old_contents: from setuptools import setup, Extension
  
  import numpy
  
  setup(
      name='tmhmm.py',
      version='1.1',
      author='Dan Søndergaard',
      author_email='das@birc.au.dk',
      description='A transmembrane helix finder.',
      url='https://github.com/dansondergaard/tmhmm.py/',
      packages=['tmhmm'],
      zip_safe=False,
  
      setup_requires=['setuptools>=18.0', 'numpy>=1.9', 'cython'],
      install_requires=['numpy>=1.9', 'scikit-bio>=0.5'],
      extras_require={
          'plotting':  ['matplotlib', 'pandas'],
      },
  
      entry_points={
          'console_scripts': ['tmhmm=tmhmm.cli:cli'],
      },
  
      ext_modules=[
          Extension(
              'tmhmm.hmm',
              sources=['tmhmm/hmm.pyx'],
              include_dirs=[numpy.get_include()],
          ),
      ],
  
      data_files=[('', ['TMHMM2.0.model'])],
  )
  
new_contents: from setuptools import setup, Extension
  
  import numpy
  
  setup(
      name='tmhmm.py',
      version='1.1.1',
      author='Dan Søndergaard',
      author_email='das@birc.au.dk',
      description='A transmembrane helix finder.',
      url='https://github.com/dansondergaard/tmhmm.py/',
      packages=['tmhmm'],
      zip_safe=False,
  
      setup_requires=['setuptools>=18.0', 'numpy>=1.9', 'cython'],
      install_requires=['numpy>=1.9', 'scikit-bio>=0.5'],
      extras_require={
          'plotting':  ['matplotlib', 'pandas'],
      },
  
      entry_points={
          'console_scripts': ['tmhmm=tmhmm.cli:cli'],
      },
  
      ext_modules=[
          Extension(
              'tmhmm.hmm',
              sources=['tmhmm/hmm.pyx'],
              include_dirs=[numpy.get_include()],
          ),
      ],
  
      data_files=[('', ['TMHMM2.0.model'])],
  )
  
subject: Increment version