Hi Ali,
do you want to send us a sample of the data. It's very hard to get
anything like uniform contrast over the whole brain at 7T due to
dielectric effects. We rarely use the 7T for this kind of thing as in our
experience the 3T is better (in contrast to say T2* weighting, which is
beautiful at 7T).
cheers,
Bruce
On Thu, 22 Jan 2009, Al-Radaideh Ali wrote:
Dear FreeSurfer experts,
I did contact you before regarding the problem below ( Talairach Failure
Detection ) and one suggestion was to use lower resolution MPRAGE rather than
using .5mm one. ( Our MPRAGEs were acquired at 7T scanner with 0.5mm isotropic
resolution). I acquired a new MPRAGE at 7T scanner with 0.8mm isotropic
resolution but unfortunately it failed again.
( Note, regarding the inhomogeniety, I used SPM5 for normalization.
Furthermore, I tried also using flag '-notal-check' once but did not work)
Any other suggestions I can try, Please?
Thu Jan 22 11:22:45 GMT 2009
talairach_avi done
cp transforms/talairach.auto.xfm transforms/talairach.xfm
#--------------------------------------------
#...@# Talairach Failure Detection Thu Jan 22 11:22:46 GMT 2009
/data_local/ali/freesurfer/subjects/low2n/low2n/mri
talairach_afd -T 0.005 -xfm transforms/talairach.xfm
ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED***
(p=0.0000, pval=0.0000 < threshold=0.0050)
Linux comp03 2.6.11.4-21.11-smp #1 SMP Thu Feb 2 20:54:26 GMT 2006 x86_64
x86_64 x86_64 GNU/Linux
recon-all exited with ERRORS at Thu Jan 22 11:22:46 GMT 2009
Many thanks in advance
Ali
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