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[BUG] Different Results in run_Cellpose-SAM.ipynb and https://huggingface.co/spaces/mouseland/cellpose #1414

@akoslova

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@akoslova

When uploading one microscopic image on https://huggingface.co/spaces/mouseland/cellpose, the segmentation works very well, but when using the notebook run_Cellpose-SAM.ipynb, the segmentation is much worse.

Web Application:

https://huggingface.co/spaces/mouseland/cellpose

Image

Notebook run_Cellpose-SAM.ipynb:

Channels: 0, 1, 2
flow_threshold = 0.4
cellprob_threshold = 0.0
tile_norm_blocksize = 0

Image

I am not sure if this is a bug or if I am missing something crucial. Can you please help me to reproduce the same result in the jupyter notebook as in the manual upload? Thank you so much in advance!

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