Modules

Software and Modules

Grid'5000 provides a set of software (mainly scientific-related) using the module command line tool. They are available from Grid5000 frontends or cluster's nodes (only on standard, big, and nfs environment if deployment is used).

If you need additional software to be installed, feel free to contact Grid5000 support team and we can look into it.

Modules

The module system is designed to load software and make it available by modifying environment (such as your PATH variable).

To get started, list available software using:

$ module av
--------------------------------------------- /grid5000/spack/share/spack/modules/linux-debian9-x86_64 ---------------------------------------------
autoconf/2.69_gcc-6.4.0                        gcc/7.4.0_gcc-6.4.0                            llvm/7.0.1_gcc-6.4.0
automake/1.16.1_gcc-6.4.0                      gcc/8.3.0_gcc-6.4.0                            memkind/1.7.0_gcc-6.4.0
boost/1.69.0_gcc-6.4.0                         gmp/6.1.2_gcc-6.4.0                            miniconda2/4.5.11_gcc-6.4.0
cmake/3.13.4_gcc-6.4.0                         hwloc/1.11.11_gcc-6.4.0                        miniconda3/4.5.11_gcc-6.4.0
cuda/10.0.130_gcc-6.4.0                        hwloc/2.0.2_gcc-6.4.0                          mpfr/4.0.1_gcc-6.4.0
cuda/7.5.18_gcc-6.4.0                          intel-mkl/2017.4.239_gcc-6.4.0                 netlib-lapack/3.8.0_gcc-6.4.0
cuda/8.0.61_gcc-6.4.0                          intel-mkl/2018.1.163_gcc-6.4.0                 netlib-xblas/1.0.248_gcc-6.4.0
cuda/9.0.176_gcc-6.4.0                         intel-mkl/2019.1.144_gcc-6.4.0                 numactl/2.0.12_gcc-6.4.0
cuda/9.1.85_gcc-6.4.0                          intel-mpi/2019.1.144_gcc-6.4.0                 openblas/0.3.5_gcc-6.4.0
cuda/9.2.88_gcc-6.4.0                          intel-parallel-studio/cluster.2019.2_gcc-6.4.0 openmpi/3.1.3_gcc-6.4.0
cudnn/5.1_gcc-6.4.0                            intel-tbb/2019.2_gcc-6.4.0                     papi/5.6.0_gcc-6.4.0
cudnn/6.0_gcc-6.4.0                            isl/0.19_gcc-6.4.0                             swig/3.0.12_gcc-6.4.0
cudnn/7.3_gcc-6.4.0                            jdk/11.0.2_9_gcc-6.4.0                         tar/1.31_gcc-6.4.0
gcc/6.4.0_gcc-6.4.0                            libfabric/1.7.1_gcc-6.4.0
gcc/6.5.0_gcc-6.4.0                            likwid/4.3.2_gcc-6.4.0

To load something into your environment use the load command:

$ module load gcc
$ gcc --version
gcc (GCC) 8.3.0

By default, module loads the latest version available of a software (sorted by alphabetical order). You can also specify the version you need:

$ module load gcc/7.4.0_gcc-6.4.0
$ gcc --version
gcc (GCC) 7.4.0

You can also find out more information about the package using whatis or show commands:

$ module whatis gcc
$ module show gcc

If you want to unload one or all the currently loaded modules, you can use:

$ module unload gcc
$ module purge

The full documentation of module command is available at: http://modules.sourceforge.net/

Packages that require connection to license server

Some packages available with module are licensed and require a connection to a license server. If your institution provide a license server for this software, you have to forward the connection to the license server from the node where the software will be used.

For instance, to use Intel software from an Inria institute, you have to forward ports 29030 and 34430 between your node and jetons.inria.fr server, and configure Intel stack where to find the connection:

# Assuming that your connecting from a network where jetons.inria.fr is available 
ssh -R 29030:jetons.inria.fr:29030 -R 34430:jetons.inria.fr:34430 <your_node>.g5k
module load intel-parallel-studio
export INTEL_LICENSE_FILE=29030@127.0.0.1
icc -v