Hi Rudolph,
This step is the talairach failure detection, and it's telling you that the talairach transformation has failed. I don't really know why it failed, but you should take a look at the transform and see if you can fix it. If it's happening systematically on your subjects, check the quality of the volumes generated before this step to make sure they look ok.
Here's a page that might be helpful: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach
Good luck! Jenni
On Fri, Jul 25, 2008 at 3:53 PM, Rudolph Pienaar < rudolph@nmr.mgh.harvard.edu> wrote:
Hi -
I'm a non-power freesurfer user in as much as I usually just run recon-all and rarely deal with individual steps. This usually addresses >90% of my FS needs. :-)
I've been running some recons lately that fail very early on with talairach_afd... If anyone has some advice, I'd be really happy.
I've appended the recon-all.log file to this email, but in a nutshell the error report is:
Fri Jul 25 16:43:30 EDT 2008 talairach_avi done
cp transforms/talairach.auto.xfm transforms/talairach.xfm
#-------------------------------------------- #@# Talairach Failure Detection Fri Jul 25 16:43:31 EDT 2008 /autofs/space/kaos_005/users/dicom/postproc/2680228390711/mri
talairach_afd -T 0.005 -xfm transforms/talairach.xfm
ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0083, pval=0.0000 < threshold=0.0050) Linux node0352 2.6.9-42.0.3.ELsmp #1 SMP Fri Oct 6 06:28:26 CDT 2006 x86_64 x86_64 x86_64 GNU/Linux
recon-all exited with ERRORS at Fri Jul 25 16:43:32 EDT 2008
-- Rudolph Pienaar, M.Eng, D.Eng / email: rudolph@nmr.mgh.harvard.edu MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging 149 (2301) 13th Street, Charlestown, MA 02129 USA
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