wiki:Workshops/IntroToHpc2015/ModuleCommand

Program:module

module is a utility used to manage multiple compilers on a single system, as well as set environment variables for other programs and utilities.

Available Modules

The following command will list all available modules.

[tulaneID@cypress1 ~]$ module avail

-------------------------------------------------------- /cm/local/modulefiles --------------------------------------------------------
cluster-tools/7.0                 ipmitool/1.8.13                   openldap
cmd                               module-git                        openmpi/gcc/64/1.8.2-mlnx-ofed2
dot                               module-info                       shared
freeipmi/1.3.4                    mvapich2/gcc/64/2.0rc1-mlnx-ofed2 use.own
intel/mic/sdk/3.3                 null                              version

------------------------------------------------------- /cm/shared/modulefiles --------------------------------------------------------
acml/gcc/64/5.3.1                      cuda60/profiler/6.0.37                 lapack/gcc/64/3.5.0
acml/gcc/fma4/5.3.1                    cuda60/toolkit/6.0.37                  lapack/open64/64/3.5.0
acml/gcc/mp/64/5.3.1                   default-environment                    mpich/ge/gcc/64/3.1
acml/gcc/mp/fma4/5.3.1                 fftw2/openmpi/gcc/64/double/2.1.5      mpich/ge/open64/64/3.1
acml/gcc-int64/64/5.3.1                fftw2/openmpi/gcc/64/float/2.1.5       mpiexec/0.84_432
acml/gcc-int64/fma4/5.3.1              fftw2/openmpi/open64/64/double/2.1.5   mvapich/gcc/64/1.2rc1
acml/gcc-int64/mp/64/5.3.1             fftw2/openmpi/open64/64/float/2.1.5    mvapich/open64/64/1.2rc1
acml/gcc-int64/mp/fma4/5.3.1           fftw3/openmpi/gcc/64/3.3.3             mvapich2/gcc/64/2.0b
acml/open64/64/5.3.1                   fftw3/openmpi/open64/64/3.3.3          mvapich2/open64/64/2.0b
acml/open64/fma4/5.3.1                 gcc/4.8.2                              netcdf/gcc/64/4.3.1.1
acml/open64/mp/64/5.3.1                globalarrays/openmpi/gcc/64/5.3        netcdf/open64/64/4.3.1.1
acml/open64/mp/fma4/5.3.1              globalarrays/openmpi/open64/64/5.3     netperf/2.6.0
acml/open64-int64/64/5.3.1             hadoop/HAL/Cloudera/2.3.0-cdh5.1.2     open64/4.5.2.1
acml/open64-int64/fma4/5.3.1           hdf5/1.6.10                            openblas/dynamic/0.2.8
acml/open64-int64/mp/64/5.3.1          hdf5_18/1.8.12                         openmpi/gcc/64/1.8.1
acml/open64-int64/mp/fma4/5.3.1        hive/HAL/Cloudera/1.2.0-bin            openmpi/open64/64/1.8.1
blacs/mpichge/gcc/64/1.1patch03        hpl/2.1                                pbspro/12.2.1.140292
blacs/openmpi/gcc/64/1.1patch03        hwloc/1.8.1                            pig/HAL/Cloudera/0.12.0-cdh5.1.2
blacs/openmpi/open64/64/1.1patch03     intel/compiler/64/14.0/2013_sp1.3.174  scalapack/gcc/64/1.8.0
blas/gcc/64/1                          intel-cluster-checker/2.1.2            scalapack/open64/64/1.8.0
blas/open64/64/1                       intel-cluster-runtime/ia32/3.6         sge/2011.11p1
bonnie++/1.97.1                        intel-cluster-runtime/intel64/3.6      slurm/14.03.0
cmgui/7.0                              intel-cluster-runtime/mic/3.6          spark/HAL/Cloudera/1.4.0-bin-hadoop2.3
cuda60/blas/6.0.37                     intel-tbb-oss/ia32/42_20140601oss      torque/4.2.6.1
cuda60/fft/6.0.37                      intel-tbb-oss/intel64/42_20140601oss   tulane/intel-psxe/2015
cuda60/nsight/6.0.37                   iozone/3_420

------------------------------------------------------- /share/apps/modulefiles -------------------------------------------------------
anaconda/2.1.0             fftw/2.1.5/single          metis/5.1.0                plink/1.07
bbcp/amd64_rhel60          fftw/3.3.4                 mosaik/2.2.3               python/2.7.10
berkeleygw/1.1-beta2       gcc/4.7.4                  mpich/3.1.4                R/3.1.2
boost/1.57.0               git/2.4.1                  ncbi-blast/2.2.30+         rsem/1.2.19
bowtie/1.1.1               gnuplot/5.0.1              netcdf/4.3.2               samtools/0.1.19
bowtie2/2.2.4              hdf5/1.8.14                netcdf-cxx4/4.2.1          samtools/1.1
cmake/3.0.2                hdf5-parallel/1.8.14       netcdf-fortran/4.4.1       star/2.4.0i
diamond/0.6.12             ibamr/0.1-rc1              openmpi/1.8.4              sundials/2.5.0
eigen/3.2.4                idev                       parmetis/4.0.3             tinker/7.1.2
emacs/24.4                 intel-psxe/2015-update1    petsc/3.4.5                tophat/2.0.13
espresso/5.1.2             matlab/r2013b              petsc/3.5.2                visit/2.9.2
fftw/2.1.5/double(default) matlab/r2015a              petsc/3.5.3                vtk/6.1.0

Loading & Unloading Modules

This will load the Intel Parallel Studio XE which contains the Intel compiler suite:

[tulaneID@cypress1 ~]$ module load intel-psxe

To unload the same package:

[tulaneID@cypress1 ~]$ module unload intel-psxe

Listing Loaded Modules

[tulaneID@cypress1 ~]$ module load intel-psxe
[tulaneID@cypress1 ~]$ module list
Currently Loaded Modulefiles:
  1) slurm/14.03.0             2) idev                      3) intel-psxe/2015-update1

using $HOME/.modulerc

This file can be used to load or to define your own environment during each login. An example looks like this:

#%Module1.0
module load matlab/R2013a

A .modulerc begins with the magic cookie, '#%Module'. A version number may be placed after this string. The current version is 1.0.

If you want to set .modulerc to work for both "sphynx" and "ares", it is better to set like:

#%Module1.0
if { $HOSTNAME == "sphynx.ccs.tulane.edu" } {
 module load intel/12.1
 module load openmpi-intel-ib/1.6
 module load matlab/R2013a 
}
if { $HOSTNAME == "cypress1" } {
 module load intel/12.0
 module load openmpi-intel-ib/1.5
}

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Last modified 4 years ago Last modified on Oct 12, 2015 3:54:36 PM