old_contents: from distutils.core import setup
  
  # Keeping all Python code for package in src directory
  
  setup(name='quantitation',
        url='http://www.awblocker.com',
        version='0.1',
        description='Absolute quantitation for LC/MSMS proteomics via MCMC',
        author='Alexander W Blocker',
        author_email='ablocker@gmail.com',
        packages=['quantitation','quantitation.glm'],
        package_dir = {'': 'lib'},
        requires=['numpy(>=1.6)','scipy(>=0.9)']
        )
  
new_contents: from distutils.core import setup
  
  # Keeping all Python code for package in lib directory
  NAME = 'quantitation'
  VERSION = '0.1'
  AUTHOR = 'Alexander W Blocker'
  AUTHOR_EMAIL = 'ablocker@gmail.com'
  URL = 'http://www.awblocker.com'
  DESCRIPTION = 'Absolute quantitation for LC/MSMS proteomics via MCMC'
  
  REQUIRES = ['numpy(>=1.6)','scipy(>=0.9)', 'yaml', 'mpi4py']
  
  PACKAGE_DIR = {'': 'lib'}
  PACKAGES = ['quantitation','quantitation.glm']
  SCRIPTS = ('mcmc_serial', 'mcmc_parallel', 'combine_results', 'summarize')
  SCRIPTS = ['scripts/quantitation_' + script for script in SCRIPTS]
  
  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 scripts to setup.py. Clean-up setup.py organization.