The recommended way to install the tool is through the Conda package manager (I recommend the Miniconda distribution) from the Bioconda channel:
conda install -c bioconda gambit
Installing from source requires the cython package as well as a C compiler be installed on your
system. Clone the repository and navigate to the directory, and then run:
pip install .
Or do an editable development install with:
pip install -e .
You will need a GAMBIT reference database (consisting of one .gdb and one .gs file) to
perform taxonomic classification using the gambit query command. Download files for the latest
database release from the :ref:`Database Releases` page and place them in a directory of your
choice. The directory should not contain any other files with the same extensions.