Hi yt community,

I’m encountering errors when running python -c “import yt”.

Background:

I’m working in a python set-up on a shared linux system to which I do not have root access and the system wide python installation is older than what I need for the version of yt I’d like to run.

So, I’m working with a set-up in a non-standard location and I think this may be the cause of the problems, but I don’t know how to proceed to fix it.

My first approach was to pip install, as described on the yt install page. That failed with "segmentation fault (core dumped)” error, when testing the installation (python -c “import yt”).

I tried all possible combinations of Python 3.11.4, Python 3.10.12 and yt 4.2.1 and yt 4.2.0, they all caused this issue. (Including when installing yt[full]).

Because my other python libraries work without problems and the path to the yt executable is on the search PATH, I figure this is perhaps related to some non-python libraries required by yt.

My next step was to install yt from source, which seems to confirm my suspicion: in this case python -c “import yt” yields a more informative error message:

< Leaving out a long traceback >

  File "yt/geometry/selection_routines.pyx", line 1, in init yt.geometry.selection_routines

    # distutils: include_dirs = LIB_DIR

ImportError: /lib64/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /PATH/TO/YT/yt/utilities/lib/image_samplers.cpython-310-x86_64-linux-gnu.so)

I checked that CXXABI_1.3.9 does indeed exist on the system and the path to it is included in the LD_LIBRARY_PATH in .bash_profile, however yt seems to look for it in the system wide folder (/lib64/) and not my local library folder ($HOME/GCC/lib64/).

I would be grateful if someone has any ideas about how to get yt to use the correct (local) library path instead of the standard system wide path it is currently using.

Sincerely Anne