My apologizes,

I missed forgot to include the following information:

1. FreeSurfer version: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0

2. Platform: CentOS release 6.7

3. uname -a: Linux rosalia-PORTEGE-Z930 4.4.0-98-generic #121-Ubuntu SMP Tue Oct 10 14:24:03 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux

4. Recon-all.log: see attached

2017-11-12 18:50 GMT+01:00 Rosalia Dacosta Aguayo <rdacostaa@gmail.com>:

Hello FreeSurfer Developers,

I am attempting to compute autorecon1 in a subject to see how it works recon-all in a stepwise as described in the tutorial.
Sorry if this is a very naive question but it is the first time I am trying to run an analysis with FreeSurfer.

After running: recon-all -subjid 001 -autorecon1 -i S_001.nii.gz

I have found that it crashes with the following warning: recon-all -s 001 exited with ERRORS at dom
I have seen that the problem comes from orig_nu.log

Does anyone have any thoughts on how to trouble-shoot this problem? I have attached the recon-all.log and the orig_nu.log in case it is of any use.

Kind regards,
Rosalia