Unable to import numpy package after Ubuntu upgrade

[UriBarkan]

Hi,

Description:
Last week I upgraded to Ubuntu 24.04. After the upgrade, when trying to import numpy (for example) in JupyterLab, I get the following message:
ModuleNotFoundError: No module named 'numpy'

When I run Python from terminal or when I try importing the same package on Jupyter notebook, even on the same browser, import is successful. Also, if I open terminal within jupyter-lab (from the launcher) import is also successful. So import fails only when importing from notebooks (tried from different ones).

Disabled all plugins. Also, tried to reinstall jupyter-lab (“pipx reinstall jupyterlab”), to no avail.

Reproduce:

1. Install Jupyterlab and numpy on Ubuntu 23.10 machine.
2. Upgrade to Ubuntu 24.04.
3. Launch Jupyterlab from terminal.
4. type "import numpy as np" in jupyterlab and run the cell.

Expected behavior:
numpy to load successfully.

Context:
OS: Linux Ubuntu 24.04.
Brwoser: Chromium Version 124.0.6367.60 (Official Build) snap (64-bit)
Also tested on Firefox 125.0.3 (64-bit) and got the same error
Jupyterlab 4.1.8
Jupyter-notebook 6.4.12 (the error is not reproducible in Jupyter-notebook, only in Jupyterlab)
Python 3.12.3

Troubleshoot output:
bash: /x/y/.local/bin/jupyter-troubleshoot: cannot execute: required file not found
For 'jupyter-lab --debug' please see attached text file:
jupyter lab debug.txt
For browser output see the screenshot:

Thanks!

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[JasonWeill]

@UriBarkan Thanks for opening this issue! I saw that you were unable to reproduce this using Python on the command line. If you run ipython on the command line, does import fail as well? If so, it's more likely an issue with your kernel than it is in JupyterLab.

[UriBarkan]

Hi @JasonWeill,

Thanks for your reply! I can import numpy also in ipython (e.g. in Spyder IDE w/ ipython console). Up to now I've encountered this problem only in Jupyterlab.

[JasonWeill]

If you run %pip install numpy from within your notebook, what output do you see? After you run this command, can you successfully import numpy?

[UriBarkan]

From within jupyterlab:

!pipx install numpy
⡿ installing numpy environment⚠️  Note: f2py was already on your PATH at /usr/bin/f2py
  installed package numpy 1.26.4, installed using Python 3.12.3
  These apps are now globally available
    - f2py
done! ✨ 🌟 ✨

import numpy as np
---------------------------------------------------------------------------
ModuleNotFoundError                       Traceback (most recent call last)
Cell In[4], line 1
----> 1 import numpy as np

ModuleNotFoundError: No module named 'numpy'

Then if I try to run again:

!pipx install numpy
'numpy' already seems to be installed. Not modifying existing installation in
'/home/uri/.local/pipx/venvs/numpy'. Pass '--force' to force installation.

But I get the same error when trying to import numpy.

[JasonWeill]

Thanks for your reply! After installing the module, can you try restarting the kernel? After that kernel is restarted, does the import numpy as np line work as intended?

[UriBarkan]

Unfortunately no, nympy cannot be imported also after kernel restart.

[UriBarkan]

I was able to overcome the issue by redefining the virtual environment. I guess in the upgrade process of Ubuntu something broke.

A fix for future users:

1. Define a new virtual environment: python3 -m venv /my/venv/directory
2. Activate: source /my/venv/directory/bin/activate
3. Install: pip install jupyterlab
4. Install other packages required: pip install numpy/scipy/etc.

I took the liberty of closing this issue.