Set-up

To load the default version of Python module, use module load python . To select a particular software version, use module load python/version. For example, use module load python/3.5 to load Python version 3.5. After the module is loaded, you can run the interpreter by using the command python. To unload the Python 3.5 module, use the command module unload python/3.5 or simply module unload python. 

Installed Modules

Environments

See the HOWTO section for more information on how to create and use python environements.

When you log into pitzer.osc.edu you are actually logged into a linux box referred to as the login node. To gain access to the mutiple processors in the computing environment, you must submit your job to the batch system for execution. Batch jobs can request mutiple nodes/cores and compute time up to the limits of the OSC systems. Refer to Queues and Reservations (Pitzer) and Batch Limit Rules (Pitzer) for more info. 

Here is an example batch job script

#!/bin/bash
#SBATCH --account <your_project_id>
#SBATCH --job-name Python_ExampleJob
#SBATCH --nodes=1 
#SBATCH --time=00:01:00

module load python/3.9-2022.05

cp example.py $TMPDIR
cd $TMPDIR

python example.py

cp -p * $SLURM_SUBMIT_DIR
    

Utilizing Python Environments Within Batch Job:

#!/bin/bash
#SBATCH --account <your_project_id>
#SBATCH --job-name Python_ExampleJob
#SBATCH --nodes=1
#SBATCH --time=00:01:00

# run to following to ensure local environment does not effect the batch job in unexpected ways

source deactivate # deactivate copy of local python environment if job submitted from within environment
module reset      # reset any loaded modules

module load python/3.9-2022.05 # load python
export PYTHONNOUSERSITE=True  #to avoid local python packages

source activate MY_ENV  # activate conda environment 


# Rest of script below

cp example.py $TMPDIR

cd $TMPDIR

python example.py

cp -p * $SLURM_SUBMIT_DIR