Hi Kyul
I'm pretty sure you ran out of memory. We typically recommend 8G of RAM:
https://surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements
I you look in your recon-all.log file it shows total and free memory:
total used free shared buffers cached Mem: 2027764 1203512 824252 3716 148744 502072 -/+ buffers/cache: 552696 1475068 Swap: 1048572 714068 334504
(this is the output of the unix command /usr/bin/free)
You have only 2G in the machine, but more than half of it is in use when recon-all starts executing. You might be able to get away with 2G if most of it was free, but I don't think things will run in 800MB
cheers Bruce
On Sat, 14 Jul 2018, 김결 wrote:
External Email - Use Caution
Hello FreeSurfer Developers,
I'm attempting to recon-all function (input file is sample-001.nii.gz), but for some of my subjects I get the following error when I run the recon-all command:
I've searched the list and no similar errors have been reported. 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.
FreeSurfer version: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0
Platform: Docker freesurfer/freesurfer tag 6.0 (maybe officialized
recon-all.log: see attached
recon-all.error.log see attached
5) recon-all-status see attached
please help me...
Kyul
[?img=0rbrKAFq1HJ4Mq30hAnmaxElK6i0KrK%2FK6twKxgrp4kvFo2ZFAMrKov9FvIo%2BrkSKxb5W4d5W4C5bX0q%2BzkR74F TWx%2FspNi0pBF9b4p0bvI5WBU5W6%2Bc74CCbNpCb4t5p639.gif]