old_contents: import numpy
  from distutils.core import setup
  from Cython.Build import cythonize
  from distutils.extension import Extension
  
  
  ext_modules = [
          Extension("atomset/atomset", ["atomset/atomset.pyx"], include_dirs = [".", "atomset"]),
          Extension("atomset/SymmetryContactMapEvaluator", ["atomset/SymmetryContactMapEvaluator.pyx"], include_dirs = [".","atomset"]),
          Extension("atomset/RMSDCalculator", ["atomset/RMSDCalculator.pyx"], include_dirs = [".", "atomset"])
              ]
  setup(
      ext_modules = cythonize(ext_modules),  # accepts a glob pattern
      include_dirs=[numpy.get_include()]
  
  )
  
new_contents: import numpy
  from distutils.core import setup
  from Cython.Build import cythonize
  from distutils.extension import Extension
  
  
  ext_modules = [
          Extension("atomset/atomset", ["atomset/atomset.pyx"], include_dirs = [".", "atomset"]),
          Extension("atomset/SymmetryContactMapEvaluator", ["atomset/SymmetryContactMapEvaluator.pyx"], include_dirs = [".","atomset"]),
          Extension("atomset/RMSDCalculator", ["atomset/RMSDCalculator.pyx"], include_dirs = [".", "atomset"])
              ]
  setup(
      ext_modules = cythonize(ext_modules),  # accepts a glob pattern
      include_dirs=[numpy.get_include()]
  
  )
  # Run the following line to compile atomset package
  # python setup.py build_ext --inplace
  
  
subject: Comment on compilations instructions in setup.py