Hi Andreas,
I get the same error, in almost the same scenario; while re-running some studies with FS-4.3.x. The I also run them on a cluster with large amount of memory running Gentoo linux, and CentOS4_x64 FreeSurfer binaries. To complete the studies I take them on a 32 bit platform with Kubunto and CentOS4_x32 FreeSurfer binaries. This way, all the failed studies completed just fine.
Best,
Martin
On Tuesday 02 June 2009 14:52:32 Andreas Engvig wrote:
Hi,
We've been encountering the following error when re-running 43 healthy subjects through both the recon-all -all stream and through the recon-all -long stream. The error seem to occur quite random with regards to the subjects:
" #@# Cortical ribbon mask Tue Jun 2 03:09:13 CEST 2009 /work/220791.d/2039B.long.2039A/mri
mris_volmask --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon --save_distance 2039B.long.2039A
SUBJECTS_DIR is /work/220791.d WARNING: the source volume info is not consistent between WARNING: the info contained in the surface data and that of the transform. WARNING: the source volume info is not consistent between WARNING: the info contained in the surface data and that of the transform. WARNING: the source volume info is not consistent between WARNING: the info contained in the surface data and that of the transform. WARNING: the source volume info is not consistent between WARNING: the info contained in the surface data and that of the transform. Segmentation fault "
We've used Freesurfer v.4.1. The scans have previously been run in fs. 4.05.
After the error occurs, I've tried to rerun the subjects just through this step. They usually complete the step after 1-2 subsequent reruns. However, this is quite time consuming - any suggestions how to solve this?
We use centOS4 64bit. I run the subjects on our computing cluster which allocates 2,1 GB of memory for each subject. I've seen the error addressed on the list earlier, but I couldn't find any obvious solution.
Thanks!
Best regards
Andreas Engvig Center for the Study of Human Cognition University of Oslo PB 1094 Blindern 0317 Oslo Cell: +47 988 58 770 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer