Commit ab0b0aa3 by Frédéric Boyer

[ADD] Installing the OBITools

parent d21397da
......@@ -19,6 +19,49 @@ Ecology Resources*, submitted.
:latex:`\vspace{\fill}`
Installing the ``OBITools``
---------------------------
Prerequisites
.............
To install and test the ``OBITools``, you need several softwares to be installed on your
system:
* Python 2.7 (installed by default on most ``Unix`` systems, available from
`the Python website <http://www.python.org/>`_)
* Cython (available from the `Cython website <http://http://cython.org/>`_)
* ``gcc`` and ``gmake`` (installed by default on most ``Unix`` systems, available from the
GNU sites dedicated to `GCC <https://www.gnu.org/software/gcc/>`_ and
`GMake <https://www.gnu.org/software/make/>`_)
* any subversion client (a list of clients is avalaible from
`Wikipedia <http://en.wikipedia.org/wiki/Comparison_of_Subversion_clients>`_)
Retrieving the sources of the OBITools
......................................
.. code-block:: bash
> svn co http://www.grenoble.prabi.fr/public-svn/OBISofts/OBITools/trunk OBITools
This command will create a new directory called ``OBITools``.
Compiling and installing the Obitools
.....................................
From the directory where you retrieved the sources, execute the following commands:
.. code-block:: bash
> cd OBITools
> python setup.py build
> python setup.py install
Once installed, you can test your installation by running the commands of the
:doc:`tutorials <./tutorials>`.
Introduction
------------
......@@ -144,6 +187,7 @@ F, Chave J, Thuiller W, Wincker P, Cruaud C, Gavory F, Rasmussen M, Gilbert MTP,
Orlando L, Brochmann C, Willerslev E, Taberlet P (2012) DNA from soil mirrors
plant taxonomic and growth form diversity. Molecular Ecology, 21, 3647-3655.
Basic concepts of the ``OBITools``
----------------------------------
......
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