On Tue, Aug 17, 2010 at 12:51 PM, Nick Schmansky <nicks@nmr.mgh.harvard.edu> wrote:

make sure your LD_LIBRARY_PATH is pointing at:

/usr/local/cuda/lib64

which has the 64b libcudart, and not:

/usr/local/cuda/lib

which has the 32b.

n.

On Tue, 2010-08-17 at 12:17 -0500, joel bruss wrote:
> Nick-
>
> I Dl'ed the tarball, unpacked, and re-ran. I received the following
> error message:
>
> /lcn2/lesion_warp.dir/MAP3_Nifti/freesurfer_subs.dir/PC/mri
>
> mri_em_register_cuda -skull
> nu.mgz /usr/freesurfer/average/RB_all_withskull_2008-03-26.gca
> transforms/talairach_with_skull.lta
>
> mri_em_register_cuda: error while loading shared libraries:
> libcudart.so.3: wrong ELF class: ELFCLASS32
> Linux linux-lvmb 2.6.34-12-desktop #1 SMP PREEMPT 2010-06-29
> 02:39:08 +0200 x86_64 x86_64 x86_64 GNU/Linux
>
> recon-all -s PC exited with ERRORS at Tue Aug 17 12:13:42 CDT
> 2010
>
> Thoughts?
>
>
> On Tue, Aug 17, 2010 at 12:03 PM, Nick Schmansky
> <nicks@nmr.mgh.harvard.edu> wrote:
> i forgot to add: make sure you have the latest nvidia driver,
> which has
> support for cuda 3.
>
> n.
>
>
> On Tue, 2010-08-17 at 13:00 -0400, Nick Schmansky wrote:
> > currently the _cuda binaries are distributed only in the
> centos4 and
> > centos4_x86_64 distributions. however, those should work in
> centos5,
> > and i've made a tarball of the _cuda binaries downloadable
> from here:
> >
> > ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc
> >
> > look for the file 'fscudabins-linux-centos4_x86_64.tgz' and
> untar in
> > your freesurfer/bin dir.
> >
> > ! note ! this is a beta release of these binaries! they
> havent been
> > fully tested across a wide subject set, so don't use the
> -use-gpu flag
> > in any kind of important group analysis yet.
> >
> > please let of us know though of any problems you encounter.
> we need to
> > learn what kind of gpu cards people have out there in order
> to gauge how
> > far we can optimize our routines.
> >
> > n.
> >
> > On Tue, 2010-08-17 at 11:35 -0500, joel bruss wrote:
> > > Not to hijack your question, but I have similar
> questions. I have
> > > CUDA toolkit 3.1 installed, "cudadetect" returns:
> "Detecting CUDA...
> > > 32767 CUDA enabled device(s) detected." but, when I run
> recon-all,
> > > e.g.:
> > >
> > > recon-all -subjid PC -all -use-gpu
> > >
> > >
> > > I get the following errors at the mri_em_register_cuda
> step:
> > >
> > >
> /lcn2/lesion_warp.dir/MAP3_Nifti/freesurfer_subs.dir/PC/mri
> > >
> > > mri_em_register_cuda -skull
> > >
> nu.mgz /usr/freesurfer/average/RB_all_withskull_2008-03-26.gca
> > > transforms/talairach_with_skull.lta
> > >
> > > mri_em_register_cuda: Command not found.
> > > Linux linux-lvmb 2.6.34-12-desktop #1 SMP PREEMPT
> 2010-06-29
> > > 02:39:08 +0200 x86_64 x86_64 x86_64 GNU/Linux
> > >
> > > A quick peak in /usr/freesurfer/bin shows that there is no
> > > mri_em_register_cuda binary.
> > >
> > > Are cuda binaries supposed to be bundled with the new 5.0
> release, or
> > > are they created on the fly by FreeSurfer, or are they
> just plain
> > > missing? FWIW, I have CentOS 5 x86_64 version of
> FreeSurfer
> > > installed, running on OpenSuse 11.3
> > >
> > >
> > > recon-all -s PC exited with ERRORS at Tue Aug 17 11:14:35
> CDT 2010
> > >
> > >
> > > On Tue, Aug 17, 2010 at 11:07 AM, Gennan Chen
> <gennan.chen@synarc.com>
> > > wrote:
> > > Hi!
> > >
> > > I will like to try the beta CUDA support in 5.0.
> And I have
> > > some questions here
> > >
> > > 1. Are all needed libraries bundled in the
> release? Or I
> > > need to go to CUDA’s site to get those
> dependency?
> > > And if I need to, what are those
> dependency I need to
> > > grab and install?
> > > 2. I have RH 5 64 bit linux box with single
> NVIDIA FX
> > > card and macpro snow leopard box with dual
> NVIIDA GT
> > > 120. Does CUDA support work for both OS?
> If they do,
> > > any idea what the speed up will be??
> > >
> > > Gen
> > >
> > >
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