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,
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