Hi Nick,
Truncated the email. I'm getting a license error for both the mri_convert command and the tkmedit command that you provided. The original also yields a license error (no segfault). You are right, my earlier test called tkmedit.bin directly.
Thanks
Nick
On 05/08/2013 12:07 PM, Nick Schmansky wrote:
Nick,
Hi, I found what might the source of the problem and posted new versions of mri_convert and tkmedit.bin to this directory:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/linux-centos6_x86_64/
before trying the new mri_convert though, can you try the following?
cd <some writable directory> mri_convert $FREESURFER_HOME/subjects/bert/mri/T1.mgz T1.mgz
I'm guessing it will segfault or print the license problem.
Now copy the new mri_convert (from the ftp link above) to the freesurfer/bin directory and try again. It should work. You can then also try the new tkmedit.bin. Remember to copy the tkmedit.bin to the freesurfer/tktools directory and leave freesurfer/bin/tkmedit untouched (its a wrapper-script that sets-up paths to the tcl/tk/tix/blt libs, so tkmedit.bin cannot be run directly)
Thanks,
Nick