[mvdoc]

Fixes #59.

Problem

The Colab setup cell installed git-annex-standalone from the NeuroDebian apt repository. That no longer works:

• NeuroDebian's archive signing key is dsa1024, which current apt rejects as untrusted.
• The sources list was pinned to jammy, but Colab now runs Ubuntu noble.

As a result, git-annex-standalone had no install candidate and the data downloads failed.

Fix

Stop using NeuroDebian entirely and install git-annex from PyPI (pip install git-annex). The wheel ships a standalone static git-annex build, so it does not depend on the Ubuntu release, apt keys, or third-party repositories, which should keep this working through future Colab image updates. Inkscape is still installed via apt-get from the stock Ubuntu repositories.

New setup cell:

!git config --global user.email "you@example.com" && git config --global user.name "Your Name"
!apt-get -qq update > /dev/null
!apt-get install -qq inkscape > /dev/null
!pip install -q git-annex voxelwise_tutorials

Changes

• tutorials/notebooks/shortclips/01_setup_colab.ipynb: updated the install cell and the explanatory comment cell.
• vem_tutorials_merged_for_colab.ipynb and vem_tutorials_merged_for_colab_model_fitting.ipynb: same edit, kept in sync with the source notebook.
• README.rst: noted that pip install git-annex is an option on Linux.

Testing

• Installed the current git-annex wheel (10.20260901.post1, manylinux_2_34) in a clean venv on Ubuntu 24.04 (glibc 2.39, same as Colab); git annex version runs correctly.
• Not yet run end-to-end in a live Colab runtime.

CI workflows and Docker images get git-annex from Ubuntu/conda-forge, not NeuroDebian, so they are unaffected.

🤖 Generated with Claude Code

https://claude.ai/code/session_01JSD3PGSWRD4oZi4Z9zPe7W

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