Thank you for your email. Yes that v is what freesurfer home is set to. Somehow that GCA file (SMS numerous others) were missing from the averages folder. I manually chopped them from a different 5.3 install, but am not sure v why they are missing (I am the only person using this machine and did not delete anything from the averages folder).

Now that I copied the files over the command I listed runs but crashes with the error mpr2mni305 failed. I get this error on a dataset I have already processed using freesurfer 5.3 centos 6 version without the use-cuda option.

Any suggestions would be greatly appreciated.

Best wishes,

Sal Hi Salil

what is FREESURFER_HOME set to? Is it /usr/local/freesurfer? Does /usr/local/freesurfer/average/**RB_all_2008-03-26.gca exist?

cheers Bruce On Mon, 8 Jul 2013, Salil Soman wrote:

Hi,

Am running this command:

$FREESURFER_HOME/bin/recon-all -i 3DSPGR.nii.gz -s WCA_248_T1Q_FS -nuintensitycor-3T -nocanorm -openmp 50 -hippo-subfields -use-cuda -all

And am get this out put / error:

Testing for CUDA device: nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2012 NVIDIA Corporation Built on Fri_Sep_21_17:28:58_PDT_2012 Cuda compilation tools, release 5.0, V0.2.1221

Driver : 5.50 Runtime : 5.0

Acquiring CUDA device Using default device CUDA device: GeForce GTX 660

======= NUMBER OF OPENMP THREADS = 50 ======= stable5

NVIDIA driver version info: NVRM version: NVIDIA UNIX x86_64 Kernel Module 319.32 Wed Jun 19 15:51:20 PDT 2013

ERROR: cannot find /usr/local/freesurfer/average/**RB_all_2008-03-26.gca

Any suggestions what I am doing incorrectly?

Thank you,

Sal

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