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This article describes how to execute a Python script on the LANTA HPC system using Apptainer. The following table of contents provides a summary of the article's material so that the reader can quickly identify the most important sections.

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Example of a Slurm script for launching the Python script

Running on Compute node

Code Block
#!/bin/bash
#SBATCH -p compute                       # Specify partition [Compute/Memory/GPU]
#SBATCH -N 1 -c 128   			         # Specify number of nodes and processors per task
#SBATCH --ntasks-per-node=1		         # Specify tasks per node
#SBATCH -t 120:00:00                     # Specify maximum time limit (hour: minute: second)
#SBATCH -A ltxxxxxx                      # Specify project name
#SBATCH -J JOBNAME                       # Specify job name

module load Apptainer/1.1.6              # Load the Apptainer module

apptainer exec -B $PWD:$PWD file.sif python3 file.py      # Run your program
Info

Full node: -c 128, Half node: -c 64, ΒΌ node: -c 32

Running on GPU node

Code Block
#!/bin/bash
#SBATCH -p gpu                           # Specify partition [Compute/Memory/GPU]
#SBATCH -N 1 -c 16   			         # Specify number of nodes and processors per task
#SBATCH --gpus-per-task=1		         # Specify number of GPU per task
#SBATCH --ntasks-per-node=4		         # Specify tasks per node
#SBATCH -t 120:00:00                     # Specify maximum time limit (hour: minute: second)
#SBATCH -A ltxxxxxx               	     # Specify project name
#SBATCH -J JOBNAME               	     # Specify job name

module load Apptainer/1.1.6              # Load the Apptainer module

apptainer exec --nv -B $PWD:$PWD file.sif python3 file.py       # Run your program
Info

1 GPU card: --ntasks-per-node=1, 2 GPU cards: --ntasks-per-node=2, 4 GPU cards: --ntasks-per-node=4

Submit a job

Use the sbatch script.sh command to submit your job to the Slurm system.

Code Block
username@lanta:~> sbatch script.sh

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cqllabel in ( "python-script" , "python-vir-env" , "jupyter-apptainer" ) and space = currentSpace ( )

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