Merge pull request #17 from haesleinhuepf/extract_slice

Extract slice
haesleinhuepf · Sep 8, 2022 · 224996e · 224996e
2 parents 25e2379 + c0dd226
commit 224996e
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Showing 3 changed files with 22 additions and 5 deletions.
diff --git a/napari_segment_blobs_and_things_with_membranes/__init__.py b/napari_segment_blobs_and_things_with_membranes/__init__.py
@@ -1,5 +1,5 @@
 
-__version__ = "0.3.2"
+__version__ = "0.3.3"
 __common_alias__ = "nsbatwm"
 
 from napari_plugin_engine import napari_hook_implementation
@@ -57,7 +57,8 @@ def napari_experimental_provide_function():
         invert_image,
         skeletonize,
         Manually_merge_labels,
-        Manually_split_labels
+        Manually_split_labels,
+        extract_slice
     ]
 
 
@@ -803,3 +804,17 @@ def butterworth(image: "napari.types.ImageData", cutoff_frequency_ratio: float =
     """
     from skimage.filters import butterworth as skimage_butterworth
     return skimage_butterworth(image, cutoff_frequency_ratio, high_pass, order)
+
+
+@register_function(menu="Utilities > Extract slice (nsbatwm)")
+@jupyter_displayable_output(library_name='nsbatwm', help_url='https://www.napari-hub.org/plugins/napari-segment-blobs-and-things-with-membranes')
+@time_slicer
+def extract_slice(image:"napari.types.ImageData", slice_index:int = 0, axis:int = 0) -> "napari.types.ImageData":
+    """Extract (take) a slice from a stack.
+
+    See also
+    --------
+    ..[0] https://numpy.org/doc/stable/reference/generated/numpy.take.html
+    """
+    return np.take(image, slice_index, axis=axis)
+
diff --git a/napari_segment_blobs_and_things_with_membranes/_tests/test_function.py b/napari_segment_blobs_and_things_with_membranes/_tests/test_function.py
@@ -36,7 +36,8 @@ def test_something():
         divide_images,\
         invert_image, \
         skeletonize, \
-        butterworth
+        butterworth, \
+        extract_slice
 
     import numpy as np
 
@@ -69,7 +70,8 @@ def test_something():
         morphological_gradient,
         local_minima_seeded_watershed,
         invert_image,
-        butterworth]:
+        butterworth,
+        extract_slice]:
 
         print(operation)
 

diff --git a/setup.cfg b/setup.cfg
@@ -1,6 +1,6 @@
 [metadata]
 name = napari-segment-blobs-and-things-with-membranes
-version = 0.3.2
+version = 0.3.3
 author = Robert Haase
 author_email = [email protected]
 url = https://github.com/haesleinhuepf/napari-segment-blobs-and-things-with-membranes