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Introduction
OpenFOAM is a framework for developing application executables that use packaged functionality contained within a collection of approximately 100 C+ libraries. OpenFOAM is shipped with approximately 250 pre-built applications that fall into two categories: solvers, that are each designed to solve a specific problem in fluid (or continuum) mechanics; and utilities, that are designed to perform tasks that involve data manipulation.
Source: https://cfd.direct/openfoam/user-guide/
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Singularity is installed on the nodes but if needed latest version of singularity can be loaded with #module load singularity The container with openfoam6-paraview54 can be located in: /sw/OpenFoam/Containers/openfoam6-paraview54_latest.sif We use singularity shell to start a container, and run a shell in the container. The -B option is used to “bind” the /scratch/$USER directory to a directory named /scratch in the container. We also the --pwd option to specify the working directory in the running container (in this case /scratch). This is always recommended. singularity shell -B /scratch/s123456:/scratch --pwd /scratch /sw/OpenFoam/Containers/openfoam6-paraview54_latest.sif Using it with PBS scheduler, we need to set up two bash scripts: the launch script that gets executed inside singularity and the PBS scheduler script that instructs the scheduler to start singularity. ====================================== Launcher Script: singularity_launch.01 ========================== source /opt/openfoam6/etc/bashrc cp -r $FOAM_TUTORIALS/incompressible/simpleFoam/pitzDaily . cd pitzDaily blockMesh simpleFoam #Make sure that it is executable with chmod +x singularity_launch.01 =================== pbs script: pbs.01 ================== #!/bin/bash -l #PBS -m abe #PBS -M YourEmail@griffith.edu.au #PBS -V #PBS -N TestOPENFOAM #PBS -q workq #PBS -l select=1:ncpus=1:ngpus=1:mem=32gb,walltime=30:00:00 cd $PBS_O_WORKDIR ##run singularity #singularity shell -B /scratch/s2594054s12345:/scratch --pwd /scratch /sw/OpenFoam/Containers/openfoam6-paraview54_latest.sif singularity shell -B /scratch/s2594054s12345:/scratch --pwd /scratch /sw/OpenFoam/Containers/openfoam6-paraview54_latest.sif singularity shell -B /scratch/s2594054s12345:/scratch --pwd /scratch/scratch/s2594054s12345:/scratch --pwd /scratch --nv /sw/OpenFoam/Containers/openfoam6-paraview54_latest.sif /scratch/s2594054s12345/singularity_launch.01 #singularity shell -B /share/data:/mnt --nv ubuntu.simg /mnt/[PATH TO ExoGAN]/singularity_launch_gan.sh cat /etc/os-release exit sleep 2 |
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