Mailman 3 Error from "import numpy": undefined symbol: _ZSt21__glibcxx_assert_failPKciS0_S0_ - NumPy-Discussion

April 15, 2023

      Dear list,

I am compiling numpy from source (main 1.25.0.dev0+1173.g7f682bca5) on
Fedora 37.
- Python 3.11
- GNU C Library (GNU libc) stable release version 2.36.
- g++ (GCC) 12.2.1 20220819 (Red Hat 12.2.1-2)

I am compiling in a python venv, the C and C++ libraries are from the
Fedora distribution.
The compilation went well, but when importing:
...
...
...
import numpy
gives
Traceback (most recent call last):
  File "/home/cmarmo/software/numpy/numpy/core/__init__.py", line 23, in
<module>
    from . import multiarray
  File "/home/cmarmo/software/numpy/numpy/core/multiarray.py", line 10, in
<module>
    from . import overrides
  File "/home/cmarmo/software/numpy/numpy/core/overrides.py", line 8, in
<module>
    from numpy.core._multiarray_umath import (
ImportError: /home/cmarmo/software/numpy/numpy/core/_
multiarray_umath.cpython-311-x86_64-linux-gnu.so: undefined symbol:
_ZSt21__glibcxx_assert_failPKciS0_S0_

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/cmarmo/software/numpy/numpy/__init__.py", line 139, in
<module>
    from . import core
  File "/home/cmarmo/software/numpy/numpy/core/__init__.py", line 49, in
<module>
    raise ImportError(msg)
ImportError:

IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!

Importing the numpy C-extensions failed. This error can happen for
many reasons, often due to issues with your setup or how NumPy was
installed.

We have compiled some common reasons and troubleshooting tips at:

    https://numpy.org/devdocs/user/troubleshooting-importerror.html

Please note and check the following:

  * The Python version is: Python3.11 from
"/home/cmarmo/numpydevenv/bin/python"
  * The NumPy version is: "1.25.0.dev0+1173.g7f682bca5"

and make sure that they are the versions you expect.
Please carefully study the documentation linked above for further help.

Original error was: /home/cmarmo/software/numpy/numpy/core/_
multiarray_umath.cpython-311-x86_64-linux-gnu.so: undefined symbol:
_ZSt21__glibcxx_assert_failPKciS0_S0_

I have upgraded and downgraded the libstdc++ as far as possible in
fedora37, but the error is still there.
I have compiled with meson too and the result is the same.
I can provide both the buildlogs for setuptools and meson, they are
vvverbose and big (17M), just let me know where I can upload them.

I don't know if the issue is from numpy or the fedora packaging.
I hope some fedora packagers related to python are also in the list,
perhaps they may provide some hint?

Thanks for your attention!
Regards,

Chiara

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Error from "import numpy": undefined symbol: _ZSt21__glibcxx_assert_failPKciS0_S0_

Chiara Marmo

Charles R Harris

Chiara Marmo

Charles R Harris

Chiara Marmo

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