HPC

These instructions have been written for the Gadi supercomputer of the National Computational Infrastructure (NCI). The process for other HPC platforms may differ.

Login to Gadi and clone the PyRate repository:

ssh <user_name>@gadi.nci.org.au
cd ~
git clone https://github.com/GeoscienceAustralia/PyRate.git

Load the required Gadi modules (this will also remove the default NCI GDAL Python bindings so we can build and use our own):

source ~/PyRate/scripts/nci_load_modules.sh

Create a Python virtual environment:

python3 -m venv ~/PyRateVenv
source ~/PyRateVenv/bin/activate

Install PyRate:

cd ~/PyRate
python3 setup.py install

Following this, PyRate will be available for PBS jobs. To verify the installation, first run an interactive session:

qsub -I -q express -l walltime=01:00:00,mem=16Gb,ncpus=4,wd

Once the session has started, you will need to reactivate your virtual environment and reload the required modules. There is a call to activate the virtual environment built into the script below so this can be completed with a single command:

source ~/PyRate/scripts/nci_load_modules.sh