.. _installationbioconda:

Installation with bioconda
==========================

This page describes how to install MARTi with ``mamba``, a CLI tool to manage conda environments.

Install Mamba
-------------

The recommended method for installing mamba is to install miniforge.

On macOS, you can install miniforge with Homebrew by running::

  brew install miniforge

For other methods, see `here <https://github.com/conda-forge/miniforge>`__.

Channel configuration
---------------------

Once you've installed miniforge, you need to run the following commands to configure the conda channels::

  conda config --add channels defaults
  conda config --add channels bioconda
  conda config --add channels conda-forge
  conda config --set channel_priority strict

Install MARTi
-------------

Create a new environment called marti and install MARTi::

  mamba create -n marti marti

Activate the marti environment::

  mamba activate marti

You should now be able to use the ``marti`` and ``marti_gui`` commands!