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=======================
Installation of COBRApy
=======================
For installation help, please use the `Google Group
<http://groups.google.com/group/cobra-pie>`_. For usage instructions, please see
the `documentation <https://cobrapy.readthedocs.org/en/latest/>`_.
We only test against Python 3.7+, however, Python 3.4 or higher work mostly.
For Windows users and possibly also Mac OS users, we recommend using the
`Anaconda Python <https://www.anaconda.com/>`_ distribution.
Stable version installation
===========================
COBRApy can be installed with any recent installation of pip. Instructions for
several operating systems are below:
Mac OS X or Linux
-----------------
1. We highly recommend that you create a `Python virtual environment
<https://realpython.com/python-virtual-environments-a-primer>`_.
2. Install COBRApy when an environment is active by running ``pip install
cobra`` in the terminal.
Microsoft Windows
-----------------
If you heed our recommendation to use Anaconda, you can open an Anaconda shell
and install COBRApy from the ``conda-forge`` channel.
.. code-block:: console
conda install -c conda-forge cobra
Installation for development
============================
Get the `detailed contribution instructions <.github/CONTRIBUTING.rst>`_ for
contributing to COBRApy.
Solvers
=======
COBRApy uses `optlang <http://optlang.readthedocs.io>`_ to interface the
mathematical solvers used to optimize the created COBRA models. At the time of
writing the supported solvers are:
- ILOG/CPLEX (available with `Academic
<https://www.ibm.com/developerworks/university/academicinitiative/>`_ and
`Commercial
<http://www.ibm.com/software/integration/optimization/cplex-optimizer/>`_
licenses)
- `Gurobi <http://gurobi.com>`_
- `GLPK <http://www.gnu.org/software/glpk/>`_ which is automatically installed
as swiglpk
|
