: z.ZodOptional<z.ZodString>;
     }, "strip", z.ZodTypeAny, {
         path: string;
-        coordinateTransformations?: ({
-            type: "identity";
-        } | {
-            type: "translation";
-            translation: number[];
-        } | {
-            type: "scale";
-            scale: number[];
-        })[] | undefined;
+        coordinateSystem?: string | undefined;
     }, {
         path: string;
-        coordinateTransformations?: ({
-            type: "identity";
-        } | {
-            type: "translation";
-            translation: number[];
-        } | {
-            type: "scale";
-            scale: number[];
-        })[] | undefined;
+        coordinateSystem?: string | undefined;
     }>>;
     labels: z.ZodOptional<z.ZodObject<{
         path: z.ZodString;
+        tablePath: z.ZodOptional<z.ZodString>;
+        coordinateSystem: z.ZodOptional<z.ZodString>;
     }, "strip", z.ZodTypeAny, {
         path: string;
+        tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     }, {
         path: string;
+        tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     }>>;
     obsFeatureMatrix: z.ZodOptional<z.ZodObject<{
         path: z.ZodString;
         featureFilterPath: z.ZodOptional<z.ZodString>;
         initialFeatureFilterPath: z.ZodOptional<z.ZodString>;
         region: z.ZodOptional<z.ZodString>;
+        coordinateSystem: z.ZodOptional<z.ZodString>;
     }, "strip", z.ZodTypeAny, {
         path: string;
         featureFilterPath?: string | undefined;
         initialFeatureFilterPath?: string | undefined;
         region?: string | undefined;
+        coordinateSystem?: string | undefined;
     }, {
         path: string;
         featureFilterPath?: string | undefined;
         initialFeatureFilterPath?: string | undefined;
         region?: string | undefined;
+        coordinateSystem?: string | undefined;
     }>>;
     obsSpots: z.ZodOptional<z.ZodObject<{
         path: z.ZodString;
         tablePath: z.ZodOptional<z.ZodString>;
+        coordinateSystem: z.ZodOptional<z.ZodString>;
     }, "strip", z.ZodTypeAny, {
         path: string;
         tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     }, {
         path: string;
         tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     }>>;
     obsSets: z.ZodOptional<z.ZodObject<{
         region: z.ZodOptional<z.ZodString>;
@@ -343,31 +315,28 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
         region?: string | undefined;
         tablePath?: string | undefined;
     }>>;
+    coordinateSystem: z.ZodOptional<z.ZodOptional<z.ZodString>>;
 }, "strip", z.ZodTypeAny, {
     image?: {
         path: string;
-        coordinateTransformations?: ({
-            type: "identity";
-        } | {
-            type: "translation";
-            translation: number[];
-        } | {
-            type: "scale";
-            scale: number[];
-        })[] | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     labels?: {
         path: string;
+        tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     obsFeatureMatrix?: {
         path: string;
         featureFilterPath?: string | undefined;
         initialFeatureFilterPath?: string | undefined;
         region?: string | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     obsSpots?: {
         path: string;
         tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     obsSets?: {
         obsSets: {
@@ -378,31 +347,28 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
         region?: string | undefined;
         tablePath?: string | undefined;
     } | undefined;
+    coordinateSystem?: string | undefined;
 }, {
     image?: {
         path: string;
-        coordinateTransformations?: ({
-            type: "identity";
-        } | {
-            type: "translation";
-            translation: number[];
-        } | {
-            type: "scale";
-            scale: number[];
-        })[] | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     labels?: {
         path: string;
+        tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     obsFeatureMatrix?: {
         path: string;
         featureFilterPath?: string | undefined;
         initialFeatureFilterPath?: string | undefined;
         region?: string | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     obsSpots?: {
         path: string;
         tablePath?: string | undefined;
+        coordinateSystem?: string | undefined;
     } | undefined;
     obsSets?: {
         obsSets: {
@@ -413,6 +379,7 @@ export declare const baseJointFileTypes: (PluginJointFileType<z.ZodObject<{
         region?: string | undefined;
         tablePath?: string | undefined;
     } | undefined;
+    coordinateSystem?: string | undefined;
 }>> | PluginJointFileType<z.ZodObject<{
     xy: z.ZodOptional<z.ZodString>;
     poly: 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":"AAUA,OAAO,EACL,cAAc,EACd,mBAAmB,EACnB,cAAc,EACd,sBAAsB,EACvB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EACV,UAAU,EACV,UAAU,EACX,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EACL,CAAC,EA6CF,MAAM,mBAAmB,CAAC;AAyI3B,eAAO,MAAM,aAAa,kBAmBzB,CAAC;AAEF,eAAO,MAAM,aAAa,wDAqEzB,CAAC;AAEF,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;yBA2D2C,CAAC;gCACxC,CAAC;;;yBACf,CAAC;gCAAsD,CAAC;;;;;;;;;iBAIP,CAAC;;;;iBAE3D,CAAC;;;;;;;YASL,CAAC;;;YAGc,CAAC;;;;;;;YAMgC,CAAC;;;YACX,CAAC;;;;;;;YAGvB,CAAC;;;YACvB,CAAA;;;;;;;;;;;;;;YAcI,CAAC;;;YAGH,CAAC;;;;;;;;YAO8C,CAAC;;;;YACH,CAAC;;;;;;;;;;;;;;;;;;;;;;;;yBAsB9C,CAAA;gCAEK,CAAC;;;;;iBAQN,CAAD;;;;YAE2B,CAAC;;;;YAIxB,CAAC;;;;YAI0B,CAAC;;;;;;;YAKL,CAAC;;;;YACqB,CAAC;;;;;;;;;;;;;;;;;;;;yBAKzB,CAAC;gCAAsD,CAAC;;;;;iBAEf,CAAC;;;;YACF,CAAC;;;;YACH,CAAC;;;;YACX,CAAC;;;;;;;YAExB,CAAC;;;;YACU,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;iCAgD+uG,CAAC;;;;;;;;;;;iCAAqR,CAAC;;;;;;;;;;;;;;;;;;;;;;;;yBAA4rB,CAAC;gCAAsD,CAAC;cAAoC,CAAC;;;yBAA8E,CAAC;gCAAsD,CAAC;cAAoC,CAAC;;;;;;;iBAA0N,CAAC;;;iBAAsE,CAAC;;;;;;;;;;;;qBAAygB,CAAC;;;;qBAA2J,CAAC;;;;;;qBAAsN,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;qBAA0K,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;iCAAgI,CAAC;;;;;;;;;;;;;;;yBAAwW,CAAC;gCAAsD,CAAC;cAAoC,CAAC;;;;iBAAiG,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;iCAAmH,CAAC;;;;;;;;;;;;;;;yBAAwW,CAAC;gCAAsD,CAAC;cAAoC,CAAC;;;;iBAAiG,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;sBAzb9zP,CAAC;;;;;qBAIjC,CAAC;qBAErB,CAAC;;;;;;;;;qBAYH,CAAC;6BAEK,CAAC;;sBAEM,CAAC;;;;;qBAWT,CAAC;qBACM,CAAC;;;;;;;;;qBAOF,CAAC;6BAEP,CAAC;;;;;;;;;;;;;kBAyBI,CAAC;mBAEC,CAAC;gBAEL,CAAC;gBACS,CAAC;uBAEW,CAAC;iBAG9B,CAAC;oBAEI,CAAC;oBAKT,CADC;qBAEc,CAAC;;kBAEO,CAAC;mBAEA,CAAC;gBAEJ,CAAC;gBAEpB,CAAA;uBAEI,CAAC;iBACS,CAAC;oBAEA,CAAC;oBAED,CAAC;qBAEI,CAAA;;;;;;gBAEsC,CAAC;sBAA0B,CAAC;;;;;qBAI3E,CAAA;qBAA4C,CAAC;;;;;;;;;qBAGqD,CAAC;6BAAoD,CAAC;;mBACxH,CAAC;kBAExC,CAAC;mBAAyC,CAAC;gBAC7C,CAAJ;gBAAsC,CAAC;uBAClB,CAAC;iBAAuC,CAAC;oBAClC,CAAC;oBAEhB,CAAC;qBAA2C,CAAC;;;;;;gBAMlC,CAAC;sBAA0B,CAAC;;;;;qBAI1C,CAAC;qBACT,CAAC;;;;;;;;;qBAID,CAAA;6BAAoD,CAAC;;mBACf,CAAC;kBAC7B,CAAC;mBAAyC,CAAC;gBAC3C,CAAC;gBAAsC,CAAC;uBACvB,CAAC;iBAAuC,CAAC;oBACvC,CAAC;oBAC3B,CAAC;qBACH,CAAC;;;;;;;;;gBAM8B,CAAC;sBAA0B,CAAC;;;;;qBAE7B,CAAC;qBAA4C,CAAC;;;;;;;;;qBAEuB,CAAC;6BACzE,CAAC;;mBAAgE,CAAC;kBAC3F,CAAC;mBAA0C,CAAA;gBAAmD,CAAC;gBACxF,CAAC;uBAA6C,CAAC;iBAAuC,CAAC;oBACvF,CAAC;oBAA0C,CAAC;qBAA2C,CAAC;;;;;;;;;;;gBAI/F,CAAA;sBACF,CAAC;;;;;qBACmE,CAAC;qBAA4C,CAAC;;;;;;;;;qBAE/C,CAAC;6BAAoD,CAAC;;mBAC9E,CAAC;kBAAsB,CAAC;mBAAyC,CAAC;gBACvG,CAAC;gBAAsC,CAAC;uBAA6C,CAAC;iBAAuC,CAAC;oBACpG,CAAC;oBAA0C,CAAC;qBAA2C,CAAC;;;;;;;;;;;;;;OAmE1H,CAAC;AAIF,eAAO,MAAM,qBAAqB;;;;;;;;aAtShC,CAAD;cACa,CAAC;eAEF,CAAC;;;aAIV,CAAC;cACe,CAAC;eAEd,CAAC;;;;;;;;;;;;;;;;;;;aAoCP,CAAC;cACQ,CAAC;eAAuC,CAAC;;;;;;;;;;;;;;;;;;;aAUjD,CAAC;cAAsC,CAAC;eACd,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;aA1D3B,CAAD;cACa,CAAC;eAEF,CAAC;;;aAIV,CAAC;cACe,CAAC;eAEd,CAAC;;;;;;;;;;;;;;;;;;;aAoCP,CAAC;cACQ,CAAC;eAAuC,CAAC;;;;;;;;;;;;;;;;;;;aAUjD,CAAC;cAAsC,CAAC;eACd,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;4hBAsb5B,CAAC"}
+{"version":3,"file":"base-plugins.d.ts","sourceRoot":"","sources":["../src/base-plugins.ts"],"names":[],"mappings":"AAUA,OAAO,EACL,cAAc,EACd,mBAAmB,EACnB,cAAc,EACd,sBAAsB,EACvB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EACV,UAAU,EACV,UAAU,EACX,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EACL,CAAC,EA6CF,MAAM,mBAAmB,CAAC;AAyI3B,eAAO,MAAM,aAAa,kBAmBzB,CAAC;AAEF,eAAO,MAAM,aAAa,wDAqEzB,CAAC;AAEF,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;yBAuDU,CAAC;gCACpC,CAAC;;;yBAA8E,CAAC;gCACrC,CAAC;;;;;;;;;iBAIJ,CAAC;;;;iBAE7C,CAAD;;;;;;;YAE6C,CAAC;;;YAC/B,CAAC;;;;;;;YAMR,CAAC;;;YAGa,CAAC;;;;;;;YASW,CAAC;;;YACX,CAAC;;;;;;;;;;;;;;YAKT,CAAC;;;YAGb,CAAC;;;;;;;;YAQsB,CAAC;;;;YAKvB,CAAD;;;;;;;;;;;;;;;;;;;;;;;;yBAcF,CAAC;gCAEmB,CAAC;;;;;iBAK6B,CAAC;;;;YAKtB,CAAC;;;;YAKpB,CAAC;;;;YAKH,CAAC;;;;;;;YAMR,CAAC;;;;YAIa,CAAC;;;;;;;;;;;;;;;;;;;;yBAYjB,CAAF;gCAAsD,CAAC;;;;;iBAE1B,CAAC;;;;YACF,CAAC;;;;YACS,CAAC;;;;YACS,CAAC;;;;;;;YAEvB,CAAC;;;;YACC,CAAC;;;;;;;;;;;wBAoD+jE,CAAC;;;wBAA6E,CAAC;;;;;;;;iBAA8Q,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;;;;iBAA+F,CAAC;wBAA8C,CAAC;;;;yBAAiH,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;iBAAiG,CAAC;wBAA8C,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;wBAAqJ,CAAC;;;;iBAA+F,CAAC;wBAA8C,CAAC;;;;yBAAiH,CAAC;gCAAsD,CAAC;cAAoC,CAAC;wBAA8C,CAAC;;;;iBAAiG,CAAC;wBAA8C,CAAC;;;;;;qBAAoM,CAAC;;cAAiD,CAAC;iBAAuC,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;sBAzbx3N,CAAC;;;;;qBAIjC,CAAC;qBAErB,CAAC;;;;;;;;;qBAYH,CAAC;6BAEK,CAAC;;sBAEM,CAAC;;;;;qBAWT,CAAC;qBACM,CAAC;;;;;;;;;qBAOF,CAAC;6BAEP,CAAC;;;;;;;;;;;;;kBAyBI,CAAC;mBAEC,CAAC;gBAEL,CAAC;gBACS,CAAC;uBAEW,CAAC;iBAG9B,CAAC;oBAEI,CAAC;oBAKT,CADC;qBAEc,CAAC;;kBAEO,CAAC;mBAEA,CAAC;gBAEJ,CAAC;gBAEpB,CAAA;uBAEI,CAAC;iBACS,CAAC;oBAEA,CAAC;oBAED,CAAC;qBAEI,CAAA;;;;;;gBAEsC,CAAC;sBAA0B,CAAC;;;;;qBAI3E,CAAA;qBAA4C,CAAC;;;;;;;;;qBAGqD,CAAC;6BAAoD,CAAC;;mBACxH,CAAC;kBAExC,CAAC;mBAAyC,CAAC;gBAC7C,CAAJ;gBAAsC,CAAC;uBAClB,CAAC;iBAAuC,CAAC;oBAClC,CAAC;oBAEhB,CAAC;qBAA2C,CAAC;;;;;;gBAMlC,CAAC;sBAA0B,CAAC;;;;;qBAI1C,CAAC;qBACT,CAAC;;;;;;;;;qBAID,CAAA;6BAAoD,CAAC;;mBACf,CAAC;kBAC7B,CAAC;mBAAyC,CAAC;gBAC3C,CAAC;gBAAsC,CAAC;uBACvB,CAAC;iBAAuC,CAAC;oBACvC,CAAC;oBAC3B,CAAC;qBACH,CAAC;;;;;;;;;gBAM8B,CAAC;sBAA0B,CAAC;;;;;qBAE7B,CAAC;qBAA4C,CAAC;;;;;;;;;qBAEuB,CAAC;6BACzE,CAAC;;mBAAgE,CAAC;kBAC3F,CAAC;mBAA0C,CAAA;gBAAmD,CAAC;gBACxF,CAAC;uBAA6C,CAAC;iBAAuC,CAAC;oBACvF,CAAC;oBAA0C,CAAC;qBAA2C,CAAC;;;;;;;;;;;gBAI/F,CAAA;sBACF,CAAC;;;;;qBACmE,CAAC;qBAA4C,CAAC;;;;;;;;;qBAE/C,CAAC;6BAAoD,CAAC;;mBAC9E,CAAC;kBAAsB,CAAC;mBAAyC,CAAC;gBACvG,CAAC;gBAAsC,CAAC;uBAA6C,CAAC;iBAAuC,CAAC;oBACpG,CAAC;oBAA0C,CAAC;qBAA2C,CAAC;;;;;;;;;;;;;;OAmE1H,CAAC;AAIF,eAAO,MAAM,qBAAqB;;;;;;;;aAtShC,CAAD;cACa,CAAC;eAEF,CAAC;;;aAIV,CAAC;cACe,CAAC;eAEd,CAAC;;;;;;;;;;;;;;;;;;;aAoCP,CAAC;cACQ,CAAC;eAAuC,CAAC;;;;;;;;;;;;;;;;;;;aAUjD,CAAC;cAAsC,CAAC;eACd,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;aA1D3B,CAAD;cACa,CAAC;eAEF,CAAC;;;aAIV,CAAC;cACe,CAAC;eAEd,CAAC;;;;;;;;;;;;;;;;;;;aAoCP,CAAC;cACQ,CAAC;eAAuC,CAAC;;;;;;;;;;;;;;;;;;;aAUjD,CAAC;cAAsC,CAAC;eACd,CAAC;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;4hBAsb5B,CAAC"}

package/dist-tsc/base-plugins.js

@@ -117,9 +117,9 @@ export const baseFileTypes = [
     makeFileType(FileType.OBS_SEGMENTATIONS_MUDATA_ZARR, DataType.OBS_SEGMENTATIONS, ObsSegmentationsAnndataLoader, MuDataSource, obsSegmentationsAnndataSchema),
     makeFileType(FileType.FEATURE_LABELS_MUDATA_ZARR, DataType.FEATURE_LABELS, FeatureLabelsAnndataLoader, MuDataSource, featureLabelsAnndataSchema),
     // All OME file types
-    makeFileType(FileType.IMAGE_OME_ZARR, DataType.IMAGE, OmeZarrLoader, ZarrDataSource, imageOmeZarrSchema),
+    ...makeZarrFileTypes(FileType.IMAGE_OME_ZARR, DataType.IMAGE, OmeZarrLoader, ZarrDataSource, imageOmeZarrSchema),
     makeFileType(FileType.IMAGE_OME_TIFF, DataType.IMAGE, OmeTiffLoader, OmeTiffSource, imageOmeTiffSchema),
-    makeFileType(FileType.OBS_SEGMENTATIONS_OME_ZARR, DataType.OBS_SEGMENTATIONS, OmeZarrAsObsSegmentationsLoader, ZarrDataSource, obsSegmentationsOmeZarrSchema),
+    ...makeZarrFileTypes(FileType.OBS_SEGMENTATIONS_OME_ZARR, DataType.OBS_SEGMENTATIONS, OmeZarrAsObsSegmentationsLoader, ZarrDataSource, obsSegmentationsOmeZarrSchema),
     makeFileType(FileType.OBS_SEGMENTATIONS_OME_TIFF, DataType.OBS_SEGMENTATIONS, OmeTiffAsObsSegmentationsLoader, OmeTiffSource, obsSegmentationsOmeTiffSchema),
     // SpatialData file types
     makeFileType(FileType.IMAGE_SPATIALDATA_ZARR, DataType.IMAGE, SpatialDataImageLoader, ZarrDataSource, imageSpatialdataSchema),

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,SAqN7E;AAED,wBAAgB,qBAAqB,CAAC,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC;;;;;;;;UAhP1E,MAAM;kBACE,GAAG;;;;;;;UADX,MAAM;kBACE,GAAG;;;;;;;UADX,MAAM;kBACE,GAAG;KA2TlB"}
+{"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,SAqN7E;AAED,wBAAgB,qBAAqB,CAAC,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC;;;;;;;;UAhP1E,MAAM;kBACE,GAAG;;;;;;;UADX,MAAM;kBACE,GAAG;;;;;;;UADX,MAAM;kBACE,GAAG;KA6UlB"}

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

@@ -242,8 +242,10 @@ export function expandSpatialdataZarr(fileDef) {
         }
     });
     const { options = {} } = fileDef;
+    const defaultCoordinateSystem = options.coordinateSystem;
     return [
         // obsFeatureMatrix
+        // TODO: handle multiple obsFeatureMatrix?
         ...(options.obsFeatureMatrix ? [{
                 ...baseFileDef,
                 fileType: FileType.OBS_FEATURE_MATRIX_SPATIALDATA_ZARR,
@@ -256,6 +258,7 @@ export function expandSpatialdataZarr(fileDef) {
                 },
             }] : []),
         // obsSets
+        // TODO: handle multiple obsSets?
         ...(options.obsSets ? [{
                 ...baseFileDef,
                 fileType: FileType.OBS_SETS_SPATIALDATA_ZARR,
@@ -266,10 +269,14 @@ export function expandSpatialdataZarr(fileDef) {
                 },
             }] : []),
         // obsSpots
+        // TODO: handle multiple obsSpots?
         ...(options.obsSpots ? [{
                 ...baseFileDef,
                 fileType: FileType.OBS_SPOTS_SPATIALDATA_ZARR,
-                options: options.obsSpots,
+                options: {
+                    coordinateSystem: defaultCoordinateSystem,
+                    ...options.obsSpots,
+                },
                 coordinationValues: {
                     ...extraCoordinationValues,
                     obsType: baseFileDef.coordinationValues.obsType,
@@ -277,11 +284,18 @@ export function expandSpatialdataZarr(fileDef) {
             }] : []),
         // TODO: obsPoints?
         // TODO: obsLocations?
+        // TODO: obsLabels
+        // TODO: featureLabels
+        // TODO: obsEmbedding
         // image
+        // TODO: handle multiple images
         ...(options.image ? [{
                 ...baseFileDef,
                 fileType: FileType.IMAGE_SPATIALDATA_ZARR,
-                options: options.image,
+                options: {
+                    coordinateSystem: defaultCoordinateSystem,
+                    ...options.image,
+                },
                 coordinationValues: {
                     ...extraCoordinationValues,
                     featureType: baseFileDef.coordinationValues.featureType,
@@ -289,10 +303,14 @@ export function expandSpatialdataZarr(fileDef) {
                 },
             }] : []),
         // labels
+        // TODO: handle multiple labels?
         ...(options.labels ? [{
                 ...baseFileDef,
                 fileType: FileType.LABELS_SPATIALDATA_ZARR,
-                options: options.labels,
+                options: {
+                    coordinateSystem: defaultCoordinateSystem,
+                    ...options.labels,
+                },
                 coordinationValues: {
                     ...extraCoordinationValues,
                     obsType: baseFileDef.coordinationValues.obsType,

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@vitessce/all",
-  "version": "3.4.12",
+  "version": "3.4.14",
   "author": "Gehlenborg Lab",
   "homepage": "http://vitessce.io",
   "repository": {
@@ -18,29 +18,29 @@
   "dependencies": {
     "@material-ui/core": "~4.12.3",
     "zod": "^3.21.4",
-    "@vitessce/constants-internal": "3.4.12",
-    "@vitessce/csv": "3.4.12",
-    "@vitessce/description": "3.4.12",
-    "@vitessce/feature-list": "3.4.12",
-    "@vitessce/genomic-profiles": "3.4.12",
-    "@vitessce/heatmap": "3.4.12",
-    "@vitessce/glb": "3.4.12",
-    "@vitessce/json": "3.4.12",
-    "@vitessce/layer-controller": "3.4.12",
-    "@vitessce/layer-controller-beta": "3.4.12",
-    "@vitessce/obs-sets-manager": "3.4.12",
-    "@vitessce/ome-tiff": "3.4.12",
-    "@vitessce/plugins": "3.4.12",
-    "@vitessce/scatterplot-embedding": "3.4.12",
-    "@vitessce/scatterplot-gating": "3.4.12",
-    "@vitessce/schemas": "3.4.12",
-    "@vitessce/spatial": "3.4.12",
-    "@vitessce/spatial-beta": "3.4.12",
-    "@vitessce/statistical-plots": "3.4.12",
-    "@vitessce/status": "3.4.12",
-    "@vitessce/vit-s": "3.4.12",
-    "@vitessce/zarr": "3.4.12",
-    "@vitessce/spatial-three": "3.4.12"
+    "@vitessce/constants-internal": "3.4.14",
+    "@vitessce/csv": "3.4.14",
+    "@vitessce/description": "3.4.14",
+    "@vitessce/feature-list": "3.4.14",
+    "@vitessce/genomic-profiles": "3.4.14",
+    "@vitessce/heatmap": "3.4.14",
+    "@vitessce/glb": "3.4.14",
+    "@vitessce/json": "3.4.14",
+    "@vitessce/layer-controller": "3.4.14",
+    "@vitessce/layer-controller-beta": "3.4.14",
+    "@vitessce/obs-sets-manager": "3.4.14",
+    "@vitessce/ome-tiff": "3.4.14",
+    "@vitessce/plugins": "3.4.14",
+    "@vitessce/scatterplot-embedding": "3.4.14",
+    "@vitessce/scatterplot-gating": "3.4.14",
+    "@vitessce/schemas": "3.4.14",
+    "@vitessce/spatial": "3.4.14",
+    "@vitessce/spatial-beta": "3.4.14",
+    "@vitessce/statistical-plots": "3.4.14",
+    "@vitessce/status": "3.4.14",
+    "@vitessce/vit-s": "3.4.14",
+    "@vitessce/zarr": "3.4.14",
+    "@vitessce/spatial-three": "3.4.14"
   },
   "devDependencies": {
     "@types/react": "^18.0.28",

package/src/base-plugins.ts

@@ -259,9 +259,9 @@ export const baseFileTypes = [
   makeFileType(FileType.OBS_SEGMENTATIONS_MUDATA_ZARR, DataType.OBS_SEGMENTATIONS, ObsSegmentationsAnndataLoader, MuDataSource, obsSegmentationsAnndataSchema),
   makeFileType(FileType.FEATURE_LABELS_MUDATA_ZARR, DataType.FEATURE_LABELS, FeatureLabelsAnndataLoader, MuDataSource, featureLabelsAnndataSchema),
   // All OME file types
-  makeFileType(FileType.IMAGE_OME_ZARR, DataType.IMAGE, OmeZarrLoader, ZarrDataSource, imageOmeZarrSchema),
+  ...makeZarrFileTypes(FileType.IMAGE_OME_ZARR, DataType.IMAGE, OmeZarrLoader, ZarrDataSource, imageOmeZarrSchema),
   makeFileType(FileType.IMAGE_OME_TIFF, DataType.IMAGE, OmeTiffLoader, OmeTiffSource, imageOmeTiffSchema),
-  makeFileType(FileType.OBS_SEGMENTATIONS_OME_ZARR, DataType.OBS_SEGMENTATIONS, OmeZarrAsObsSegmentationsLoader, ZarrDataSource, obsSegmentationsOmeZarrSchema),
+  ...makeZarrFileTypes(FileType.OBS_SEGMENTATIONS_OME_ZARR, DataType.OBS_SEGMENTATIONS, OmeZarrAsObsSegmentationsLoader, ZarrDataSource, obsSegmentationsOmeZarrSchema),
   makeFileType(FileType.OBS_SEGMENTATIONS_OME_TIFF, DataType.OBS_SEGMENTATIONS, OmeTiffAsObsSegmentationsLoader, OmeTiffSource, obsSegmentationsOmeTiffSchema),
   // SpatialData file types
   makeFileType(FileType.IMAGE_SPATIALDATA_ZARR, DataType.IMAGE, SpatialDataImageLoader, ZarrDataSource, imageSpatialdataSchema),

package/src/joint-file-types.ts

@@ -261,8 +261,10 @@ export function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchem
     }
   });
   const { options = {} } = fileDef;
+  const defaultCoordinateSystem = options.coordinateSystem;
   return [
     // obsFeatureMatrix
+    // TODO: handle multiple obsFeatureMatrix?
     ...(options.obsFeatureMatrix ? [{
       ...baseFileDef,
       fileType: FileType.OBS_FEATURE_MATRIX_SPATIALDATA_ZARR,
@@ -275,6 +277,7 @@ export function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchem
       },
     }] : []),
     // obsSets
+    // TODO: handle multiple obsSets?
     ...(options.obsSets ? [{
       ...baseFileDef,
       fileType: FileType.OBS_SETS_SPATIALDATA_ZARR,
@@ -285,10 +288,14 @@ export function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchem
       },
     }] : []),
     // obsSpots
+    // TODO: handle multiple obsSpots?
     ...(options.obsSpots ? [{
       ...baseFileDef,
       fileType: FileType.OBS_SPOTS_SPATIALDATA_ZARR,
-      options: options.obsSpots,
+      options: {
+        coordinateSystem: defaultCoordinateSystem,
+        ...options.obsSpots,
+      },
       coordinationValues: {
         ...extraCoordinationValues,
         obsType: baseFileDef.coordinationValues.obsType,
@@ -296,11 +303,18 @@ export function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchem
     }] : []),
     // TODO: obsPoints?
     // TODO: obsLocations?
+    // TODO: obsLabels
+    // TODO: featureLabels
+    // TODO: obsEmbedding
     // image
+    // TODO: handle multiple images
     ...(options.image ? [{
       ...baseFileDef,
       fileType: FileType.IMAGE_SPATIALDATA_ZARR,
-      options: options.image,
+      options: {
+        coordinateSystem: defaultCoordinateSystem,
+        ...options.image,
+      },
       coordinationValues: {
         ...extraCoordinationValues,
         featureType: baseFileDef.coordinationValues.featureType,
@@ -308,10 +322,14 @@ export function expandSpatialdataZarr(fileDef: z.infer<typeof latestFileDefSchem
       },
     }] : []),
     // labels
+    // TODO: handle multiple labels?
     ...(options.labels ? [{
       ...baseFileDef,
       fileType: FileType.LABELS_SPATIALDATA_ZARR,
-      options: options.labels,
+      options: {
+        coordinateSystem: defaultCoordinateSystem,
+        ...options.labels,
+      },
       coordinationValues: {
         ...extraCoordinationValues,
         obsType: baseFileDef.coordinationValues.obsType,