Hi Andrew, Thanks for pointing this out, it looks like the permissions of our fsaverage subjects have all changed since yesterday! Will fix this now
Best, Andrew From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of "Russo, Andrew William" <awru...@mgh.harvard.edu> Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu> Date: Monday, February 24, 2020 at 10:51 AM To: FS Help <freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] samseg permissions error Hello Freesurfer Developers, I am trying to use the "samseg" function in /usr/local/freesurfer/dev but do not have permission to access the directory /usr/local/freesurfer/dev/subjects/fsaverage. Is this a restricted directory? ValueError: file /usr/local/freesurfer/dev/subjects/fsaverage/mri/orig.mgz does not exist ERROR: fs_time run_samseg I did not find any related issues with samseg on the archive and I have had it work in the past. Before running samseg I sourced the freesurfer environment: export FREESURFER_HOME=/usr/local/freesurfer/dev source $FREESURFER_HOME/SetUpFreeSurfer.sh (Using Freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0) Thank you in advance, Andrew ____________ Andrew Russo Clinical Research Coordinator Multiple Sclerosis Imaging Lab Massachusetts General Hospital 149 13th Street | Boston, MA 02129 617-726-7531
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