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Skip empty outlines and display a message in the console. #829

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Skip empty outlines and display a message in the console. #829

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e9363e0
Update io.py
francodgstn Nov 19, 2023
a068348
Update io.py
francodgstn Nov 19, 2023
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7 changes: 5 additions & 2 deletions cellpose/io.py
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Original file line number Diff line number Diff line change
Expand Up @@ -401,7 +401,10 @@ def save_rois(masks, file_name):

"""
outlines = utils.outlines_list(masks)
rois = [ImagejRoi.frompoints(outline) for outline in outlines]
nonempty_outlines = [outline for outline in outlines if len(outline)!=0]
if len(outlines)!=len(nonempty_outlines):
print(f"empty outlines found, saving {len(nonempty_outlines)} ImageJ ROIs to .zip archive.")
rois = [ImagejRoi.frompoints(outline) for outline in nonempty_outlines]
file_name = os.path.splitext(file_name)[0] + '_rois.zip'

# Delete file if it exists; the roifile lib appends to existing zip files.
Expand Down Expand Up @@ -609,4 +612,4 @@ def save_server(parent=None, filename=None):
"File {} uploaded to {}.".format(
source_file_name, destination_blob_name
)
)
)