17 Aug
2010
17 Aug
'10
1:51 p.m.
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 2010Thoughts?
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 > > > > ______________________________________________________________ > > This email message is for the sole use of the intended > > recipient(s) and may contain confidential and privileged > > information. Any unauthorized review, use, disclosure or > > distribution is prohibited. If you are not the intended > > recipient, please contact the sender by reply email and > > destroy all copies of the original message. If you are the > > intended recipient, please be advised that the content of this > > message is subject to access, review and disclosure by the > > sender's Email System Administrator > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > The information in this e-mail is intended only for the person > > to whom it is > > addressed. If you believe this e-mail was sent to you in error > > and the e-mail > > contains patient information, please contact the Partners > > Compliance HelpLine at > > http://www.partners.org/complianceline . If the e-mail was > > sent to you in error > > but does not contain patient information, please contact the > > sender and properly > > dispose of the e-mail. > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >