old_contents: #!/usr/bin/env python3
  
  import io
  import os
  import re
  
  from setuptools import setup, find_packages, Extension
  
  def read(*names, **kwargs):
      with io.open(
          os.path.join(os.path.dirname(__file__), *names),
          encoding=kwargs.get("encoding", "utf8")
      ) as fp:
          return fp.read()
  
  def find_version(*file_paths):
      version_file = read(*file_paths)
      version_match = re.search(r"^__version__ = ['\"]([^'\"]*)['\"]",
                                version_file, re.M)
      if version_match:
          return version_match.group(1)
      raise RuntimeError("Unable to find version string.")
  
  locusdist = Extension(
      'locuspocus.LocusDist',
      sources=['locuspocus/LocusDist.pyx'],
  )
  
  setup(
      name = 'locuspocus',
      version = find_version('locuspocus','__init__.py'),
  
      description = 'Genetic coordinates made easy!',
      url = 'http://linkage.io',
      author = 'Rob Schaefer',
      author_email = 'rob@linkage.io',
      license = "Copyright Linkage Analytics 2016. Available under the MIT License",
  
      classifiers=[
  	# How mature is this project? Common values are
  	#   3 - Alpha
  	#   4 - Beta
  	#   5 - Production/Stable
  	'Development Status :: 4 - Beta',
  
  	# Indicate who your project is intended for
  	'Intended Audience :: Developers',
  	'Topic :: Software Development :: Build Tools',
  
  	# Pick your license as you wish (should match "license" above)
  	 'License :: OSI Approved :: MIT License',
  
  	# Specify the Python versions you support here. In particular, ensure
  	# that you indicate whether you support Python 2, Python 3 or both.
  	'Programming Language :: Python :: 3',
  	'Programming Language :: Python :: 3.6',
      ],
      keywords='data genetics biology coordinates', 
      project_urls={
          'Documentation' : 'http://linkage.io',
          'Source' : 'https://github.com/LinkageIO/LocusPocus',
          'Tracker' : 'https://github.com/LinkageIO/LocusPocus/issues'
      },
  
  
      packages = find_packages(),
      scripts = [],
      ext_modules = [locusdist],
      cmdclass = {
      },
      package_data = {
          '':['*.cyx']
      },
      setup_requires = [
          # Setuptools 18.0 properly handles Cython extensions.
          'setuptools>=18.0',
          'cython',
      ],
      install_requires = [
          'minus80>=0.3.1',
          'Cython>=0.16.0',
          'numpy>=1.14.3',
          'scipy>=0.19.0'
      ],
      include_package_data=True,
  
  )
  
new_contents: #!/usr/bin/env python3
  
  import io
  import os
  import re
  
  from setuptools import setup, find_packages, Extension
  
  def read(*names, **kwargs):
      with io.open(
          os.path.join(os.path.dirname(__file__), *names),
          encoding=kwargs.get("encoding", "utf8")
      ) as fp:
          return fp.read()
  
  def find_version(*file_paths):
      version_file = read(*file_paths)
      version_match = re.search(r"^__version__ = ['\"]([^'\"]*)['\"]",
                                version_file, re.M)
      if version_match:
          return version_match.group(1)
      raise RuntimeError("Unable to find version string.")
  
  locusdist = Extension(
      'locuspocus.LocusDist',
      sources=['locuspocus/LocusDist.pyx'],
  )
  
  setup(
      name = 'locuspocus',
      version = find_version('locuspocus','__init__.py'),
  
      description = 'Genetic coordinates made easy!',
      url = 'http://linkage.io',
      author = 'Rob Schaefer',
      author_email = 'rob@linkage.io',
      license = "Copyright Linkage Analytics 2016. Available under the MIT License",
  
      classifiers=[
  	# How mature is this project? Common values are
  	#   3 - Alpha
  	#   4 - Beta
  	#   5 - Production/Stable
  	'Development Status :: 4 - Beta',
  
  	# Indicate who your project is intended for
  	'Intended Audience :: Developers',
  	'Topic :: Software Development :: Build Tools',
  
  	# Pick your license as you wish (should match "license" above)
  	 'License :: OSI Approved :: MIT License',
  
  	# Specify the Python versions you support here. In particular, ensure
  	# that you indicate whether you support Python 2, Python 3 or both.
  	'Programming Language :: Python :: 3',
  	'Programming Language :: Python :: 3.6',
      ],
      keywords='data genetics biology coordinates', 
      project_urls={
          'Documentation' : 'http://linkage.io',
          'Source' : 'https://github.com/LinkageIO/LocusPocus',
          'Tracker' : 'https://github.com/LinkageIO/LocusPocus/issues'
      },
  
  
      packages = find_packages(),
      scripts = [],
      ext_modules = [locusdist],
      cmdclass = {
      },
      package_data = {
          '':['*.cyx']
      },
      setup_requires = [
          # Setuptools 18.0 properly handles Cython extensions.
          'setuptools>=18.0',
          'cython',
      ],
      install_requires = [
          'minus80>=0.3.1',
          'Cython>=0.16.0',
          'numpy>=1.14.3',
          'anytree==2.6.0',
          'scipy>=0.19.0'
      ],
      include_package_data=True,
  
  )
  
subject: include anytree as dep