UKCA Chemistry and Aerosol Tutorials: Python notebooks

UKCA Chemistry and Aerosol Tutorials at UMvn13.0

During these Tutorials several Jupyter notebooks are provided using both cf-python and the Iris Python libraries. On pre-installed virtual machines these can be found in the

Tutorials/UMvn13.0/notebooks

Due to the SSH connection you will be making to these virtual machines, it is better to run jupyter remotely and then connect to it from the browser on your desktop machine.

You could also use equivalent python scripts held in the

Tutorials/UMvn13.0/scripts

directory using the pyterm command to open a terminal that is able to run the necessary Python libraries.

How to connect

On your VM, change directory using the cd command into the directory that you want to run the scripts from, e.g.

cd Tutorials/UMvn13.0/notebooks

On your VM run the command jnotebook to start a jupyter notebook server, or jlab to start a jupyter lab server.
On your desktop machine, run the command jopen to allow it to connect to the VM jupyter server.
On your desktop machine, connect to the following web address using the Firefox web browser:
- http://localhost:4801/?token=UKCATraining

Technical notes

The above instructions make use of some alias and shortcuts to work. The full details of this are:

On the virtual machine

The two alias are set in the ~/.bashrc file on the VM:

alias jlab="lxterminal -l -e 'export PATH=~/miniconda3/bin:$PATH && jupyter-lab --no-browser --port=4801'"
alias jnotebook="lxterminal -l -e 'export PATH=~/miniconda3/bin:$PATH && jupyter notebook --no-browser --port=4801'"

and the

/home/vagrant/.jupyter/jupyter_notebook_config.py

file has the following setting

c.NotebookApp.token = 'UKCATraining'

This means that when you run the command jnotebook or jlab you then launch a new terminal pointing to the python installation in the /home/vagrant/miniconda3/bin directory.

On the desktop

The command jopen is set as an alias in the ~/.bashrc to be

alias jopen='ssh -N -f -L localhost:4801:localhost:4801 ukca'

this is equivalent to

ssh -N -f -L localhost:4801:localhost:4801 -i ~/.ssh/[KEY NAME] ubuntu@[EC2 VM IP ADDRESS]

but in the ~/.ssh/config file there are the following settings

Host ukca
        Hostname [EC2 VM IP ADDRESS]
        User ubuntu
        IdentityFile ~/.ssh/[KEY NAME]
        HostKeyAlgorithms ssh-rsa

UKCA Chemistry and Aerosol Tutorials at UMvn13.0