I think this was on the mailing list a while back so you might search for that 
solution.  In any case, those logs don’t show the error so you might need to 
find the log from the MNI tool itself.

Matt.

From: 
<[email protected]<mailto:[email protected]>>
 on behalf of Boukhdhir Amal 
<[email protected]<mailto:[email protected]>>
Reply-To: Boukhdhir Amal <[email protected]<mailto:[email protected]>>
Date: Friday, July 13, 2018 at 10:24 AM
To: "[email protected]<mailto:[email protected]>" 
<[email protected]<mailto:[email protected]>>
Subject: [HCP-Users] Recon-all ERRORS in Freesurfer HCP Pipeline

Dear all,


I have runned the PreFreesurferHCP pipeline, I got an issue with the Freesurfer 
pipeline (as a second step in the structural pipeline).

I attached the recon-all.log file and a screenshot of the error 
(error_freesurfer.png).


The freesurfer version I am using is: 
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0-HCP

These are more informations related to the distribution I am using:

aboukhdhir@thuya:/mnt/home_sq/aboukhdhir$ cat /etc/os-release
NAME="Ubuntu"
VERSION="16.04.3 LTS (Xenial Xerus)"
ID=ubuntu
ID_LIKE=debian
PRETTY_NAME="Ubuntu 16.04.3 LTS"
VERSION_ID="16.04"
HOME_URL="http://www.ubuntu.com/";
SUPPORT_URL="http://help.ubuntu.com/";
BUG_REPORT_URL="http://bugs.launchpad.net/ubuntu/";
VERSION_CODENAME=xenial
UBUNTU_CODENAME=xenial


Am I using a wrong freesurfer version or this error may be related to something 
else ?

Thanks !


Best,
Amal



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