Re: help with running namd-cuda for the tutorials

From: Paul Rigor (uci) (paul.rigor_at_uci.edu)
Date: Fri Nov 20 2009 - 21:05:48 CST

Perfect! I was running into manually patching 4.3 to compile from SRPM and
was about to give up and just re-install Fedora 10!

Thanks Axel,
paul

2009/11/20 Axel Kohlmeyer <akohlmey_at_gmail.com>

> On Fri, 2009-11-20 at 18:06 -0800, Paul Rigor (uci) wrote:
> > I actually did, thought I was misspelling that argument! however, i'm
> > running into a more serious problem with the cuda library itself. fedora
> > 11's version of gcc/g++ is not compabitle (4.4). i'm currently compiling
> > 4.3...
>
> have you tried a hack like this?
> http://groups.google.com/group/hoomd-users/msg/c363ced1269212d0
>
> for the most part, it seems to a problem of the more strict
> glibc headers (not gcc).
>
> cheers,
> axel.
>
> >
> > thanks,
> > paul
> >
> > 2009/11/20 Andreas Förster <docandreas_at_gmail.com>
> >
> > > Well, did you "add +idlepoll" to the command line, as the error message
> > > suggests?
> > >
> > >
> > > Andreas
> > >
> > >
> > >
> > > Paul Rigor (uci) wrote:
> > >
> > >> Hi,
> > >>
> > >> I receive a fatal error when attempting to run the cuda-enabled
> version of
> > >> namd2 even on the simple tutorials. Below are my system config, error
> > >> message and ldd output (which verifies that my system has all the
> requisite
> > >> libraries).
> > >>
> > >> I'd really appreciate any help!
> > >>
> > >> Thanks,
> > >> Paul
> > >>
> > >> ==System==
> > >> Fedora Core 11, x64, NVidia GTX260
> > >>
> > >> ==Error==
> > >> [prigor_at_localhost 1-3-box]$
> ~/Download/NAMD_CVS_Linux-x86_64-CUDA/namd2
> > >> ubq_wb_eq.conf
> > >> Charm++: standalone mode (not using charmrun)
> > >> FATAL ERROR: Please add +idlepoll to command line for proper
> performance
> --
> Dr. Axel Kohlmeyer akohlmey_at_gmail.com
> Institute for Computational Molecular Science
> College of Science and Technology
> Temple University, Philadelphia PA, USA.
>
>

-- 
Paul Rigor
Pre-doctoral BIT Fellow and Graduate Student
Institute for Genomics and Bioinformatics
Donald Bren School of Information and Computer Sciences
University of California, Irvine
http://www.ics.uci.edu/~prigor

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