On Mar 8, 2011, at 5:45 AM, Ben Bond-Lamberty wrote: > Alan, > The multicore package is easy to use and, if you problem is indeed > embarrassingly parallel (there's no communication between different > models? how about between chains?) should be straightforward to add. > Note that you'll need to run any multicore-using script from the > Terminal command line, and not from the Mac GUI, though.
FWIW since multicore 0.1-4 and R 2.12.2 it should be possible to run multicore in the Mac GUI (as long as you don't explicitly call GUI or graphics code in the parallel parts). Cheers, Simon > Ben > > On Tue, Mar 8, 2011 at 3:14 AM, Alan Kelly <ake...@tcd.ie> wrote: >> Dear all, I'm running a number of Bayesian binomial regression models using >> jags (interfacing with R via R2jags) on a Mac server with quad core >> processor running at 2.66 Ghz with 6 GB memory under Snow Leopard (session >> info below). As the models contain around 30 predictors and between 5 to 15 >> thousand observations, the time required to run a single model with 3 chains >> with an adequate number of iterations to ensure convergence is around 2 >> hours. While I can live with this for the occasional run, it will be a >> problem when I need to run several dozen different models. >> Perhaps some of you have relevant experience and can advise if this run time >> could be significantly reduced using, for example, one of the parallel >> computing packages? And if so, which one? I should add that I'm not clear >> if jags can directly avail of multicore processing even if available - it >> might be necessary to program a Gibbs or Metropolis sampler directly in >> R..... >> Any thoughts/suggestions? >> Best wishes, >> Alan Kelly >> >> sessionInfo() >> R version 2.12.1 (2010-12-16) >> Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) >> >> locale: >> [1] en_IE.UTF-8/en_IE.UTF-8/C/C/en_IE.UTF-8/en_IE.UTF-8 >> >> attached base packages: >> [1] splines stats graphics grDevices utils datasets methods >> base >> >> other attached packages: >> [1] car_2.0-9 survival_2.36-2 nnet_7.3-1 MASS_7.3-9 >> foreign_0.8-41 >> >> loaded via a namespace (and not attached): >> [1] tools_2.12.1 >> >> >> _______________________________________________ >> R-SIG-Mac mailing list >> R-SIG-Mac@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >> > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac > > _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
