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Fix to issue #1375 to make it also zarr v3 compatible #1379

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Fix to issue #1375 to make it also zarr v3 compatible #1379

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74eeee2
Add positional argument to zarr store to make it compatibale with zar…
felixS27 Nov 27, 2025
ee20c84
Merge branch 'MouseLand:main' into zarr_version_fix
felixS27 Dec 9, 2025
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7 changes: 4 additions & 3 deletions cellpose/contrib/distributed_segmentation.py
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Original file line number Diff line number Diff line change
Expand Up @@ -43,7 +43,7 @@ def numpy_array_to_zarr(write_path, array, chunks):
"""

zarr_array = zarr.open(
write_path,
store=write_path,
mode='w',
shape=array.shape,
chunks=chunks,
Expand Down Expand Up @@ -729,7 +729,8 @@ class in this module. If you are running on the Janelia LSF cluster, see

temp_zarr_path = temporary_directory + '/segmentation_unstitched.zarr'
temp_zarr = zarr.open(
temp_zarr_path, 'w',
store=temp_zarr_path,
mode='w',
shape=input_zarr.shape,
chunks=blocksize,
dtype=np.uint32,
Expand Down Expand Up @@ -781,7 +782,7 @@ class in this module. If you are running on the Janelia LSF cluster, see
)
dask.array.to_zarr(relabeled, write_path, overwrite=True)
merged_boxes = merge_all_boxes(boxes, new_labeling[box_ids])
return zarr.open(write_path, mode='r'), merged_boxes
return zarr.open(store=write_path, mode='r'), merged_boxes


#----------------------- component functions ---------------------------------#
Expand Down