Hi Kirill
I think this is a question for Matti (now ccd)
cheers Bruce On Fri, 14 Feb 2020, Kirill Elin wrote:
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Hallo everybody, I am not entirely sure whether this is FreeSurfer error actually. I am doing first recon all which completes without errors. Then I need to create BEM surfaces using the FreeSurfer watershed algorithm for MEG data analysis using MNE-Python. So the next command in the terminal is: mne watershed_bem --subject subjectname And it runs e.g. till: mri_watershed ru_nivcsw 12490 mri_watershed done and quits with errors like: File"/work/modules/Ubuntu/14.04/amd64/common/anaconda3/latest/envs/neuroimaging /lib/python3.6/site-packages/mne/utils/check.py", line 143, in _check_fname raise IOError('Destination file exists. Please use option ' OSError: Destination file exists. Please use option "overwrite=True" to force overwriting.
Now, it is unclear what file destination file is meant. This happens on several machines for all participants. --overwrite option does not help. The correct outcome should include bem folder with resulting files and also watershed subfolder with resulting files. Here and the files in bem folder are missing and there are files only in watershed subfolder. FreeSurfer 6.0.0., Ubuntu Thank you in advance.
Sincerely yours, Kirill