Hi all,

I'm new to freesurfer and I'm having some issues.

1) First of all I tried recon-all in one subject but I got an error on nu_correct. This is what the log says:

Can't use 'defined(@array)' (Maybe you should just omit the defined()?) at /usr/local/freesurfer/mni/bin/nu_estimate_np_and_em line 165.
nu_correct: crashed while running nu_estimate_np_and_em (termination status=65280)
ERROR: nu_correct

I searched through the mail list and I found that it may be because my data is in an external hard drive... (the hard drive is in FAT32).
But it's not because the data is in the external hard drive. I copied a folder to my computer and I got the same problem. Could it be the data?


2) Then I tried to install CUDA 8.0 ... I don't know if succesfully because the command cudadetect shows the following:

cudadetect.bin: error while loading shared libraries: libcudart.so.5.0: cannot open shared object file: No such file or directory

Reading as well I'm afraid that freesurfer may not be able to use versions of CUDA that are +5? I have an NVIDIA Geforce GTX 950 and using NVIDIA binary driver version 370.28.


3) I think after the installation of CUDA using a .deb I got the paths messed up and now I can't even use recon-all on my hard drive. When I type recon-all on any other external hard drive or folder, it does show the information though. I dont know if it's a permissions problem (I also had a blackout earlier...) but the hard disk's files and folders seem to have all permissions and the ownership is root:root. I can't remount it now because I'm running some things using fsl...




Please any help would be really appreciated. I've spent a loooot of hours struggling with all these.




I'm on a ubuntu 16.04 by the way.


Thaaaaaankius