17 Aug
2010
17 Aug
'10
3:43 p.m.
no problem, eventually we'll have a help page once we gather all the new issues with this new gpu stuff.
what kind of card do you have? is it one of these:
http://www.nvidia.com/object/cuda_gpus.html
make sure your driver is the one from the site. the driver name 'nvidia-gfxG02-kmp-desktop' doesnt look familiar to me. it should be named something like 'NVIDIA-Linux-x86_64-256.44', which you should be able to get with 'nvidia-installer --update'.
n.
On Tue, 2010-08-17 at 14:18 -0500, joel bruss wrote:
Sorry to be a PITA but I'm still having issues. I pointed at cuda-64 and now I get:
mri_em_register_cuda -skull nu.mgz /usr/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull.lta Acquiring CUDA device Using default device CUDA Error in file 'devicemanagement.cu' on line 46 : CUDA driver version is insufficient for CUDA runtime version. 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 13:51:07 CDT 2010I have the latest CUDA toolkit, 3.1, as well as the latest Nvidia driver, nvidia-gfxG02-kmp-desktop. Any further thoughts?
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. 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