As the error message says, you need to add the 'std=c99' flag when compiling. To do this, pass it in to the Extension() call in your setup.py using the 'extra_compile_args' keyword.
Using the basic setup.py given in the Cython docs as an example:
from distutils.core import setup
from distutils.extension import Extension
from Cython.Distutils import build_ext
ext_modules = [Extension("hello", ["hello.pyx"], extra_compile_args=['-std=c99'])]
setup(
name = 'Hello world app',
cmdclass = {'build_ext': build_ext},
ext_modules = ext_modules
)
Blair