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COMSOL

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comsol --help

Will display a list of COMSOL batch commands.

Useful Links

Batch Submission

When using COMSOL batch the following flags can be used to control distribution. 

-mpibootstrap slurm  Instructs COMSOL to get it's settings from SLURM
-np <cpus> Number of CPUs to use in each task. Equivalent to slurm input --cpus-per-task or environment variable ${SLURM_CPUS_PER_TASK}
-nn <tasks> Number of tasks total. --ntasks or ${SLURM_NTASKS}
-nnhost <tasks> Number of tasks per node. --ntasks-per-node ${SLURM_NTASKS_PER_NODE}
-f <path to hostlist> Host file. You wont't need to set this in most circumstances.

 

Example Scripts

Serial Example

Single process with a single thread

Usually submitted as part of an array, as in the case of parameter sweeps.

 
#!/bin/bash -e

#SBATCH --job-name      COMSOL-serial
#SBATCH --licenses      comsol@uoa_foe 
#SBATCH --time          00:05:00          # Walltime
#SBATCH --mem           1512               # total mem

module load COMSOL/5.5

comsol batch -inputfile my_input.mph

Shared Memory Example

 

 
#!/bin/bash -e

#SBATCH --job-name      COMSOL-shared
#SBATCH --licenses      comsol@uoa_foe 
#SBATCH --time          00:05:00        # Walltime
#SBATCH --cpus-per-task 8
#SBATCH --mem           4G              # total mem

module load COMSOL/5.5

comsol batch -mpibootstrap slurm -inputfile my_input.mph

Distributed Memory Example

 

 
#!/bin/bash -e

#SBATCH --job-name      COMSOL-distributed 
#SBATCH --licenses      comsol@uoa_foe 
#SBATCH --time          00:05:00            # Walltime
#SBATCH --ntasks        8           
#SBATCH --mem-per-cpu   1500                # mem per cpu

module load COMSOL/5.5

comsolbatch -mpibootstrap slurm -inputfile my_input.mph

Hybrid Example

 

 
#!/bin/bash -e

#SBATCH --job-name         COMSOL-hybrid 
#SBATCH --licenses         comsol@uoa_foe
#SBATCH --time             00:05:00          # Walltime
#SBATCH --ntasks           4                 # total mem
#SBATCH --cpus-per-task    16
#SBATCH --mem-per-cpu      1500B             # total mem

module load COMSOL/5.5

comsol batch -mpibootstrap slurm -inputfile my_input.mph

Important

If no output file is set, using --output the input file will be updated instead.

Interactive Use

Providing you have set up X11, you can open the COMSOL GUI by running the command comsol.

Large jobs should not be run on the login node.

Recommendations

COMSOL is relatively smart with it's use of resources, if possible it is preferable to use --cpus-per-task over --ntasks

Labels: engineering COMSOL
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