Import onnxruntime then load_dataset "causes ImportError: /lib/x86_64-linux-gnu/libstdc++.so.6: version `GLIBCXX_3.4.29' not found": why + how to fix?

Question

Running

import onnxruntime as ort
from datasets import load_dataset

yields the error:

(env-312) dernoncourt@pc:~/test$ python SE--test_importpb.py 
Traceback (most recent call last):
  File "/home/dernoncourt/test/SE--test_importpb.py", line 2, in <module>
    from datasets import load_dataset
  File "/opt/conda/envs/env-312/lib/python3.12/site-packages/datasets/__init__.py", line 17, in <module>
    from .arrow_dataset import Dataset
  File "/opt/conda/envs/env-312/lib/python3.12/site-packages/datasets/arrow_dataset.py", line 57, in <module>
    import pyarrow as pa
  File "/opt/conda/envs/env-312/lib/python3.12/site-packages/pyarrow/__init__.py", line 65, in <module>
    import pyarrow.lib as _lib
ImportError: /lib/x86_64-linux-gnu/libstdc++.so.6: version `GLIBCXX_3.4.29' not found (required by /opt/conda/envs/env-312/lib/python3.12/site-packages/pyarrow/lib.cpython-312-x86_64-linux-gnu.so)
(env-312) dernoncourt@pc:~/test$

Why and how to fix? I use:

Python 3.12.9
Ubuntu 20.04.5 LTS
datasets==3.5.0
onnxruntime==1.21.0

Running from datasets import load_dataset or import onnxruntime as ort alone works fine.

Franck Dernoncourt · Accepted Answer · 2025-04-30 02:47:49Z

2

Inversing the import order works:

from datasets import load_dataset
import onnxruntime as ort

No clue why.

answered Apr 30 at 2:47

Franck Dernoncourt

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2 Comments

Employed Russian Apr 30 at 3:14

If you use LD_DEBUG=libs python ..., you will observe that libstdc++.so.6 is loaded from somewhere other than /lib/x86_64-linux-gnu/libstdc++.so.6. And that version is newer. Why that happens requires knowing which other library depends on libstdc++.so.6, and what that library's RPATH or RUNPATH is.

Franck Dernoncourt Apr 30 at 3:34

@EmployedRussian Thank you, this is great to know, you're welcome to add this as an answer!

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