old_contents: #!/usr/bin/env python
  # -*- coding: UTF-8 -*-
  
  import os.path as op
  
  from glob import glob
  from setuptools import setup
  from setup_helper import SetupHelper
  
  
  name = "goatools"
  classifiers = [
      'Development Status :: 4 - Beta',
      'Intended Audience :: Science/Research',
      'License :: OSI Approved :: BSD License',
      'Programming Language :: Python',
      'Programming Language :: Python :: 2',
      'Programming Language :: Python :: 3',
      'Topic :: Scientific/Engineering :: Bio-Informatics',
      ]
  
  # Use the helper
  h = SetupHelper(initfile="goatools/__init__.py", readmefile="README.md")
  
  setup_dir = op.abspath(op.dirname(__file__))
  requirements = ['wget'] + [x.strip() for x in
                             open(op.join(setup_dir, 'requirements.txt')).readlines()]
  
  setup(
      name=name,
      version=h.version,
      author=h.author,
      author_email=h.email,
      license=h.license,
      long_description=h.long_description,
      packages=[name],
      scripts=glob('scripts/*.py'),
      classifiers=classifiers,
      url='http://github.com/tanghaibao/goatools',
      description="Python scripts to find enrichment of GO terms",
      install_requires=requirements
  )
  
new_contents: #!/usr/bin/env python
  # -*- coding: UTF-8 -*-
  
  import os.path as op
  
  from glob import glob
  from setuptools import setup
  from setup_helper import SetupHelper
  
  
  name = "goatools"
  classifiers = [
      'Development Status :: 4 - Beta',
      'Intended Audience :: Science/Research',
      'License :: OSI Approved :: BSD License',
      'Programming Language :: Python',
      'Programming Language :: Python :: 2',
      'Programming Language :: Python :: 3',
      'Topic :: Scientific/Engineering :: Bio-Informatics',
      ]
  
  # Use the helper
  h = SetupHelper(initfile="goatools/__init__.py", readmefile="README.md")
  
  setup_dir = op.abspath(op.dirname(__file__))
  requirements = ['wget'] + [x.strip() for x in
                             open(op.join(setup_dir, 'requirements.txt')).readlines()]
  
  setup(
      name=name,
      version=h.version,
      author=h.author,
      author_email=h.email,
      license=h.license,
      long_description=h.long_description,
      packages=[name, name + ".test_data", name + ".anno"],
      scripts=glob('scripts/*.py'),
      classifiers=classifiers,
      url='http://github.com/tanghaibao/goatools',
      description="Python scripts to find enrichment of GO terms",
      install_requires=requirements
  )
  
subject: Include .anno and .test_data in dist