Installation

First install miniforge following the instructions given here https://docs.conda.io/projects/conda/en/latest/user-guide/install/index.html

User installation

HydroRoot may by installed simply on a conda environments:

mamba create -n hydroroot -c conda-forge -c openalea3 openalea.hydroroot
mamba activate hydroroot

That creates a conda environment called hydroroot, install in it openalea.hydroroot with all the dependencies and activate the environment. Then just open an Ipython session and enjoy.

If you want notebook support, run for example:

mamba install jupyterlab

Developer installation

First fork the git repository (openalea/hydroroot) and clone it locally see https://docs.github.com/en/get-started/quickstart/fork-a-repo.

Just run the following command:

mamba create -f conda/environment.yml
mamba activate hydroroot
pip install -e .[options]

This will first create a conda environment called hydroroot_dev with the proper dependencies, then the environment will be activated, and finally openalea.hydroroot will be installed in development mode. As above to have notebook support run mamba install jupyterlab. [options] is optional, and allows to install additional dependencies defined in the [project.optional-dependencies] section of your pyproject.toml file (usually “dev”, or “doc”, …)