old_contents: #!/usr/bin/python
  
  """Compiles the C and Fortran modules used by CoMEt."""
  
  ############################################################################
  # First compile the C code
  
  # Load required modules
  from distutils.core import setup, Extension
  import subprocess, numpy, os
  
  thisDir = os.path.dirname(os.path.realpath(__file__))
  
  def subprocessOutput(args):
      proc = subprocess.Popen(args, stdout=subprocess.PIPE)
      out, err = proc.communicate()
      try: return out
      except: print "Error: " + err
  
  compile_args = ['-g', '-O0']
  
  srcs = ['/src/c/utils/cephes/polevl.c','/src/c/utils/cephes/gamma.c',
          '/src/c/utils/cephes/incbet.c', '/src/c/utils/utilities.c',
          '/src/c/weights.c', '/src/c/mutation_data.c', '/src/c/cometmodule.c',
          '/src/c/comet_mcmc.c', '/src/c/comet_exhaustive.c']
  module = Extension('cComet', include_dirs=[numpy.get_include()],
  	sources = [ thisDir + s for s in srcs ],
  	libraries = ['glib-2.0'], extra_compile_args = compile_args)
  setup(name='CoMEt', version='1.0', description='C module for running CoMEt.',
        ext_modules=[module])
  
  ############################################################################
  # Second compile the Fortran code
  
  # Load required modules
  from numpy.distutils.core import Extension, setup
  
  # Compile the bipartite edge swap code
  ext = Extension(name='permute_matrix', sources=[thisDir + '/src/fortran/permute_matrix.f95'])
  setup(name='permute_matrix', ext_modules=[ext])
new_contents: #!/usr/bin/python
  
  """Compiles the C and Fortran modules used by CoMEt."""
  
  ############################################################################
  # First compile the C code
  
  # Load required modules
  from distutils.core import setup, Extension
  import subprocess, numpy, os
  
  thisDir = os.path.dirname(os.path.realpath(__file__))
  
  def subprocessOutput(args):
      proc = subprocess.Popen(args, stdout=subprocess.PIPE)
      out, err = proc.communicate()
      try: return out
      except: print "Error: " + err
  
  compile_args = ['-g', '-O0']
  
  srcs = ['/src/c/utils/cephes/polevl.c','/src/c/utils/cephes/gamma.c',
          '/src/c/utils/cephes/incbet.c', '/src/c/utils/utilities.c',
          '/src/c/weights.c', '/src/c/mutation_data.c', '/src/c/cometmodule.c',
          '/src/c/comet_mcmc.c', '/src/c/comet_exhaustive.c']
  module = Extension('cComet', include_dirs=[numpy.get_include()],
  	sources = [ thisDir + s for s in srcs ], extra_compile_args = compile_args)
  setup(name='CoMEt', version='1.0', description='C module for running CoMEt.',
        ext_modules=[module])
  
  ############################################################################
  # Second compile the Fortran code
  
  # Load required modules
  from numpy.distutils.core import Extension, setup
  
  # Compile the bipartite edge swap code
  ext = Extension(name='permute_matrix', sources=[thisDir + '/src/fortran/permute_matrix.f95'])
  setup(name='permute_matrix', ext_modules=[ext])
subject: remove glib2 dependency in setup.py