I have an ready to go easyconfig for RELION 2.1.b1 with GPU support. The build is currently crunching away at the first benchmark on a single node.
I haven't uploaded it yet but i can do that tomorrow if you want to test it. On 12/04/2017 09:02 PM, Dey, John F wrote: > I am trying to creating a new easybuild easyconfig for RELION 2.0.3 with > Easybuild 3.4.1. My build environment is Ubuntu 14.04 and foss-2016b. > RELION builds without issues in this environment but fails build with > Easybuild. > > > > Easybuild easyconfig for RELION is here: > > https://github.com/FredHutch/easybuild-life-sciences/blob/master/fh_easyconfigs/RELION-2.0.3-foss-2016b.eb > > Complete log file is here. > > https://gist.github.com/fizwit/cc4a24159ff1e8815e6c6eb9c6492996 > > > > RELION uses mpicxx to compile OpenMPI libs. The build errors indicate > that mpicxx is using the OS header files in place of the CXX headers > from GCCcore/5.4.0. Why would easybuild pick a C header and not the > CXX header? Thanks for any ideas or help you can provide. > > > > > > Build errors: > > /app/easybuild/software/OpenMPI/1.10.3-GCC-5.4.0-2.26/bin/mpicxx > -DHAVE_SINCOS > -DINSTALL_LIBRARY_DIR=/app/easybuild/software/RELION/2.0.3-foss-2016b/lib/ > -DSOURCE_DIR=/app/easybuild/build/RELION/2.0.3/foss-2016b/relion-2.0.3/src/ > -Drelion_lib_EXPORTS > -I/app/easybuild/software/OpenMPI/1.10.3-GCC-5.4.0-2.26/include > -I/app/easybuild/build/RELION/2.0.3/foss-2016b/relion-2.0.3 > -I/app/easybuild/software/FFTW/3.3.4-gompi-2016b/include > -I/app/easybuild/software/FLTK/1.3.3-foss-2016b/include > -DOMPI_IGNORE_CXX_SEEK -O2 -march=native -O3 -DNDEBUG -fPIC -o > CMakeFiles/relion_lib.dir/__/autopicker_mpi.cpp.o -c > /app/easybuild/build/RELION/2.0.3/foss-2016b/relion-2.0.3/src/autopicker_mpi.cpp > > In file included from > /app/easybuild/software/GCCcore/5.4.0/include/c++/5.4.0/cstdlib:72:0, > > from > /app/easybuild/build/RELION/2.0.3/foss-2016b/relion-2.0.3/src/mpi.h:49, > > from > /app/easybuild/build/RELION/2.0.3/foss-2016b/relion-2.0.3/src/autopicker_mpi.h:11, > > from > /app/easybuild/build/RELION/2.0.3/foss-2016b/relion-2.0.3/src/autopicker_mpi.cpp:21: > > /usr/include/stdlib.h:345:5: error: ‘int32_t’ does not name a type > > int32_t *fptr; /* Front pointer. */ > > ^ > > > -- Ake Sandgren, HPC2N, Umea University, S-90187 Umea, Sweden Internet: [email protected] Phone: +46 90 7866134 Fax: +46 90-580 14 Mobile: +46 70 7716134 WWW: http://www.hpc2n.umu.se
