Hi Gabriel,

These messages look like TensorFlow warnings. They just mean that you're running it on a system without GPUs. They should not stop the run.

Is this the last message printed by run_samseg, or does the algorithm continues? Can you provide more details on when the run terminates?

Stefano

External Email - Use Caution        

Hi, I'm having difficulty with the command to assess WM lesion in MS, using
the SAMSEG.

I have already installed tensorflow and python3.9, however when typing in
the terminal the command "run_samseg --input /home/username/data/t1.nii
/home/username/data/flair.nii --pallidum-separate --lesion
--lesion-mask-pattern 0 1 --output /home/username/data/samsegOutput", this
message appears:

"2023-03-24 13:21:04.936769: W
tensorflow/stream_executor/platform/default/dso_loader.cc:60] Could not
load dynamic library 'libcudart.so.11.0'; dlerror: libcudart.so.11.0:
cannot open shared object file: No such file or directory
2023-03-24 13:21:04.936787: I
tensorflow/stream_executor/cuda/cudart_stub.cc:29] Ignore above cudart
dlerror if you do not have a GPU set up on your machine.
WARNING:tensorflow:From
/usr/local/freesurfer/7.2.0/python/lib/python3.6/site-packages/tensorflow/python/compat/v2_compat.py:96:
disable_resource_variables (from tensorflow.python.ops.variable_scope) is
deprecated and will be removed in a future version.
Instructions for updating:
non-resource variables are not supported in the long term"


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Gabriel de Deus Vieira
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