Hi Stefano, On Jul 23, 2015, at 11:58 AM, "Berri, Stefano" <[email protected]> wrote:
> Hi Pieter, > > thanks for this work. I'll try it later. > >> For libpng-1.6.17 and freetype-2.6 I had to create new easyconfigs and >> patches as these libs contain bugs and some R packages fail to compile with >> the plain vanilla libs. >> I'll create a pull request for these new easyconfigs, but it will take >> some time before these are available from the latest and greatest EasyBuild >> release... > > I have also stumbled on the problems introduced by easybuild and libpng. For > reasons I don't understand there is no png capabilities when I build R with > easybuild (despite the --with-cairo --with-libpng flags). I have actually > discovered that, on my system, removing dependency to libpng restores png > capability (??) but then there are other problems... It's hard to debug without details, but what expect happened is that the libpng dependency specified in your easyconfig is a relatively recent one which requires a patch due to a bug. Once you remove the dependency in your easyconfig the configure for R may detect an older installed version that came from the repo's of your Linux repo. That one lacks some functionality that is required by R or one of the R packages for plotting. Links to easyconfigs + patches for libs will follow in a future email... > Can you tell me more about fixing that issue, please? > If we cannot print to png, nobody in my group will ever care to use an R > deployment built with easybuild. Same here and we also want create plots in svg, pdf, jpeg, etc. :) > Also, I noticed that you have --with-x=no option. Is it because you don't > need plotting to X or is there a reason for that? We never use R with an X11 based GUI; it's commandline only :). Therefore I disabled X as the required libs are often missing from "headless" compute nodes in a cluster, which will cause trouble when you compile on a user inteface / login node with X11 libs and then try to execute a job on an execution node without X11. The issue is that X11 packages install various "add-ons" with regard to font handling. Once you compile with that enabled you will also need it when you create plots on a node and save them directly to a file. If you do want X11 capabilities and the required libs are available on all machines in your compute environment you can enable X and it should work without problems. Cheers, Pi > Thanks a lot > > Stefano > > ------------------------------------------------------------- phone: +31 6 143 66 783 e-mail: [email protected] skype: pieter.online -------------------------------------------------------------
