old_contents: from distutils.core import setup
  
  # Keeping all Python code for package in lib directory
  NAME = 'cplate'
  VERSION = '0.1'
  AUTHOR = 'Alexander W Blocker'
  AUTHOR_EMAIL = 'ablocker@gmail.com'
  URL = 'http://www.awblocker.com'
  DESCRIPTION = 'Probablistic deconvolution for chromatin-structure estimation.'
  
  REQUIRES = ['numpy(>=1.6)','scipy(>=0.9)', 'yaml', 'mpi4py']
  
  PACKAGE_DIR = {'': 'lib'}
  PACKAGES = ['cplate']
  SCRIPTS = ['scripts/cplate_deconvolve_em']
  
  setup(name=NAME,
        url=URL,
        version=VERSION,
        description=DESCRIPTION,
        author=AUTHOR,
        author_email=AUTHOR_EMAIL,
        packages=PACKAGES,
        package_dir=PACKAGE_DIR,
        scripts=SCRIPTS,
        requires=REQUIRES
        )
  
new_contents: from distutils.core import setup
  
  # Keeping all Python code for package in lib directory
  NAME = 'cplate'
  VERSION = '0.1'
  AUTHOR = 'Alexander W Blocker'
  AUTHOR_EMAIL = 'ablocker@gmail.com'
  URL = 'http://www.awblocker.com'
  DESCRIPTION = 'Probablistic deconvolution for chromatin-structure estimation.'
  
  REQUIRES = ['numpy(>=1.6)','scipy(>=0.9)', 'yaml', 'mpi4py']
  
  PACKAGE_DIR = {'': 'lib'}
  PACKAGES = ['cplate']
  SCRIPTS = ['scripts/cplate_deconvolve_em', 'scripts/cplate_detect_em']
  
  setup(name=NAME,
        url=URL,
        version=VERSION,
        description=DESCRIPTION,
        author=AUTHOR,
        author_email=AUTHOR_EMAIL,
        packages=PACKAGES,
        package_dir=PACKAGE_DIR,
        scripts=SCRIPTS,
        requires=REQUIRES
        )
  
subject: Add detection script to setup.py.