Jupyter on "externally-managed-environment"

[agerlach]

Description

Is there a recommended way to install Jupyter and Jupyter Cache on an OS that implements PEP 668 (externally-managed-environment) for usage with Quarto?

I am using a Debian 12 docker container for building quarto documents, however the OS now prevents you from doing a global pip install. It seems that the preferred method to install is using pipx

pipx ensurepath 
pipx install jupyter --include-deps 
pipx inject jupyter jupyter-cache

Running which jupyter returns /root/.local/bin/jupyter. However quarto check jupyter returns

[✓] Checking Python 3 installation....OK
      Version: 3.11.2
      Path: /usr/bin/python3
      Jupyter: (None)

      Jupyter is not available in this Python installation.
      Install with python3 -m pip install jupyter

So, despite being on the PATH it is not being picked up. I realize that I could use venv, but I don't actually use Python for my documents, so I don't want to have to carry a .venv for each project. Thanks.

• Quarto version: 1.4.322
• OS: Debian 12 (Bookworm)

[mcanouil]

If you are not using Jupyter, are you using knitr?
You can enforce an engine with engine: knitr, see https://quarto.org/docs/computations/execution-options.html#engine-binding.

[agerlach]

I am using Jupyter but for Julia.

[agerlach]

Being that this is a docker container, I guess I don't really need to worry about messing with the global python setup. So, I am just going to set ENV PIP_BREAK_SYSTEM_PACKAGES=1 (details)