Hi Rosalia, What version of perl are you using? Based on this thread from last year - https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2016-May/045407.html - it seems like this is a known issue with new versions of perl and freesurfer v5.3. Unfortunately, your only two options are to install an older version of perl (5.10 should be old enough): https://stackoverflow.com/questions/16147120/how-can-i-install-another-version-of-perl-on-top-of-the-default-version-on-cento
or install freesurfer v6.0: https://surfer.nmr.mgh.harvard.edu/fswiki/Download best, Andrew On Nov 13, 2017, at 11:13 AM, Douglas N Greve <gr...@nmr.mgh.harvard.edu<mailto:gr...@nmr.mgh.harvard.edu>> wrote: Is this happening on all subjects or just this one? If just this one, have you looked at the images to make sure that there is nothing really wrong? On 11/12/2017 12:56 PM, Rosalia Dacosta Aguayo wrote: 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 <rdacos...@gmail.com<mailto:rdacos...@gmail.com> <mailto:rdacos...@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: /*r*/*/econ-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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu<mailto:gr...@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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