Running Jupyter Notebook
Within VDI, open a Linux terminal (Applications menu -> System Tools -> Terminal). Inside the Terminal, load the conda environment
module use /g/data/hh5/public/modules module load conda
You should then be able to start the notebook with
You can also run a notebook from Gadi's compute nodes using the gadi_jupyter script.
- You need to download this script to your own computer and execute there. The script handles the connection.
- This job requires an implementation of bash. This is default on MacOS and Linux, but not Windows.
- This will cost SU depending on the queue and the resources requested (default: 1 cores, express queue)
- You also won't have access to the internet to, for example, download data.
You can download the script from the link above directly, or by running
git clone https://github.com/coecms/nci_scripts.git
which will download the script into a directory called nci_scripts.
There are several options that you can use when running the script:
General Options: -h: Print help -l: NCI username -L: NCI login node (default 'gadi.nci.org.au') -e: Conda environment Queue Options: -q QUEUE: Queue name -n NCPU: Use NCPU cpus -m MEM: Memory allocation (default 4*NCPU GB) -t TIME: Walltime limit (default 1 hour) -J JOBFS: Jobfs allocation (default 100 GB) -P PROJ: Submit job under project PROJ