My guess is that maybe the default Ubuntu binaries aren't compiled with MKL (Math Kernel Library) support and thus with no multithreading.
I would suggest doing a quick research on how to re-compile R with MKL support and maybe you'll be good to go. On Fri, Mar 14, 2014 at 9:45 PM, Russell Bainer <russ.bai...@gmail.com> wrote: > Hi All, > > I've run across an odd phenomenon and I am wondering if someone might be > able to provide insight as to what is going on. I'm running some R code > that was provided by a collaborator, who is not a very experienced R > programmer (e.g., the code is functional but not very efficient). When I > run it from the terminal or command line everything executes, albeit very > slowly- the logfile suggests that the program is about 5% done after > running over last weekend. Top indicates that it is maxing out one of my > CPUs and chewing up a lot of memory, which I expect. > > The strange thing is that my collaborator insists that the code executes > on the order of minutes on his 2012 macbook pro with 8G of memory. I am > running it with ubuntu 12.04 on a dual-core i7 with 32G, and it's slow as > molasses. That suggests a configuration issue of some kind with R that I > might not be aware of (I am more experienced in R and usually don't write > code that requires resources like that). I have played with my swappiness > and the effect seems to be minimal. Can anyone suggest something else that > could be going on? I have considered trying to run it directly on a unix > server, but the code has a lot of third-party dependencies that would be a > bit of work to set up for simple troubleshooting. And naturally I'd prefer > that R be configured correctly in the event that I need to locally run > something more intense in the future. > > Thanks in advance for any advice you can give. This message has been > cross-posted omn the ubuntu forums. > > -R > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. -- Augusto ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
