old_contents: from __future__ import print_function
  import os
  
  import numpy
  from setuptools import (
      Extension,
      setup,
      find_packages,
  )
  
  
  # allow setup.py to be run from any path
  os.chdir(os.path.normpath(os.path.join(os.path.abspath(__file__), os.pardir)))
  
  
  extensions = [Extension(name="pyquant.cpeaks", sources=["pyquant/cpeaks.pyx"])]
  
  
  setup(
      name="pyquant",
      version="0.4.0",
      packages=find_packages(),
      scripts=["scripts/pyQuant"],
      entry_points={"console_scripts": ["pyQuant = pyquant.command_line:run_pyquant",]},
      install_requires=[
          "cython",
          "numpy",
          "scipy >= 0.18.*",
          "patsy",
          "pythomics >= 0.3.41",
          "pandas >= 0.24.0",
          "lxml",
          "scikit-learn",
          "simplejson",
      ],
      include_package_data=True,
      description="A framework for the analysis of quantitative mass spectrometry data",
      url="http://www.github.com/chris7/pyquant",
      author="Chris Mitchell <chris.mit7@gmail.com>",
      classifiers=[
          "License :: OSI Approved :: MIT License",
          "Operating System :: OS Independent",
          "Programming Language :: Python",
      ],
      setup_requires=["cython", "numpy"],
      ext_modules=extensions,
      include_dirs=[numpy.get_include()],
  )
  
new_contents: from __future__ import print_function
  import os
  
  # These exceptions are for building pyquant on lambdas, which parse
  # the setup.py file. Sane builders will never hit this
  include_dirs = []
  try:
      import numpy
  
      include_dirs.append(numpy.get_include())
  except ImportError:
      pass
  from setuptools import (
      Extension,
      setup,
      find_packages,
  )  # noqa: E402
  
  
  # allow setup.py to be run from any path
  os.chdir(os.path.normpath(os.path.join(os.path.abspath(__file__), os.pardir)))
  
  
  extensions = [Extension(name="pyquant.cpeaks", sources=["pyquant/cpeaks.pyx"])]
  
  
  setup(
      name="pyquant",
      version="0.4.0",
      packages=find_packages(),
      scripts=["scripts/pyQuant"],
      entry_points={"console_scripts": ["pyQuant = pyquant.command_line:run_pyquant",]},
      install_requires=[
          "cython",
          "numpy",
          "scipy >= 0.18.*",
          "patsy",
          "pythomics >= 0.3.41",
          "pandas >= 0.24.0",
          "lxml",
          "scikit-learn",
          "simplejson",
      ],
      include_package_data=True,
      description="A framework for the analysis of quantitative mass spectrometry data",
      url="http://www.github.com/chris7/pyquant",
      author="Chris Mitchell <chris.mit7@gmail.com>",
      classifiers=[
          "License :: OSI Approved :: MIT License",
          "Operating System :: OS Independent",
          "Programming Language :: Python",
      ],
      setup_requires=["cython", "numpy"],
      ext_modules=extensions,
      include_dirs=include_dirs,
  )
  
subject: Update include dir