old_contents: from setuptools import setup
  
  def readme():
      with open('README.md') as f:
          return f.read()
  
  setup(name='riboutils',
          version='0.1',
          description="This package contains utilities for other ribosome profiling projects.",
          long_description=readme(),
          keywords="ribosome profiling utilities translation",
          url="",
          author="Brandon Malone",
          author_email="bmmalone@gmail.com",
          license='MIT',
          packages=['riboutils'],
          install_requires = [
              'numpy',
              'pandas',
              'scipy',
              'tqdm',
              'appdirs',
              'statsmodels',
              'misc[bio]'
          ],
          extras_require = {
          },
          include_package_data=True,
          test_suite='nose.collector',
          tests_require=['nose'],
          entry_points = {
              'console_scripts': [
                  'extract-metagene-profiles=riboutils.extract_metagene_profiles:main',
                  'estimate-metagene-profile-bayes-factors=riboutils.estimate_metagene_profile_bayes_factors:main',
                  'select-periodic-offsets=riboutils.select_periodic_offsets:main'                                
                                 ]
          },
          zip_safe=False
          )
  
new_contents: from setuptools import setup
  
  console_scripts = [
      'extract-metagene-profiles=riboutils.extract_metagene_profiles:main',
      'estimate-metagene-profile-bayes-factors=riboutils.estimate_metagene_profile_bayes_factors:main',
      'select-periodic-offsets=riboutils.select_periodic_offsets:main'
  ]
  
  def readme():
      with open('README.md') as f:
          return f.read()
  
  setup(name='riboutils',
          version='0.1',
          description="This package contains utilities for other ribosome profiling projects.",
          long_description=readme(),
          keywords="ribosome profiling utilities translation",
          url="",
          author="Brandon Malone",
          author_email="bmmalone@gmail.com",
          license='MIT',
          packages=['riboutils'],
          install_requires = [
              'numpy',
              'pandas',
              'scipy',
              'tqdm',
              'appdirs',
              'statsmodels',
              'misc[bio]'
          ],
          extras_require = {
          },
          include_package_data=True,
          test_suite='nose.collector',
          tests_require=['nose'],
          entry_points = {
              'console_scripts': console_scripts
          },
          zip_safe=False
  )
  
subject: FIX moved bio script to misc.bio_utils