Hello FreeSurfer Developers,


I'm attempting to run the recon-all command on a Linux machine but it appears to be falling at one of the first hurdles.

INFO: extension is mgz

#--------------------------------------------

#@# Talairach Wed Mar 18 15:30:51 GMT 2020

/home/masontwells/Documents/Data/freesurfer/subjects/LM/mri

mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i orig.mgz --o orig_nu.mgz

Linux masontwells-VIG800S 5.3.0-40-generic #32~18.04.1-Ubuntu SMP Mon Feb 3 14:05:59 UTC 2020 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s LM exited with ERRORS at Wed Mar 18 15:30:53 GMT 2020

For more details, see the log file /home/masontwells/Documents/Data/freesurfer/subjects/LM/scripts/recon-all.log

To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

masontwells@masontwells-VIG800S:

Does anyone have any thoughts on how to trouble-shoot this one? Also, Ive attached the recon-all.log in case it's of any use. I am running freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
 
Thanks in advance,
Mason

Mason T Wells, MSc

PhD student

School of Optometry and Vision Sciences

& Cardiff University Brain Research

Imaging Centre (CUBRIC), School of Psychology

Cardiff University

Cardiff

CF24 4HQ

Email: WellsMT1@cardiff.ac.uk

Tel: 02920 879628

Web: Cardiff University webpage

Mason T Wells, MSc

Myfyriwr PhD

Yr Ysgol Optometreg a Gwyddorau’r Golwg

& Canolfan Ymchwil Delweddu’r Ymennydd Prifysgol Caerdydd (CUBRIC), Yr Ysgol Seicoleg

Prifysgol Caerdydd

Heol Maindy

Caerdydd

CF24 4HQ

E-bost: WellsMT1@caerdydd.ac.uk

Ffôn: 02920 879628