setup.py

# $File: setup.py $
# $LastChangedDate:  $
# $Rev:  $
# Copyright (c) 2014, Gao Wang <ewanggao@gmail.com>
# GNU General Public License (http://www.gnu.org/licenses/gpl.html)

NAME = "SEQLinkage"
import sys, os
from source import VERSION
if not sys.version_info[0] == 2:
    sys.exit("Python 3 is not supported for {}.".format(NAME))

try:
    __import__('cstatgen')
except ImportError:
    from source.Utils import downloadURL
    from distutils.dir_util import remove_tree
    import tempfile
    cstatgen_url = "http://bioinformatics.org/spower/download/.private/cstatgen.tar.gz"
    download_dir = tempfile.gettempdir()
    pkg = os.path.join(download_dir, "cstatgen.tar.gz")
    pkg_dir = os.path.join(download_dir, "cstatgen")
    sys.stderr.write("Downloading cstatgen library ...\n")
    downloadURL(cstatgen_url, download_dir, force = True)
    sys.stderr.write("Installing cstatgen library ...\n")
    try:
        remove_tree(pkg_dir)
        os.mkdir(pkg_dir)
    except:
        os.mkdir(pkg_dir)
    os.system("tar zxvf {} -C {} > /dev/null".format(pkg, pkg_dir))
    cwd = os.getcwd()
    os.chdir(pkg_dir)
    cmd = "python2.7 setup.py install {}".format(" ".join(sys.argv[2:]))
    os.system("{} > /dev/null".format(cmd))
    os.chdir(cwd)

from setuptools import setup
setup(name = NAME,
      version = VERSION,
      description = "A novel approach to use sequence data for linkage analysis",
      author = "Gao Wang",
      packages = [NAME],
      scripts = ['source/seqlink'],
      package_dir = {NAME:'source'},
      install_requires = ['prettyplotlib', 'tornado', 'brewer2mpl',
                          'faulthandler', 'matplotlib', 'scipy', 'numpy']
)