<commit_before>from setuptools import setup, Extension

import numpy

setup(
    name='tmhmm.py',
    version='1.1',
    author='<NAME>',
    author_email='<EMAIL>',
    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"],
    },

    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'])],
)<commit_msg>Plotting extra also requires pandas<commit_after>from setuptools import setup, Extension

import numpy

setup(
    name='tmhmm.py',
    version='1.1',
    author='<NAME>',
    author_email='<EMAIL>',
    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'])],
)
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{'dir': 'git-commits-cleaned', 'id': '5051546', 'n_tokens_mistral': 611, 'n_tokens_neox': 567, 'n_words': 79}