On Wed, Jun 2, 2010 at 3:27 PM, Jonathan Greenberg <[email protected]> wrote: > Dirk suggested I move this thread over here. I am trying to get a > multithreaded (multi CPU) version of ATLAS working with R, and have > been unable, thus far, to get it working. Has anyone gotten an > multithreaded version of ATLAS working on Debian (64 bit)? I've tried > this: > > apt-get source atlas -t unstable > cd atlas-3.8.3 > DEFAULTS=n fakeroot debian/rules custom > > but it is APPEARING to only install a single threaded version of > ATLAS. Running the test: > > a = matrix(rnorm(5000*5000), 5000, 5000) > b = matrix(rnorm(5000*5000), 5000, 5000) > c = a%*%b > > only shows a spike on a single CPU. > > Thanks to Dirk, I can confirm R is using the ATLAS I have > configured/compiled/installed above, so that (I don't think) is the > issue. > Hello:
I've not done this, but will look into it. I've recently installed gotoblas2 on Ubuntu64 and I've run your test and see the same effect. The calculations stay on one thread. I wonder, though, if you can point me at some documentation that says how it is *supposed* to work with R and Atlas. From what I can tall, R is single threaded. The Atlas routines want your program to ask for a certain number of threads, they don't automatically spread out across processors, do they? I've only been reading on this 10 minutes, maybe they do. Anyway, if you point us to some documents that show a single threaded R is supposed to be able to fan out matrix algebra with Atlas, please let me know. Along similar lines, I've been investigating Scalapack to see how they make it work. pj -- Paul E. Johnson Professor, Political Science 1541 Lilac Lane, Room 504 University of Kansas _______________________________________________ R-SIG-Debian mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-debian
