.. -*- rst -*-
.. vim: ft=rst

.. This rst format file contains commonly used link targets
   and name substitutions.  It may be included in many files,
   therefore it should only contain link targets and name
   substitutions.  Try grepping for "^\.\. _" to find plausible
   candidates for this list.

.. NOTE: reST targets are
   __not_case_sensitive__, so only one target definition is needed for
   nipy, NIPY, Nipy, etc...

.. Nipy
.. _nipy: http://nipy.org/nipy
.. _`NIPY developer resources`: http://nipy.sourceforge.net/devel
.. _`NIPY data packages`: http://nipy.sourceforge.net/data-packages
.. _`nipy github`: http://github.com/nipy/nipy
.. _`nipy trunk`: http://github.com/nipy/nipy
.. _`nipy mailing list`: https://mail.python.org/mailman/listinfo/neuroimaging
.. _nipy pypi: http://pypi.python.org/pypi/nipy
.. _nipy issues: http://github.com/nipy/nipy/issues
.. _`nipy bugs`: http://github.com/nipy/nipy/issues
.. _`nipy sourceforge`: http://nipy.sourceforge.net/
.. _`nipy launchpad`: https://launchpad.net/nipy
.. _nipy on travis: https://travis-ci.org/nipy/nipy

.. Related projects
.. _nipy community: http://nipy.org
.. _dipy: http://nipy.org/dipy
.. _`dipy github`: http://github.com/Garyfallidis/dipy
.. _nibabel: http://nipy.org/nibabel
.. _`nibabel github`: http://github.com/nipy/nibabel
.. _nipy development guidelines: http://nipy.org/devel
.. _nipy buildbot: http://nipy.bic.berkeley.edu

.. Documentation tools
.. _graphviz: http://www.graphviz.org/
.. _Sphinx: http://sphinx.pocoo.org/
.. _`Sphinx reST`: http://sphinx.pocoo.org/rest.html
.. _reST: http://docutils.sourceforge.net/rst.html
.. _docutils: http://docutils.sourceforge.net

.. Licenses
.. _GPL: http://www.gnu.org/licenses/gpl.html
.. _BSD: http://www.opensource.org/licenses/bsd-license.php
.. _LGPL: http://www.gnu.org/copyleft/lesser.html
.. _MIT License: http://www.opensource.org/licenses/mit-license.php

.. Operating systems and distributions
.. _Debian: http://www.debian.org
.. _NeuroDebian: http://neuro.debian.net
.. _Ubuntu: http://www.ubuntu.com
.. _MacPorts: http://www.macports.org/

.. Working process
.. _pynifti: http://niftilib.sourceforge.net/pynifti/
.. _nifticlibs: http://nifti.nimh.nih.gov
.. _nifti: http://nifti.nimh.nih.gov
.. _sourceforge: http://nipy.sourceforge.net/
.. _github: http://github.com
.. _launchpad: https://launchpad.net/

.. Python packaging
.. _distutils: http://docs.python.org/2/library/distutils.html
.. _setuptools: http://pypi.python.org/pypi/setuptools
.. _distribute: http://pypi.python.org/pypi/distribute
.. _pip: http://pypi.python.org/pypi/pip
.. _old and new python versions: https://launchpad.net/%7Efkrull/+archive/deadsnakes
.. _pypi: http://pypi.python.org
.. _example pypi: http://packages.python.org/an_example_pypi_project/setuptools.html#intermezzo-pypirc-file-and-gpg
.. _github bdist_mpkg: https://github.com/matthew-brett/bdist_mpkg
.. _wheel: https://pypi.python.org/pypi/wheel
.. _install pip with get-pip.py: https://pip.pypa.io/en/stable/installing/#installing-with-get-pip-py

.. Code support stuff
.. _pychecker: http://pychecker.sourceforge.net/
.. _pylint: http://www.logilab.org/project/pylint
.. _pyflakes: http://divmod.org/trac/wiki/DivmodPyflakes
.. _virtualenv: http://pypi.python.org/pypi/virtualenv
.. _git: https://git-scm.com
.. _flymake: http://flymake.sourceforge.net/
.. _rope: http://rope.sourceforge.net/
.. _pymacs: http://pymacs.progiciels-bpi.ca/pymacs.html
.. _ropemacs: http://rope.sourceforge.net/ropemacs.html
.. _ECB: http://ecb.sourceforge.net/
.. _emacs_python_mode: http://www.emacswiki.org/cgi-bin/wiki/PythonMode
.. _doctest-mode: http://www.cis.upenn.edu/~edloper/projects/doctestmode/
.. _bazaar: http://bazaar-vcs.org/
.. _subversion: http://subversion.tigris.org/
.. _nose: http://nose.readthedocs.org/en/latest
.. _`python coverage tester`: http://nedbatchelder.com/code/modules/coverage.html

.. Other python projects
.. _numpy: http://numpy.scipy.org
.. _scipy: http://www.scipy.org
.. _cython: http://www.cython.org/
.. _ipython: http://ipython.org
.. _`ipython manual`: http://ipython.org/ipython-doc/stable/index.html
.. _matplotlib: http://matplotlib.sourceforge.net
.. _ETS: http://code.enthought.com/projects/tool-suite.php
.. _`Enthought Tool Suite`: http://code.enthought.com/projects/tool-suite.php
.. _python: http://www.python.org
.. _mayavi: http://code.enthought.com/projects/mayavi/
.. _sympy: http://sympy.org
.. _nibabel: http://nipy.org/nibabel
.. _networkx: http://networkx.lanl.gov/
.. _pythonxy:
.. _python (x, y): https://python-xy.github.io/
.. _EPD: http://www.enthought.com/products/epd.php
.. _EPD free: http://www.enthought.com/products/epd_free.php
.. _Anaconda: https://www.continuum.io/downloads
.. _Unofficial Windows binaries: http://www.lfd.uci.edu/~gohlke/pythonlibs

.. Python imaging projects
.. _PyMVPA: http://www.pymvpa.org
.. _BrainVISA: http://brainvisa.info
.. _anatomist: http://brainvisa.info

.. Not so python imaging projects
.. _matlab: http://www.mathworks.com
.. _spm: http://www.fil.ion.ucl.ac.uk/spm
.. _eeglab: http://sccn.ucsd.edu/eeglab
.. _AFNI: http://afni.nimh.nih.gov/afni
.. _FSL: http://www.fmrib.ox.ac.uk/fsl
.. _FreeSurfer: http://surfer.nmr.mgh.harvard.edu
.. _voxbo: http://www.voxbo.org
.. _fmristat: http://www.math.mcgill.ca/keith/fmristat

.. Visualization
.. _vtk: http://www.vtk.org/

.. General software
.. _gcc: http://gcc.gnu.org
.. _xcode: http://developer.apple.com/TOOLS/xcode
.. _mingw: http://www.mingw.org
.. _cygwin: http://cygwin.com
.. _macports: http://www.macports.org/
.. _VTK: http://www.vtk.org/
.. _ITK: http://www.itk.org/
.. _swig: http://www.swig.org

.. Functional imaging labs
.. _`Brain Imaging Center`: http://bic.berkeley.edu/
.. _`functional imaging laboratory`: http://www.fil.ion.ucl.ac.uk
.. _FMRIB: http://www.fmrib.ox.ac.uk

.. Other organizations
.. _enthought: <http://www.enthought.com>
.. _kitware: http://www.kitware.com

.. General information links
.. _`wikipedia FMRI`: http://en.wikipedia.org/wiki/Functional_magnetic_resonance_imaging
.. _`wikipedia PET`: http://en.wikipedia.org/wiki/Positron_emission_tomography
.. _ANALYZE: http://www.grahamwideman.com/gw/brain/analyze/formatdoc.htm
.. _NIfTI1: http://nifti.nimh.nih.gov/nifti-1/
.. _MINC: http://wiki.bic.mni.mcgill.ca/index.php/MINC

.. Mathematical methods
.. _`wikipedia ICA`: http://en.wikipedia.org/wiki/Independent_component_analysis
.. _`wikipedia PCA`: http://en.wikipedia.org/wiki/Principal_component_analysis

.. Testing
.. _travis-ci: https://travis-ci.org

.. People
.. _Matthew Brett: https://matthew.dynevor.org
.. _Yaroslav O. Halchenko: http://www.onerussian.com
.. _Michael Hanke: http://apsy.gse.uni-magdeburg.de/hanke
.. _Gaël Varoquaux: http://gael-varoquaux.info/
.. _Keith Worsley: http://www.math.mcgill.ca/keith

