Installation

Python Version and Environment

The currently supported python versions are 3.7, 3.8, and 3.9.

If you are part of the Blue Brain Project and are working on the BB5 you can find the correct python version in the archive modules: - python3.7: archive/2020-02 - archive/2020-12 - python3.8: archive/2021-01 - archive/2021-12 - python3.9: archive/2022-01 - unstable. Here’s an example of a set of commands that will set up your environment on the BB5:

module purge
module load archive/2020-12
module load python
python -m venv venv
. ./venv/bin/activate
python --version

We also recommend that you make sure that pip is up-to-date and that the packages wheel and setuptools are installed:

pip install --upgrade pip wheel setuptools

Install “Atlas Annotation”

In order to access the data and the example scripts a local clone of this repository is required. Run these commands to get it:

git clone https://github.com/BlueBrain/atlas-annotation
cd atlas-annotation

The “Atlas Interpolation” package can now be installed directly from the clone we just created:

pip install '.[data, interactive]'