check the talairach and the intensity normalization (T1.mgz) to make sure they both succeeded. One or the other may need to be corrected.

cheers, Bruce On Tue, 22 Dec 2009, Gabriel Go.Es. wrote:

Dear Fs experts

I'm trying to run a recon-all on one subject but FS gives me the following error message:

#@# Skull Stripping Mon Dec 21 17:25:55 CET 2009 Linux localhost.localdomain 2.6.9-34.ELsmp #1 SMP Thu Mar 9 06:23:23 GMT 2006 x86_64 x86_64 x86_64 GNU/Linux

recon-all exited with ERRORS at Mon Dec 21 18:11:04 CET 2009

I take a look in the log trying to fing a solution and say:

****************TEMPLATE DEFORMATION****************

 second estimation of the COG coord: x=127,y=128, z=127, r=9985 iterations

GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 20574 RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 99 LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 126 RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 936 LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 576 OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 18837 mri_watershed Error: GLOBAL region of the brain empty ! Linux localhost.localdomain 2.6.9-34.ELsmp #1 SMP Thu Mar 9 06:23:23 GMT 2006 x86_64 x86_64 x86_64 GNU/Linux

recon-all exited with ERRORS at Mon Dec 21 18:11:04 CET 2009

what can I do to keep with the recon-all, could be something wrong in the image?

Best

Gabriel

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