Hi Emad - I believe that it's not finding your freesurfer recons. They should be under the $SUBJECTS_DIR and have the same names for time points and longitudinal template as what is under your tracula output directory (if the latter is different from SUBJECTS_DIR).
Best, a.y
On Fri, 1 Apr 2016, Emad Ahmadi wrote:
Hi Anastasia,
I’ve attached the log files. The cases are:
- Case #2; time points: 2a, 2b; base template: 2tem
- Case #3; time points: 3a, 3b; base template: 3tem
Thank you again for your help, Emad
Emad Ahmadi, MD
Research Fellow in Radiology Massachusetts General Hospital Harvard Medical School
25 New Chardon Street, Suite 400 Boston, MA 02114 Tel: 617 726 5237 Email: emad@nmr.mgh.harvard.edu
On Apr 1, 2016, at 10:49 AM, Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu wrote:
Hi Emad - The error happens at the very beginning, so I'm wondering if something went wrong in the previous steps, before -path. Can you please send me the entire trac-all.log of one of your subjects? Thank you!
a.y
On Wed, 30 Mar 2016, Emad Ahmadi wrote:
Hi Anastasia,
I hope you’re enjoying your evening!
I’m doing longitudinal TRACULA analysis on two subjects, each having two time points. I have already taken the steps of longitudinal recon-all and trac-all -prep & -bedp.
Now I’m trying to do trac-all -path, but it gives me an error that I cannot recognize. I would greatly appreciate your help. I’ve attached the log files and the config file.
Thank you so much, Emad
Emad Ahmadi, MD
Research Fellow in Radiology Massachusetts General Hospital Harvard Medical School
25 New Chardon Street, Suite 400 Boston, MA 02114 Tel: 617 726 5237 Email: emad@nmr.mgh.harvard.edu
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