I know there are lots of similar questions on the website but I couldn't find an answer to my problem.
I'm wrapping C++ classes with Cython in order to use them with Python3. After building the external module with a setup.py
, when I run the python program I got the following error:
from "name of.pyx file" import "name of the class to import"
Import error: /home/.../filename.so: undefined symbol: _ZTINSt8ios_base7failureB5cxx11E.
I'm on Ubuntu 16.04, I build the extensions from the terminal with the command line python3 setup.py build_ext --inplace
, and then run the .py
from the terminal or from Spyder in Anaconda (I got the error in both cases.)
From what I read the error might come from the cython compilation because i'm not linking some libraries. Is this true? If it is, could someone explain me how to do it?
I let you here my setup.py
, in comments all the different setups I tried.
setup.py
from distutils.core import setup, Extension
from Cython.Build import cythonize
import numpy
#setup(ext_modules = cythonize(
#"pycoralv1.pyx", # our Cython source
#sources=["coralv1cpp.cpp"], # additional source file(s)
#language="c++", # generate C++ code
#))
#setup(ext_modules = cythonize(Extension(
# "pyCoralv1", # the extension name
# sources=["pyCoralv1.pyx", "Coralv1cpp.cpp"], # the Cython source and
# additional C++ source files
# language="c++", # generate and compile C++ code
# )))
#setup(
# name = "testcoral",
# ext_modules = cythonize('*.pyx'),
#)
ext_modules = [
Extension(
"pyCoralv1",
sources=["pyCoralv1.pyx", "Coralv1cpp.cpp"],
extra_compile_args=['-fopenmp',"-fPIC"],
extra_link_args=['-fopenmp',"-I", "/usr/include/glib-2.0", "-l", "glib-2.0", "-I", "/usr/lib/x86_64-linux-gnu/glib-2.0/include"],
language="c++",
)
]
for e in ext_modules:
e.pyrex_directives = {"boundscheck": False}
setup(
name='Coral library',
ext_modules=cythonize(ext_modules),
include_dirs = [numpy.get_include()]
)