MetaCell · aranega · Aug 15, 2025 · Aug 15, 2025 · Sep 4, 2025 · Sep 4, 2025
diff --git a/apiv2/database/migrations/versions/20251028_082407_autogenerated.py b/apiv2/database/migrations/versions/20251028_082407_autogenerated.py
diff --git a/apiv2/db_import/tests/conftest.py b/apiv2/db_import/tests/conftest.py
@@ -133,5 +133,5 @@ def expected_dataset(http_prefix: str) -> dict[str, Any]:
         "key_photo_url": f"{http_prefix}/{DATASET_ID}/KeyPhoto/snapshot.png",
         "key_photo_thumbnail_url": f"{http_prefix}/{DATASET_ID}/KeyPhoto/thumbnail.png",
         "deposition_id": 300,
-        "file_size": 1374354.0,
+        "file_size": 1374808.0,
     }
diff --git a/apiv2/db_import/tests/test_db_annotation_import.py b/apiv2/db_import/tests/test_db_annotation_import.py
@@ -53,6 +53,24 @@ def expected_annotations(http_prefix: str) -> list[dict[str, Any]]:
 def expected_annotation_files(http_prefix: str) -> list[dict[str, Any]]:
     path = f"{DATASET_ID}/RUN1/Reconstructions/VoxelSpacing12.300/Annotations/"
     return [
+        {
+            "tomogram_voxel_spacing_id": TOMOGRAM_VOXEL_ID1,
+            "s3_path": f"s3://test-public-bucket/{path}100-foo-1.0_instancesegmask.mrc",
+            "https_path": f"{http_prefix}/{path}100-foo-1.0_instancesegmask.mrc",
+            "source": "community",
+            "format": "mrc",
+            "is_visualization_default": False,
+            "file_size": 0,
+        },
+        {
+            "tomogram_voxel_spacing_id": TOMOGRAM_VOXEL_ID1,
+            "s3_path": f"s3://test-public-bucket/{path}100-foo-1.0_instancesegmask.zarr",
+            "https_path": f"{http_prefix}/{path}100-foo-1.0_instancesegmask.zarr",
+            "source": "community",
+            "format": "zarr",
+            "is_visualization_default": False,
+            "file_size": 0,
+        },
         {
             "id": ANNOTATION_FILE_ID,
             "tomogram_voxel_spacing_id": TOMOGRAM_VOXEL_ID1,

diff --git a/apiv2/graphql_api/schema.graphql b/apiv2/graphql_api/schema.graphql
diff --git a/apiv2/graphql_api/schema.json b/apiv2/graphql_api/schema.json
diff --git a/apiv2/graphql_api/types/annotation_shape.py b/apiv2/graphql_api/types/annotation_shape.py
diff --git a/apiv2/schema/schema.yaml b/apiv2/schema/schema.yaml
@@ -279,6 +279,9 @@ enums:
       InstanceSegmentation:
         text: InstanceSegmentation
         description: A volume with labels for multiple instances
+      InstanceSegmentationMask:
+        text: InstanceSegmentationMask
+        description: A mask with labels for multiple instances
       Mesh:
         text: Mesh
         description: A surface mesh volumes
@@ -922,11 +925,11 @@ classes:
         annotations:
           cascade_delete: true
       shape_type:
-        description: The shape of the annotation (SegmentationMask, OrientedPoint, Point, InstanceSegmentation, Mesh)
+        description: The shape of the annotation (SegmentationMask, OrientedPoint, Point, InstanceSegmentation, Mesh, InstanceSegmentationMask)
         name: shape_type
         from_schema: cdp-dataset-config
         range: annotation_file_shape_type_enum
-        pattern: (^SegmentationMask$)|(^OrientedPoint$)|(^Point$)|(^InstanceSegmentation$)|(^Mesh$)
+        pattern: (^SegmentationMask$)|(^OrientedPoint$)|(^Point$)|(^InstanceSegmentation$)|(^Mesh$)|(^InstanceSegmentationMask$)
   Annotation:
     name: Annotation
     annotations:

diff --git a/apiv2/support/enums.py b/apiv2/support/enums.py
diff --git a/apiv2/test_infra/factories/annotation_shape.py b/apiv2/test_infra/factories/annotation_shape.py
diff --git a/ingestion_tools/dataset_configs/template.yaml b/ingestion_tools/dataset_configs/template.yaml
@@ -93,6 +93,15 @@ annotations: OPTIONAL
       delimiter: OPTIONAL, STRING (DEFAULT ',')
     parent_filters: see InstanceSegmentation.parent_filters
     exclude: SEE InstanceSegmentation.exclude
+  - InstanceSegmentationMask:
+      file_format: see InstanceSegmentation.file_format
+      glob_string: see InstanceSegmentation.glob_string
+      glob_strings: see InstanceSegmentation.glob_strings
+      is_visualization_default: see InstanceSegmentation.is_visualization_default
+      is_portal_standard: OPTIONAL, BOOLEAN (DEFAULT FALSE)
+      rescale: OPTIONAL, BOOLEAN (DEFAULT FALSE)
+    parent_filters: see InstanceSegmentation.parent_filters
+    exclude: SEE InstanceSegmentation.exclude
   - SegmentationMask:
       file_format: see InstanceSegmentation.file_format
       glob_string: see InstanceSegmentation.glob_string