Hi everyone, I found this issue while investigating a related one (the error message). It looks like the core problem discussed here has been solved in the meantime:
Singularity> python3 -m numpy Error in sitecustomize; set PYTHONVERBOSE for traceback: ValueError: '/gnu/store/kx98dz2vc3gdpjficy4nbd7rscnkvz4s-profile/bin/../../h855kddqbay0pcbwr8a7i8m6ilz67cfn-python-3.10.7/lib/python3.10/site-packages' is not in list /gnu/store/kx98dz2vc3gdpjficy4nbd7rscnkvz4s-profile/bin/python3: No module named numpy.__main__; 'numpy' is a package and cannot be directly executed This error message is to be expected, and NumPy can be imported: Singularity> python3 Error in sitecustomize; set PYTHONVERBOSE for traceback: ValueError: '/gnu/store/kx98dz2vc3gdpjficy4nbd7rscnkvz4s-profile/bin/../../h855kddqbay0pcbwr8a7i8m6ilz67cfn-python-3.10.7/lib/python3.10/site-packages' is not in list Python 3.10.7 (main, Jan 1 1970, 00:00:01) [GCC 11.3.0] on linux Type "help", "copyright", "credits" or "license" for more information. >>> import numpy >>> What remains is the error message, which comes from a bug in Guix' sitecustomize.py. It compares a raw path (sys.prefix) with paths that have been normalized (os.path.normpath). That comparison fails if sys.prefix contains "../", as it does when run from a Singularity container. I will submit a patch for this. Cheers, Konrad
