imaging-server-kit 0.0.12__tar.gz → 0.0.13__tar.gz

{imaging_server_kit-0.0.12 → imaging_server_kit-0.0.13}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: imaging-server-kit
-Version: 0.0.12
+Version: 0.0.13
 Summary: Deploy image processing algorithms in FastAPI servers. 
 Author-email: Mallory Wittwer <mallory.wittwer@epfl.ch>
 License: Copyright (c) 2024, EPFL

{imaging_server_kit-0.0.12 → imaging_server_kit-0.0.13}/src/imaging_server_kit/_version.py

@@ -17,5 +17,5 @@ __version__: str
 __version_tuple__: VERSION_TUPLE
 version_tuple: VERSION_TUPLE
 
-__version__ = version = '0.0.12'
-__version_tuple__ = version_tuple = (0, 0, 12)
+__version__ = version = '0.0.13'
+__version_tuple__ = version_tuple = (0, 0, 13)

{imaging_server_kit-0.0.12 → imaging_server_kit-0.0.13}/src/imaging_server_kit/core/geometry.py

@@ -29,17 +29,17 @@ def mask2features(segmentation_mask: np.ndarray) -> List[Feature]:
             coords = np.vstack([coords, coords[0]])  # Close the polygon for QuPath
             try:
                 geom = Polygon(coordinates=[coords.tolist()], validate=True)
+                feature = Feature(
+                    geometry=geom, 
+                    properties={
+                        "Detection ID": detection_id, 
+                        "Class": int(pixel_class),  # the int() casting solves a bug with json serialization
+                    }
+                )
+                features.append(feature)
             except ValueError:
                 # TODO: not sure what to do when this happens (very occasionally)
                 print("Found an invalid polygon...")
-            feature = Feature(
-                geometry=geom, 
-                properties={
-                    "Detection ID": detection_id, 
-                    "Class": int(pixel_class),  # the int() casting solves a bug with json serialization
-                }
-            )
-            features.append(feature)
 
     return features
 
@@ -81,17 +81,17 @@ def instance_mask2features(segmentation_mask: np.ndarray) -> List[Feature]:
             coords = np.vstack([coords, coords[0]])  # Close the polygon for QuPath
             try:
                 geom = Polygon(coordinates=[coords.tolist()], validate=True)
+                feature = Feature(
+                    geometry=geom, 
+                    properties={
+                        "Detection ID": int(detection_id), 
+                        "Class": 1
+                    }
+                )
+                features.append(feature)
             except ValueError:
                 # TODO: not sure what to do when this happens (very occasionally)
                 print("Found an invalid polygon...")
-            feature = Feature(
-                geometry=geom, 
-                properties={
-                    "Detection ID": int(detection_id), 
-                    "Class": 1
-                }
-            )
-            features.append(feature)
 
     return features
 

{imaging_server_kit-0.0.12 → imaging_server_kit-0.0.13}/src/imaging_server_kit/demo/threshold.py

@@ -2,8 +2,7 @@ from pathlib import Path
 import numpy as np
 import uvicorn
 from imaging_server_kit import algorithm_server, ImageUI, FloatSpinBoxUI
-from skimage.util import img_as_float
-
+from skimage.exposure import rescale_intensity
 
 @algorithm_server(
     algorithm_name="intensity-threshold",
@@ -29,7 +28,7 @@ def threshold_algo_server(
     threshold: float,
 ):
     """Implements a simple intensity threshold algorithm."""
-    mask = img_as_float(image) > threshold
+    mask = rescale_intensity(image, out_range=(0, 1)) > threshold
     return [(mask, {"name": "Threshold result"}, "mask")]
 
 

{imaging_server_kit-0.0.12 → imaging_server_kit-0.0.13}/src/imaging_server_kit.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: imaging-server-kit
-Version: 0.0.12
+Version: 0.0.13
 Summary: Deploy image processing algorithms in FastAPI servers. 
 Author-email: Mallory Wittwer <mallory.wittwer@epfl.ch>
 License: Copyright (c) 2024, EPFL