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  • Created by Unknown User (rtm25), last modified by Unknown User (sac44) on Jul 20, 2018
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Contents

Introduction

On a complex computer system like Balena which uses multiple versions of a wide range of software/applications the Environment Modules package provides for the dynamic modification of a user's environment via modulefiles. A module when activated essentially modifies the environment variables to point to the correct libraries and executables for that version of the application.

Environment variables that are typically modified include:-

  • PATH

  • MANPATH

  • LD_LIBRARY_PATH

  • LD_PRELOAD

  • LD_LIBRARY_LOAD

  • LD_RUN_PATH

  • MPI_HOME

Basic commands

You can use the following commands to adjust your environment:

module avail            - shows available modules
module load <module>    - adds a module to your environment
module list             - list the modules loaded into your environment

These are described in more detail in the following.

module avail

List all available modulefiles in the current MODULEPATH which is by default set to Balena's shared modulefiles directory.

Example
[user123@balena-02 ~]$ module avail
 
----------------------------------------------------------------- /cm/local/modulefiles -----------------------------------------------------------------
cluster-tools/7.0 dot               ipmitool/1.8.13   module-info       openldap          use.own
cmd               freeipmi/1.3.4    module-git        null              shared            version

------------------------------------------------------------------- /apps/modulefiles -------------------------------------------------------------------
allinea/ddt-map/4.2                   cuda60/toolkit/6.0.37                 gaussian09/intel/D.01-linda           intel/mpi/64/5.0.1.035(default)
allinea/reports/5.0                   cuda65/blas/6.5.14                    gromacs/cpu/dp/5.0.2                  intel/mpi/mic/5.0.1.035
ansys/v150                            cuda65/fft/6.5.14                     gromacs/cpu/sp/5.0.2                  matlab/2014b
boost/gcc/1.57.0                      cuda65/nsight/6.5.14                  gromacs/cuda/5.0.2                    openfoam/intel/2.3.x-svn-06112014
boost/intel/1.57.0                    cuda65/profiler/6.5.14                intel/compiler/64/11.1.080            openmpi/gcc/1.8.4
crystal09/intel/1.0.1                 cuda65/toolkit/6.5.14                 intel/compiler/64/15.0.0.090(default) openmpi/intel/1.8.4
cuda60/blas/6.0.37                    espresso/5.1                          intel/compiler/mic/15.0.0.090         python/2.7.8
cuda60/fft/6.0.37                     fftw3/intel/avx/3.3.4                 intel/imb/4.0.2                       python/3.4.2(default)
cuda60/nsight/6.0.37                  fftw3/intel/sse/3.3.4                 intel/mkl/64/10.2.7                   valgrind/3.10.0
cuda60/profiler/6.0.37                gaussian09/A.02                       intel/mkl/64/11.2(default)            vasp/intel/5.3.5
cuda60/tdk/331.62                     gaussian09/intel/D.01                 intel/mkl/mic/11.2

 

module list

List all the currently loaded modules. A few modules are activated by default on Balena.

Example
[user123@balena-02 ~]$ module list
Currently Loaded Modulefiles:
  1) gcc/4.8.2       2) slurm/14.03.0

 

module show

Show information on what changes to your environment loading a given module will make.

Example
[user123@balena-02 ~]$ module show openmpi/intel/1.8.4 
-------------------------------------------------------------------
/apps/modulefiles/openmpi/intel/1.8.4:

module-whatis	 adds OpenMPI to your environment variables 
conflict	 openmpi/gcc 
prereq	 intel/compiler/64/15.0.0.090 
prereq	 slurm 
setenv		 MPIROOT /apps/openmpi/intel-2015/1.8.4 
setenv		 MPI_HOME /apps/openmpi/intel-2015/1.8.4 
setenv		 MPIRUN /apps/openmpi/intel-2015/1.8.4/bin/mpirun 
setenv		 MPI_RUN /apps/openmpi/intel-2015/1.8.4/bin/mpirun 
setenv		 CC mpicc 
setenv		 CXX mpiCC 
setenv		 F77 mpif77 
setenv		 FC mpif90 
setenv		 F90 mpif90 
setenv		 F95 mpif90 
prepend-path	 PATH /apps/openmpi/intel-2015/1.8.4/bin 
prepend-path	 MANPATH /apps/openmpi/intel-2015/1.8.4/share/man/ 
prepend-path	 LD_RUN_PATH /apps/openmpi/intel-2015/1.8.4/lib64 
prepend-path	 LD_LIBRARY_PATH /apps/openmpi/intel-2015/1.8.4/lib64 
prepend-path	 CPATH /apps/openmpi/intel-2015/1.8.4/include 
-------------------------------------------------------------------

 

module load

Update your environment variables so that you can use the libraries and executables referred to by the name of that module. Once loaded, the module will be visible in the list output by the module list command.

Example
[user123@balena-02 ~]$ module load intel/compiler
[user123@balena-02 ~]$ module list 
Currently Loaded Modulefiles:
  1) gcc/4.8.2                               2) slurm/14.03.0                           3) intel/compiler/64/15.0.0.090(default)

 

module unload

Undo the changes that a module made to your environment when it was loaded.

Example
[user123@balena-02 ~]$ module load intel/compiler
[user123@balena-02 ~]$ module list 
Currently Loaded Modulefiles:
  1) gcc/4.8.2                               2) slurm/14.03.0                           3) intel/compiler/64/15.0.0.090(default)
[user123@balena-02 ~]$ module unload intel/compiler
[user123@balena-02 ~]$ module list 
Currently Loaded Modulefiles:
  1) gcc/4.8.2       2) slurm/14.03.0
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