… copy your license.txt file into your home directory. For example if you downloaded your license attached to the email notification into your Downloads folder, then copy it from there into $HOME …
… set the environment variable FS_LICENSE to point to the license file … later you can put this in your shell init file to be the default when you launch a new terminal window with your default shell …
you@somedomain.com <— email you used to register for the license
… close the window and try to open a volume or surface ...
… check the volume file exists …
Mac:~> ls -l $SUBJECTS_DIR/bert/mri/T1.mgz
-rwxr-xr-x 1 root wheel 4502402 Jul 13 2021 /Applications/freesurfer/7.4.1/subjects/bert/mri/T1.mgz*
… try opening the volume file …
Mac:~> freeview $SUBJECTS_DIR/bert/mri/T1.mgz
The above works on the Mac configuration listed above.
- R.
On Aug 11, 2023, at 18:59, Irakli Kaloiani <ikalo@stanford.edu> wrote:
External Email - Use Caution
Dear Freesurfer team,
Several members of our lab tried setting up Freesurfer (V.7.4.1) and about 5-6 people have encountered the same problem (all of the on macOS) of freeview crashing when we are trying to load the T1 from the folder bert>mri>T1. We already have license file placed in an appropriate folder.
Additionally, there’s an issue with XQuartz (V.2.8.5) when I am trying to run xclock in terminal – “Error: Can't open display:”
Do you know what could be an issue? Google and stackoverflow wasn’t useful.
Your advice would be greatly appreciated,
Thankfully,
Irakli
Irakli Kaloiani, M.D.
TMS Lead
Brain Stimulation Lab, Stanford University
Department of Psychiatry and Behavioral Sciences