Difference between revisions of "MPI calculations with Cerberus"
From Kraken Wiki
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== Running calculations == | == Running calculations == | ||
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| + | The MPI libraries used to build both the solver modules and the mpi4py package for Cerberus need to be loaded. | ||
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| + | Cerberus can be run with | ||
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| + | <nowiki>#!/bin/bash | ||
| + | #SBATCH --cpus-per-task=20 | ||
| + | #SBATCH --ntasks=4 | ||
| + | #SBATCH --partition=core40 | ||
| + | #SBATCH -o output.txt | ||
| + | |||
| + | module load mpi/openmpi-x86_64 | ||
| + | |||
| + | mpirun --report-bindings -np 4 --bind-to none --map-by ppr:2:node:pe=20 -oversubscribe python input.py > ulos.txt</nowiki> | ||
Revision as of 09:21, 2 June 2022
Cerberus can be used to run certain solvers MPI parallelized across multiple computing nodes.
Required installation
Cerberus uses the mpi4py Python-package for MPI functionality. It can be installed with pip.
Notice, however that mpi4py will get compiled with whichever MPI-libraries you have available during the pip installation, which means that it is best to run the pip installation in an environment, where the correct MPI-libraries have been loaded.
Running calculations
The MPI libraries used to build both the solver modules and the mpi4py package for Cerberus need to be loaded.
Cerberus can be run with
#!/bin/bash #SBATCH --cpus-per-task=20 #SBATCH --ntasks=4 #SBATCH --partition=core40 #SBATCH -o output.txt module load mpi/openmpi-x86_64 mpirun --report-bindings -np 4 --bind-to none --map-by ppr:2:node:pe=20 -oversubscribe python input.py > ulos.txt
