.. _install:

======================
 Download and install
======================

This page covers the necessary steps to install Nipype.

Download
--------

Release 0.5.2: [`zip <http://github.com/nipy/nipype/zipball/0.5.2>`_ `tar
<http://github.com/nipy/nipype/tarball/0.5.2>`_]

Development: [`zip <http://github.com/nipy/nipype/zipball/master>`_ `tar
<http://github.com/nipy/nipype/tarball/master>`_]

`Prior downloads <http://github.com/nipy/nipype/tags>`_

To check out the latest development version::

        git clone git://github.com/nipy/nipype.git

Install
-------

The installation process is similar to other Python packages.

If you already have a Python environment setup that has the dependencies listed
below, you can do::

	easy_install nipype

or::

	pip install nipype

Debian and Ubuntu
~~~~~~~~~~~~~~~~~

Add the `NeuroDebian <http://neuro.debian.org>`_ repository and install
the ``python-nipype`` package using ``apt-get`` or your favourite package
manager.

Mac OS X
~~~~~~~~

The easiest way to get nipype running on MacOSX is to install EPD_ and then add
nibabel and nipype by executing::

	easy_install nibabel
	easy_install nipype

If you are running a 64 bit version of EPD, you will need to compile
ETS. Instructions for a 64-bit boot mode are available:
https://gist.github.com/845545


From source
~~~~~~~~~~~

If you downloaded the source distribution named something
like ``nipype-x.y.tar.gz``, then unpack the tarball, change into the
``nipype-x.y`` directory and install nipype using::

    python setup.py install

**Note:** Depending on permissions you may need to use ``sudo``.

Testing the install
-------------------

The best way to test the install is to run the test suite.  If you have
nose_ installed, then do the following::

    python -c "import nipype; nipype.test()"

you can also test with nosetests::

    nosetests --with-doctest /software/nipy-repo/masternipype/nipype
    --exclude=external --exclude=testing

All tests should pass (unless you're missing a dependency). If SUBJECTS_DIR
variable is not set some FreeSurfer related tests will fail. If any tests
fail, please report them on our `bug tracker
<http://github.com/nipy/nipype/issues>`_.

On Debian systems, set the following environment variable before running
tests::

       export MATLABCMD=$pathtomatlabdir/bin/$platform/MATLAB

where, $pathtomatlabdir is the path to your matlab installation and
$platform is the directory referring to x86 or x64 installations
(typically glnxa64 on 64-bit installations).

Avoiding any MATLAB calls from testing
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

On unix systems, set an empty environment variable::

    export NIPYPE_NO_MATLAB=

This will skip any tests that require matlab.

Dependencies
------------

Below is a list of required dependencies, along with additional software
recommendations.

Must Have
~~~~~~~~~

Python_ 2.6 -2.7

Nibabel_ 1.0
  Neuroimaging file i/o library

NetworkX_ 1.0 - 1.4
  Python package for working with complex networks.

NumPy_ 1.3 - 1.6

SciPy_ 0.7 - 0.10
  Numpy and Scipy are high-level, optimized scientific computing libraries.

Enthought_ Traits_ 4.0.0

.. note::

    Full distributions such as pythonxy_ or EPD_ provide the above packages,
    except Nibabel_.

Strong Recommendations
~~~~~~~~~~~~~~~~~~~~~~

IPython_ 0.10.2 - 0.12
  Interactive python environment. This is necessary for some parallel
  components of the pipeline engine.

Matplotlib_ 1.0
  Plotting library

Sphinx_
  Required for building the documentation

`Graphviz <http://www.graphviz.org/>`_
  Required for building the documentation

Interface Dependencies
~~~~~~~~~~~~~~~~~~~~~~

These are the software packages that nipype.interfaces wraps:

FSL_
  4.1.0 or later

matlab_ 
  2008a or later

SPM_
  SPM5/8

FreeSurfer_
  FreeSurfer version 4 and higher
  
AFNI_
  2009_12_31_1431 or later

Slicer_
  3.6 or later

Nipy_ 
  0.1.2+20110404 or later

Nitime_ 
  (optional)
  
Camino_
  
Camino2Trackvis_

ConnectomeViewer_

.. include:: ../links_names.txt
