setup.py

# vim: fdm=indent
'''
author:     Richard Neher, Fabio Zanini
date:       23/08/12
license:    GPL3
content:    Distutils setup script for the Python bindings of FFPopSim.

            If your compiler has problems finding GSL and/or BOOST and you are
            sure they are installed on your system, check the section
            PLATFORM-DEPENDENT OPTIONS below.

            *Note*: this file is called by the Makefile with the command

                python setup.py build_ext
            
            to build the C++/Python extension. It can, however, also be called
            directly including with other commands such as

                python setup.py install

            to install the Python bindings of FFPopSim on the system. Note that
            calling this file directly does not clean the 'build' folder.
'''
from distutils.core import setup, Extension
from numpy import distutils as npdis

############################################################################
#									   #
#			PLATFORM-DEPENDENT OPTIONS			   #
#									   #
############################################################################
# Please add your include folders to the following list, where the compiler
# can find GSL, BOOST, and Python 2.7 headers.
includes = ['/usr/include', '/usr/local/include', '/opt/local/include']

# Please add your shared library folders to the following list, where the linker
# can find GSL and Python 2.X
library_dirs = []

############################################################################
#                !!  DO NOT EDIT BELOW THIS LINE  !!                       #
############################################################################
VERSION = '2.0'
SRCDIR = 'src'
PYBDIR = SRCDIR+'/python'

includes = includes + npdis.misc_util.get_numpy_include_dirs()
libs = ['gsl', 'gslcblas']

# Auxiliary functions
def read(fname):
    import os
    return open(os.path.join(os.path.dirname(__file__), fname)).read()


# Setup
setup(name='FFPopSim',
      author='Fabio Zanini, Richard Neher',
      author_email='fabio.zanini@tuebingen.mpg.de, richard.neher@tuebingen.mpg.de',
      description='C++/Python library for population genetics.',
      long_description=read('README.md'),
      license='GPL3',
      url='http://webdav.tuebingen.mpg.de/ffpopsim/',

      version=VERSION,
      package_dir={'': PYBDIR},

      # This is the pure Python file
      py_modules=['FFPopSim'],

      # This is the C++ extension
      ext_modules=[Extension('_FFPopSim',
                             sources=[PYBDIR+'/FFPopSim_wrap.cpp',
                                      SRCDIR+'/haploid_highd.cpp', 
                                      SRCDIR+'/haploid_lowd.cpp', 
                                      SRCDIR+'/hivpopulation.cpp',
                                      SRCDIR+'/hivgene.cpp',
                                      SRCDIR+'/rootedTree.cpp',
                                      SRCDIR+'/multiLocusGenealogy.cpp',
                                      SRCDIR+'/hypercube_lowd.cpp', 
                                      SRCDIR+'/hypercube_highd.cpp'],
                             include_dirs=includes, 
                             library_dirs=library_dirs,
                             libraries=libs,
                            ),
                  ]
      )