old_contents: import os
  
  from setuptools import setup
  
  
  def get_requirements():
      """Get requirements from requirements.txt"""
      with open("requirements.txt") as handle:
          return [x.strip() for x in handle]
  
  
  def get_version():
      """Get the version info from the mpld3 package without importing it"""
      import ast
  
      with open(os.path.join("peddy", "__init__.py"), "r") as init_file:
          module = ast.parse(init_file.read())
  
      version = (ast.literal_eval(node.value) for node in ast.walk(module)
               if isinstance(node, ast.Assign)
               and node.targets[0].id == "__version__")
      try:
          return next(version)
      except StopIteration:
          raise ValueError("version could not be located")
  
  setup(
      version=get_version(),
      name='peddy',
      description="pleasingly pythonic pedigree manipulation",
      packages=['peddy', 'peddy.tests'],
      long_description=open('README.md').read(),
      author="Brent Pedersen",
      author_email="bpederse@gmail.com",
      install_requires=get_requirements(),
      zip_safe=False,
      test_suite='nose.collector',
      # To provide executable scripts, use entry points in preference to the
         # "scripts" keyword. Entry points provide cross-platform support and
         # allow pip to create the appropriate form of executable for the
         # target platform.
      entry_points=dict(
          console_scripts=[
              'peddy = peddy.__main__:cli',
          ],
      ),
      include_package_data=True,
      tests_require='nose',
      classifiers=[
              'Development Status :: 4 - Beta',
              'Intended Audience :: Science/Research',
              'License :: OSI Approved :: MIT License',
              'Topic :: Scientific/Engineering :: Bio-Informatics']
  )
  
new_contents: import os
  
  from setuptools import setup
  
  
  def get_requirements():
      """Get requirements from requirements.txt"""
      with open("requirements.txt") as handle:
          return [x.strip() for x in handle]
  
  
  def get_version():
      """Get the version info from the mpld3 package without importing it"""
      import ast
  
      with open(os.path.join("peddy", "__init__.py"), "r") as init_file:
          module = ast.parse(init_file.read())
  
      version = (ast.literal_eval(node.value) for node in ast.walk(module)
               if isinstance(node, ast.Assign)
               and node.targets[0].id == "__version__")
      try:
          return next(version)
      except StopIteration:
          raise ValueError("version could not be located")
  
  setup(
      version=get_version(),
      name='peddy',
      description="pleasingly pythonic pedigree manipulation",
      packages=['peddy', 'peddy.tests'],
      long_description=open('README.md').read(),
      long_description_content_type="text/markdown",
      author="Brent Pedersen",
      author_email="bpederse@gmail.com",
      install_requires=get_requirements(),
      zip_safe=False,
      test_suite='nose.collector',
      # To provide executable scripts, use entry points in preference to the
         # "scripts" keyword. Entry points provide cross-platform support and
         # allow pip to create the appropriate form of executable for the
         # target platform.
      entry_points=dict(
          console_scripts=[
              'peddy = peddy.__main__:cli',
          ],
      ),
      include_package_data=True,
      tests_require='nose',
      classifiers=[
              'Development Status :: 4 - Beta',
              'Intended Audience :: Science/Research',
              'License :: OSI Approved :: MIT License',
              'Topic :: Scientific/Engineering :: Bio-Informatics']
  )
  
subject: update setup to use markdwon