old_contents: #import ez_setup
  #ez_setup.use_setuptools()
  
  from setuptools import setup, find_packages
  
  setup(
        name='MetaSV',
        version='0.1-alpha',
        description='MetaSV: An accurate and integrative structural-variant caller for next generation sequencing',
        author='Bina Technologies',
        author_email='rd@bina.com',
        url='https://github.com/bioinform/metasv',
        packages = find_packages(),
        install_requires = ["cython", "pysam==0.7.7", "pybedtools", "pyvcf"],
        package_data = {"metasv": ["resources/*"]},
        scripts=[]
        )
  
new_contents: #import ez_setup
  #ez_setup.use_setuptools()
  
  from setuptools import setup, find_packages
  
  setup(
        name='MetaSV',
        version='0.1-alpha',
        description='MetaSV: An accurate and integrative structural-variant caller for next generation sequencing',
        author='Bina Technologies',
        author_email='rd@bina.com',
        url='https://github.com/bioinform/metasv',
        packages = find_packages(),
        install_requires = ["cython", "pysam==0.7.7", "pybedtools", "pyvcf"],
        package_data = {"metasv": ["resources/*"]},
        scripts=['scripts/metasv.py']
        )
  
subject: Enable top-level script