0.19.1 (#156)

* Handle failing to parse image coordinate system by attribute error

CHANGELOG.md

@@ -7,6 +7,12 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [Unreleased]
 
+## [0.19.1] - 2024-02-14
+
+### Fixed
+
+- Correct handling of missing image coordinate system when loading metadata.
+
 ## [0.19.0] - 2024-02-12
 
 ### Added
@@ -319,7 +325,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 - Initial release of wsidicom
 
-[Unreleased]: https://github.com/imi-bigpicture/wsidicom/compare/0.19.0..HEAD
+[Unreleased]: https://github.com/imi-bigpicture/wsidicom/compare/0.19.1..HEAD
+[0.19.1]: https://github.com/imi-bigpicture/wsidicom/compare/v0.19.0..v0.19.1
 [0.19.0]: https://github.com/imi-bigpicture/wsidicom/compare/v0.18.3..v0.19.0
 [0.18.3]: https://github.com/imi-bigpicture/wsidicom/compare/v0.18.2..v0.18.3
 [0.18.2]: https://github.com/imi-bigpicture/wsidicom/compare/v0.18.1..v0.18.2

pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "wsidicom"
-version = "0.19.0"
+version = "0.19.1"
 description = "Tools for handling DICOM based whole scan images"
 authors = ["Erik O Gabrielsson <[email protected]>"]
 license = "Apache-2.0"

tests/metadata/dicom_schema/conftest.py

@@ -76,6 +76,11 @@ def dicom_image(image: Image, valid_dicom: bool):
         origin.YOffsetInSlideCoordinateSystem = image.image_coordinate_system.origin.y
 
         dataset.TotalPixelMatrixOriginSequence = [origin]
+    elif not valid_dicom:
+        dataset.ImageOrientationSlide = []
+        empty_origin = Dataset()
+        dataset.TotalPixelMatrixOriginSequence = [empty_origin]
+
     if image.extended_depth_of_field is not None:
         dataset.ExtendedDepthOfField = "YES"
         dataset.NumberOfFocalPlanes = (

wsidicom/__init__.py

@@ -51,4 +51,4 @@
 from wsidicom.web import WsiDicomWebClient
 from wsidicom.wsidicom import WsiDicom
 
-__version__ = "0.19.0"
+__version__ = "0.19.1"

wsidicom/metadata/schema/dicom/image.py

@@ -82,7 +82,7 @@ def load_type(self) -> Type[ImageCoordinateSystem]:
     def load(self, dataset: Dataset, **kwargs) -> Optional[ImageCoordinateSystem]:
         try:
             return super().load(dataset, **kwargs)
-        except TypeError:
+        except (TypeError, AttributeError):
             return None
 
 
@@ -209,9 +209,9 @@ def pre_dump(self, image: Image, **kwargs):
                 focal_plane_spacing=image.focal_plane_spacing,
                 depth_of_field=image.depth_of_field,
             ),
-            "lossy_compressions": image.lossy_compressions
-            if image.lossy_compressions
-            else [],
+            "lossy_compressions": (
+                image.lossy_compressions if image.lossy_compressions else []
+            ),
         }
 
     @post_load