Thanks Zimbatm, 16GB, and I retried with 32GB. Actually a very good idea with NixOps. I didn't realise you could use your own pre-built stuff, that would really simplify things. As a data scientist I am not so familiar with DevOps but it might be just the solution to get the reproducibility I need. Guess I have my weekend project sorted :)
Cheers, Ash > On 21 Oct 2016, at 3:47 am, zimbatm <[email protected]> wrote: > > How much memory do you have available? 16MB is just for this process, nix-env > itself is probably taking another 200MB or more. > > One solution is to build things locally and then use nix-copy-closure or > nixops to deploy the changes. > > > On Thu, 20 Oct 2016, 13:55 Ashley Gillman, <[email protected]> wrote: > Hi Nix Dev, > > I am having issues installing on an HPC cluster. My methodology has been > using PRoot to mount a directory to /nix. I am using Nix 1.11.2 > > Impurities seem to be creeping into the build process, that I don't get when > building locally. For example, when building Python Pillow, I had to also > mount an empty directory over /usr/include, because the builds were including > gcc flags for `-I/usr/include` and breaking the build. But this shouldn't > happen, should it? The hack of mounting over these directories was a > temporary fix. > > My current error is when building Boost with GCC49, which again works locally > (Ubuntu 14.04) but not on the cluster. > > nix-build -E 'with import <nixpkgs> { }; boost.override { stdenv = > overrideCC stdenv gcc49; }' > ... > post-installation fixup > shrinking RPATHs of ELF executables and libraries in > /nix/store/fv2wsfc1g43m72xy0398lh8wgi6nsx1z-boost-1.59.0 > gzipping man pages in > /nix/store/fv2wsfc1g43m72xy0398lh8wgi6nsx1z-boost-1.59.0 > patching script interpreter paths in > /nix/store/fv2wsfc1g43m72xy0398lh8wgi6nsx1z-boost-1.59.0 > shrinking RPATHs of ELF executables and libraries in > /nix/store/sgs6pcdj7c3xkmvh0s51hvs06ahan50l-boost-1.59.0-dev > /nix/store/nkl8p82samb219yr5i7bdx4mm2mgg5ab-stdenv/setup: xmalloc: > subst.c:4911: cannot allocate 256 bytes (16777216 bytes allocated) > builder for > ‘/nix/store/xqsq53xim1kbhk4zsdimmjxwc9s13n3b-boost-1.59.0.drv’ failed with > exit code 2 > > This looks like a memory error, but for 16MB? I certainly have much more > memory than that available, and increasing the allocated memory for the > compute nodes doesn't change the error. I am guessing it may be again due to > some impurity, how can these creep in? > > Any advise, even on how best to debug, is much appreciated. > > Kind regards, > Ashley > _______________________________________________ > nix-dev mailing list > [email protected] > http://lists.science.uu.nl/mailman/listinfo/nix-dev _______________________________________________ nix-dev mailing list [email protected] http://lists.science.uu.nl/mailman/listinfo/nix-dev
