Fix doc building

Author: constantinpape

.github/workflows/build_docs.yaml

@@ -31,6 +31,10 @@ jobs:
         cache-environment: true
         post-cleanup: 'all'
 
+    - name: Install napari
+      shell: bash -l {0}
+      run: pip install napari
+
     - name: Install package
       shell: bash -l {0}
       run: pip install -e .

flamingo_tools/segmentation/nucleus_segmentation.py

@@ -11,7 +11,7 @@
 from tqdm import tqdm
 
 from ..file_utils import read_image_data
-from ..measurements import _get_bounding_box
+from ..measurements import _get_bounding_box_and_center
 from .postprocessing import compute_table_on_the_fly
 
 
@@ -23,7 +23,7 @@ def _naive_nucleus_segmentation_impl(image, segmentation, table, output, n_threa
         table = compute_table_on_the_fly(segmentation, resolution=resolution)
 
     def segment_nucleus(seg_id):
-        bb = _get_bounding_box(table, seg_id, resolution, image.shape)
+        bb = _get_bounding_box_and_center(table, seg_id, resolution, image.shape, dilation=None)
         image_local, seg_local = image[bb], segmentation[bb]
         mask = seg_local == seg_id