cellprofiler-library-nightly 5.0.0.dev413__tar.gz → 5.0.0.dev416__tar.gz

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: cellprofiler-library-nightly
-Version: 5.0.0.dev413
+Version: 5.0.0.dev416
 Summary: cellprofiler-library implements CellProfiler's image processing and mathematical code, and is usable as a standalone library
 Author: Anne Carpenter, Thouis (Ray) Jones, Lee Kamentsky, Vebjorn Ljosa, David Logan, Mark Bray, Madison Swain-Bowden, Allen Goodman, Claire McQuinn, Alice Lucas, Callum Tromans-Coia
 Author-email: Beth Cimini <bcimini@broadinstitute.org>, David Stirling <dstirling@glencoesoftware.com>, Nodar Gogoberidze <ngogober@broadinstitute.org>

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library/_version.py

@@ -28,7 +28,7 @@ version_tuple: VERSION_TUPLE
 commit_id: COMMIT_ID
 __commit_id__: COMMIT_ID
 
-__version__ = version = '5.0.0.dev413'
-__version_tuple__ = version_tuple = (5, 0, 0, 'dev413')
+__version__ = version = '5.0.0.dev416'
+__version_tuple__ = version_tuple = (5, 0, 0, 'dev416')
 
-__commit_id__ = commit_id = 'gd6becfb42'
+__commit_id__ = commit_id = 'g16aa642b5'

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library/functions/object_processing.py

@@ -676,3 +676,24 @@ def dilate_objects_with_structuring_element(
     
     return y_data
 
+
+###############################################################################
+# ShrinkToObjectCenters
+###############################################################################
+
+
+def find_centroids(
+        label_image: ObjectSegmentation
+    ) -> ObjectSegmentation:
+    input_props = skimage.measure.regionprops(
+        label_image, intensity_image=None, cache=True
+    )
+
+    input_centroids = [numpy.int_(obj["centroid"]) for obj in input_props]
+
+    output_segmented = numpy.zeros_like(label_image)
+
+    for ind, arr in enumerate(input_centroids):
+        output_segmented[tuple(arr)] = ind + 1
+
+    return output_segmented

cellprofiler_library_nightly-5.0.0.dev416/cellprofiler_library/modules/_shrinktoobjectcenters.py

@@ -0,0 +1,10 @@
+from pydantic import validate_call, ConfigDict, Field
+from typing import Annotated
+from cellprofiler_library.types import ObjectSegmentation
+from cellprofiler_library.functions.object_processing import find_centroids
+
+@validate_call(config=ConfigDict(arbitrary_types_allowed=True))
+def shrink_to_object_centers(
+    label_image: Annotated[ObjectSegmentation, Field(description="Input label image")]
+    ) -> ObjectSegmentation:
+    return find_centroids(label_image)

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library/opts/dilateimage.py

@@ -1,5 +1,3 @@
-# coding=utf-8
-
 """
 Options and enums for DilateImage module
 """

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library/opts/dilateobjects.py

@@ -1,5 +1,3 @@
-# coding=utf-8
-
 """
 Options and enums for DilateObjects module
 """

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library/opts/erodeimage.py

@@ -1,5 +1,3 @@
-# coding=utf-8
-
 """
 Options and enums for ErodeImage module
 """

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library/opts/erodeobjects.py

@@ -1,5 +1,3 @@
-# coding=utf-8
-
 """
 Options and enums for ErodeObjects module
 """
@@ -12,4 +10,3 @@ Options and enums for ErodeObjects module
 # Currently no custom enums needed for ErodeObjects as it uses standard
 # StructuringElement configuration from cellprofiler_core. For structuring element shapes,
 # see cellprofiler_library.opts.structuring_elements
-

cellprofiler_library_nightly-5.0.0.dev416/cellprofiler_library/opts/shrinktoobjectcenters.py

@@ -0,0 +1,6 @@
+"""
+Options and enums for ShrinkToObjectCenters module
+"""
+
+# Note: ShrinkToObjectCenters is a simple morphological operation module that doesn't require
+# complex enums. It has no settings beyond basic "Object Processing".

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library_nightly.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: cellprofiler-library-nightly
-Version: 5.0.0.dev413
+Version: 5.0.0.dev416
 Summary: cellprofiler-library implements CellProfiler's image processing and mathematical code, and is usable as a standalone library
 Author: Anne Carpenter, Thouis (Ray) Jones, Lee Kamentsky, Vebjorn Ljosa, David Logan, Mark Bray, Madison Swain-Bowden, Allen Goodman, Claire McQuinn, Alice Lucas, Callum Tromans-Coia
 Author-email: Beth Cimini <bcimini@broadinstitute.org>, David Stirling <dstirling@glencoesoftware.com>, Nodar Gogoberidze <ngogober@broadinstitute.org>

{cellprofiler_library_nightly-5.0.0.dev413 → cellprofiler_library_nightly-5.0.0.dev416}/cellprofiler_library_nightly.egg-info/SOURCES.txt

@@ -42,6 +42,7 @@ cellprofiler_library/modules/_reducenoise.py
 cellprofiler_library/modules/_removeholes.py
 cellprofiler_library/modules/_resize.py
 cellprofiler_library/modules/_savecroppedobjects.py
+cellprofiler_library/modules/_shrinktoobjectcenters.py
 cellprofiler_library/modules/_threshold.py
 cellprofiler_library/modules/_watershed.py
 cellprofiler_library/opts/__init__.py
@@ -61,6 +62,7 @@ cellprofiler_library/opts/objectsizeshapefeatures.py
 cellprofiler_library/opts/overlayoutlines.py
 cellprofiler_library/opts/removeholes.py
 cellprofiler_library/opts/resize.py
+cellprofiler_library/opts/shrinktoobjectcenters.py
 cellprofiler_library/opts/structuring_elements.py
 cellprofiler_library/opts/threshold.py
 cellprofiler_library_nightly.egg-info/PKG-INFO