When trying to perform an auto recon on MRI_1.nii in /space/annecy/12/users/adykstra/cashlab/MRI/BW10/mri/, I get the following error during autorecon1:
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tue May 12 10:34:18 EDT 2009 talairach_avi done
cp transforms/talairach.auto.xfm transforms/talairach.xfm
#-------------------------------------------- #@# Talairach Failure Detection Tue May 12 10:34:19 EDT 2009 /autofs/space/annecy_012/users/adykstra/cashlab/MRI/BW10_SURFER_OUTPUT/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 gate 2.6.9-78.0.5.ELsmp #1 SMP Wed Oct 8 07:12:03 EDT 2008 i686 i686 i386 GNU/Linux
recon-all exited with ERRORS at Tue May 12 10:34:19 EDT 2009 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
So far I've identified and ruled out three possible reasons why this could be happening.
1. The localizer slice as the first slice in the volume. I removed that slice in the volume and tried again.
2. The field of view did not encompass the whole head in the anterior/posterior dimension, so I zero padded the edges - still didn't work.
3. The in-plane resolution of each slice is 512x512, which I learned from the help archive may be problematic. So, I tried both downsampling the volume and re-running autorecon1 as well as keeping the native resolution and giving autorecon1 the -cw256. This still didn't work.
Please help.
Thanks, Corey