@vitessce/vega 3.9.5 → 3.9.7

package/dist/index.js

@@ -52603,6 +52603,7 @@ const FileType$1 = {
   // Neuroglancer
   // Precomputed (mesh) format
   OBS_SEGMENTATIONS_NG_PRECOMPUTED: "obsSegmentations.ng-precomputed",
+  OBS_POINTS_NG_ANNOTATIONS: "obsPoints.ng-annotations",
   // New file types to support old file types:
   // - cells.json
   OBS_EMBEDDING_CELLS_JSON: "obsEmbedding.cells.json",
@@ -52831,6 +52832,7 @@ const CoordinationType$1 = {
   [FileType$1.FEATURE_LABELS_MUDATA_ZARR]: DataType$1.FEATURE_LABELS,
   [FileType$1.OBS_SEGMENTATIONS_GLB]: DataType$1.OBS_SEGMENTATIONS,
   [FileType$1.OBS_SEGMENTATIONS_NG_PRECOMPUTED]: DataType$1.OBS_SEGMENTATIONS,
+  [FileType$1.OBS_POINTS_NG_ANNOTATIONS]: DataType$1.OBS_POINTS,
   [FileType$1.IMAGE_SPATIALDATA_ZARR]: DataType$1.IMAGE,
   [FileType$1.LABELS_SPATIALDATA_ZARR]: DataType$1.OBS_SEGMENTATIONS,
   [FileType$1.SHAPES_SPATIALDATA_ZARR]: DataType$1.OBS_SEGMENTATIONS,
@@ -53050,6 +53052,8 @@ const CoordinationType$1 = {
 ];
 ({
   [ViewType$1.NEUROGLANCER]: [
+    CoordinationType$1.META_COORDINATION_SCOPES,
+    CoordinationType$1.META_COORDINATION_SCOPES_BY,
     CoordinationType$1.DATASET,
     CoordinationType$1.SPATIAL_TARGET_X,
     CoordinationType$1.SPATIAL_TARGET_Y,
@@ -53071,7 +53075,26 @@ const CoordinationType$1 = {
     CoordinationType$1.OBS_COLOR_ENCODING,
     CoordinationType$1.EMBEDDING_TYPE,
     CoordinationType$1.ADDITIONAL_OBS_SETS,
-    CoordinationType$1.TOOLTIPS_VISIBLE
+    CoordinationType$1.TOOLTIPS_VISIBLE,
+    CoordinationType$1.FILE_UID,
+    CoordinationType$1.IMAGE_LAYER,
+    CoordinationType$1.SEGMENTATION_LAYER,
+    CoordinationType$1.IMAGE_CHANNEL,
+    CoordinationType$1.SEGMENTATION_CHANNEL,
+    CoordinationType$1.POINT_LAYER,
+    CoordinationType$1.FEATURE_COLOR,
+    CoordinationType$1.FEATURE_FILTER_MODE,
+    CoordinationType$1.FEATURE_HIGHLIGHT,
+    CoordinationType$1.FEATURE_SELECTION,
+    CoordinationType$1.FEATURE_VALUE_COLORMAP,
+    CoordinationType$1.FEATURE_VALUE_COLORMAP_RANGE,
+    CoordinationType$1.SPATIAL_LAYER_COLOR,
+    CoordinationType$1.SPATIAL_LAYER_OPACITY,
+    CoordinationType$1.SPATIAL_LAYER_VISIBLE,
+    CoordinationType$1.SPATIAL_CHANNEL_COLOR,
+    CoordinationType$1.SPATIAL_CHANNEL_OPACITY,
+    CoordinationType$1.SPATIAL_CHANNEL_VISIBLE,
+    CoordinationType$1.LEGEND_VISIBLE
   ],
   [ViewType$1.SCATTERPLOT]: [
     CoordinationType$1.DATASET,
@@ -54115,14 +54138,23 @@ z.object({
 z.object({
   // TODO: Should this explicitly specify sharded vs. unsharded?
   // Or can/should that be inferred from the data?
-  dimensionX: z.number(),
-  dimensionY: z.number(),
-  dimensionZ: z.number(),
-  dimensionUnit: z.enum(["nm", "um", "µm", "mm", "cm", "m"]),
+  // Note: None of these make sense to specify at the file level, since they
+  // are global camera settings that would apply to all layers.
+  // Intead, initial values should be set via the usual coordination space mechanism,
+  // and the NeuroglancerSubscriber should handle conversion into values to pass to Neuroglancer.
+  // dimensionX: z.number(),
+  // dimensionY: z.number(),
+  // dimensionZ: z.number(),
+  // dimensionUnit: z.enum(['nm', 'um', 'µm', 'mm', 'cm', 'm']),
   // TODO: should the following be passed via coordination types instead?
-  projectionScale: z.number(),
-  position: z.array(z.number()).length(3),
-  projectionOrientation: z.array(z.number()).length(4)
+  // projectionScale: z.number(),
+  // position: z.array(z.number()).length(3),
+  // projectionOrientation: z.array(z.number()).length(4),
+}).partial().nullable();
+z.object({
+  projectionAnnotationSpacing: z.number(),
+  featureIndexProp: z.string().optional().describe("The name of the Neuroglancer AnnotationProperty containing feature IDs. For example, specify 'gene' to use prop_gene() in the Neuroglancer shader code."),
+  pointIndexProp: z.string().optional().describe("The name of the Neuroglancer AnnotationProperty containing point IDs. For example, specify 'point_id' to use prop_point_id() in the Neuroglancer shader code.")
 }).partial().nullable();
 z.object({
   obsIndex: z.string(),

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@vitessce/vega",
-  "version": "3.9.5",
+  "version": "3.9.7",
   "author": "HIDIVE Lab at HMS",
   "homepage": "http://vitessce.io",
   "repository": {
@@ -21,9 +21,9 @@
     "vega": "^5.21.0",
     "vega-lite": "^5.1.1",
     "vega-tooltip": "^0.27.0",
-    "@vitessce/tooltip": "3.9.5",
-    "@vitessce/legend": "3.9.5",
-    "@vitessce/styles": "3.9.5"
+    "@vitessce/styles": "3.9.7",
+    "@vitessce/tooltip": "3.9.7",
+    "@vitessce/legend": "3.9.7"
   },
   "devDependencies": {
     "react": "18.3.1",