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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