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Jupyter on Pelle

Jupyter on old cluster Rackham

There are multiple IDEs on the UPPMAX clusters, among other Jupyter. Here we describe how to run Jupyter on Pelle.

Jupyter is an IDE specialised for the Python programming language.

Procedure

Prefer a video?

This procedure is also demonstrated for Rackham (FIX in this YouTube video

1. Start a Pelle remote desktop environment

This can be either:

2. Start an interactive session

Within the Pelle remote desktop environment, start a terminal. Within that terminal, start an interactive session:

interactive -A [project_number] -t 8:00:00

Where [project_number] is your UPPMAX project, for example:

interactive -A uppmax2025-2-393 -t 8:00:00
What is my UPPMAX project number?

See the UPPMAX documentation on how to see your UPPMAX projects

3a. Use software modules to provide Python, Jupyter and python packages needed

  • Step 1. Decide what is needed in terms of

    • Python version
    • Python packages (and versions)

  • Step 2: Check our Python Bundles page and choose compatible modules.

    • Check if your needed python packages are compatible with a JupyterLab module.
    • If not you may need to go to 3b instead to create a isolated environment in Conda.

Example with latest available versions on Pelle

  • Within the terminal of the interactive session, load the JupyterLab module compatible with the foss2025b toolchain (GCCcore-14.3.0).
  • You get Python/3.13.5 on the fly.
  • Also load SciPy-bundle to get numpy and pandas
  • and matplotlib that is its own module.
  • (You can add any other compatible python package module as well)
ml JupyterLab/4.4.9-GCCcore-14.3.0
SciPy-bundle/2025.07-gfbf-2025b
matplotlib/3.10.5-gfbf-2025b
Forgot what the module system is?

See the UPPMAX pages on the module system.

3b Create a conda environment

Coming soon!

4. Start the Jupyter notebook

Still within the terminal of the interactive session, start a Jupyter Lab like this:

jupyter-lab --ip 0.0.0.0 --no-browser

This will start a jupyter server session so leave this terminal open. The terminal will also display multiple URLs.

Copy the URL containing pXXX.

5. Browser to the Jupyter notebook

In the remote desktop environment on Pelle, start Firefox. Set Firefox to the URL addresses from the Jupyter output, which will be similar to http://p115.uppmax.uu.se:8888/lab?token=73178b5ec897ae9bed6ae4b1815137d83dff671562574989

Can I start Firefox from the terminal too?

Yes, in another terminal, one can use:

firefox [URL]

where [URL] is a URL produced by Jupyter, for example:

firefox http://p115.uppmax.uu.se:8888/lab?token=73178b5ec897ae9bed6ae4b1815137d83dff671562574989