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| language | bash |
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| theme | DJango |
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| title | Terminal 4. Explicit use of the singularity command and the SINGULARITY_CONTAINER variable to open an interactive session |
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| $ module load openfoam-container/v2012
$ singularity shell $SINGULARITY_CONTAINER
Singularity> echo $FOAM_ETC
/opt/OpenFOAM/OpenFOAM-v2012/etc
Singularity> |
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And, of course, the singularity command can be used within Slurm batch scripts. So, the execution command in the example script for the solver execution in the OpenFOAM: Example Slurm Batch Scripts page can be modified to explicitly use the singularity command:
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| language | bash |
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| theme | Emacs |
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| title | Listing 1. Example Slurm batch script to run a solver with 1152 mpi tasks |
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| #!/bin/bash --login
#SBATCH --job-name=[name_of_job]
#SBATCH --partition=work
#SBATCH --ntasks=1152
#SBATCH --ntasks-per-node=128
#SBATCH --cpus-per-task=1
#SBATCH --exclusive
#SBATCH --time=[neededTime]
module load openfoam-org-container/7
#--- Specific settings for the cluster you are on
#(Check the specific guide of the cluster for additional settings)
# ---
# Set MPI related environment variables. Not all need to be set
# main variables for multi-node jobs (uncomment for multinode jobs)
export MPICH_OFI_STARTUP_CONNECT=1
export MPICH_OFI_VERBOSE=1
#Ask MPI to provide useful runtime information (uncomment if debugging)
#export MPICH_ENV_DISPLAY=1
#export MPICH_MEMORY_REPORT=1
#--- Automating the list of IORANKS for collated fileHandler
echo "Setting the grouping ratio for collated fileHandling"
nProcs=$SLURM_NTASKS #Number of total processors in decomposition for this case
mGroup=32 #Size of the groups for collated fileHandling (32 is the initial recommendation for Setonix)
of_ioRanks="0"
iC=$mGroup
while [ $iC -le $nProcs ]; do
of_ioRanks="$of_ioRanks $iC"
((iC += $mGroup))
done
export FOAM_IORANKS="("${of_ioRanks}")"
echo "FOAM_IORANKS=$FOAM_IORANKS"
#-- Execute the solver:
srun -N $SLURM_JOB_NUM_NODES -n $SLURM_NTASKS -c $SLURM_CPUS_PER_TASK singularity exec $SINGULARITY_CONTAINER pimpleFoam -parallel |
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