Ilana,
use:
tkregister2 --s (subjid) --fstal
note that the talairach alignment can fail for a number of reasons. a catastrophic one would be if the direction cosines in the input file are all wrong (coronal, saggital, horizontal wrong). or it could be that the subject was just scanned in an odd position, in which case using tkregister2 to manually adjust might be appropriate. or you can ignore the tal check with the -no-talcheck flag, but downstream processing may fail.
Nick
On Sun, 2008-08-10 at 11:53 -0400, Ilana Hairston wrote:
Hi there, I am new to free surfer, and am trying to analyse brains of kids ages 8-11. running recon1 i get the following error message:
ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050)
Looking at past mailings seems you recommended checking the registry. However, during recon no file called ???.dat was created as far as i can tell, and without specifying --reg i get the error:
___$ tkregister2 --s C2647 --mov C2647_070809cv.img
INFO: no target volume specified, assuming FreeSurfer orig volume. ERROR: no registration file specified
thanks, ilana
--
You must believe in free will; there is no choice.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer