GitHub site: https://github.com/hpcuantwerpen/vsc-tutorial

vsc-tutorial

This repository contains a number of programs/commands that are useful for the hands-ion exercises during the HPC tutorial sessions at UAntwerp. They are meant to be compiled into a module that can be loaded and used by the students, so all commands are put in a bin directory and there are also man pages provided. We suggest to also copy the source files to illustrate various programming models to those who might be interested.

Example job scripts for omp_hello

omp_hello can be used to experiment with launching OpenMP jobs

With Torque/Moab

#! /bin/bash
#PBS -L tasks=1:lprocs=7:swap=4gb
#PBS -l walltime=5:00
#PBS -N omp-hello-test

cd $PBS_O_WORKDIR

module load calcua/supported
module load vsc-tutorial/201810-intel-2018b
module load torque-tools

export OMP_NUM_THREADS=$(torque-lprocs 0)
omp_hello

With Slurm Workload manager

#! /bin/bash
#SBATCH --ntasks=1 --cpus-per-task=5 --mem=4g
#SBATCH--time=5:00
#SBATCH --job-name=omp-hello-test

module purge
module load calcua/supported
module load vsc-tutorial/201810-intel-2018b

# The next line doesn't seem to be needed with Slurm but is safe to add.
export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK

omp_hello

Example job scripts for mpi_hello

mpi_hello is a program to experiment with launching MPI jobs

With Torque/Moab

#! /bin/bash
#PBS -L tasks=2:lprocs=all:place=node:swap=4gb
#PBS -l walltime=5:00
#PBS -N MPI-hello-test

cd $PBS_O_WORKDIR

module load calcua/supported
module load vsc-tutorial/201810-intel-2018b
mpirun mpi_hello

With Slurm Workload manager

#! /bin/bash
#SBATCH --ntasks=40 --cpus-per-task=1 --mem-per-cpu=1g
#SBATCH --time=5:00
#SBATCH --job-name=MPI-hello-test

module purge
module load calcua/supported
module load vsc-tutorial/201810-intel-2018b

srun mpi_hello

Example job scripts for mpi_omp_hello

mpi_opm_hello is a program to experiment with launching hybrid MPI/OpenMP jobs.

With Torque/Moab

#! /bin/bash
#PBS -L tasks=8:lprocs=7:swap=4gb
#PBS -l walltime=5:00
#PBS -N hybrid-hello-test

cd $PBS_O_WORKDIR

module load calcua/supported
module load vsc-tutorial/201810-intel-2018b
module load torque-tools

export OMP_NUM_THREADS=$(torque-lprocs 0)
torque-host-per-line >machinefile.$PBS_JOBID
mpirun -machinefile machinefile.$PBS_JOBID mpi_omp_hello
/bin/rm machinefile.$PBS_JOBID

With Slurm Workload Manager

#! /bin/bash
#SBATCH --ntasks=8 --cpus-per-task=5 --mem-per-cpu=512m
#SBATCH --time=5:00
#SBATCH --job-name=hybrid-hello-test

module purge
module load calcua/supported
module load vsc-tutorial/201810-intel-2018b

# The next line doesn't seem to be needed with Slurm but is safe to add.
export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK

srun mpi_omp_hello