check the talairach.xfm transform and see if it is accurate.
cheers Bruce On Tue, 12 Jan 2010, Xiantong Zhen wrote:
Hi experts,
I run freesurfer to compute the thickness, but I find some subjects failed with error. Would you please tell me how to handle this error. Thank you very much! And the error is as follow: .................................................................................... talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6987, pval=0.4932 >= threshold=0.0050) awk -f /public/home/users/lzuxucl/freesurfer/bin/extract_talairach_avi_QA.awk /public/home/users/lzuxucl/subjects/S45260/mri/transforms/talairach_avi.log TalAviQA: 0.94844 z-score: -6 ERROR: Talairach QA check failed! z-score = -6 <= -6 = threshold Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See http://surfer..nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach Linux node5 2.6.9-55.ELsmp #1 SMP Fri Apr 20 16:36:54 EDT 2007 x86_64 x86_64 x86_64 GNU/Linux recon-all exited with ERRORS at Mon Jan 11 15:52:39 CST 2010
Best, Xiantong