marcomilanesio
commented
5 months ago Look like a miniconda problem. The libstdc++ library is looking for is not found in your current conda environment.
Possible steps to take:
- review your python installation and which python interpreter you are using
- reinstall libstdc
conda install libgcc - make sure you're pointing to the correct version (see here)
- make sure there are no conflicts between conda env and pip env (
conda env listvspip list)
Unfortunately I do not maintain the Abeille code, so I cannot look for bugs/error in the source.
In R I ran the script as usual until I reached the following
reticulate::use_condaenv("myenv", required = TRUE)
Source my own python environment
To find your python path you can use os.path.dirname(sys.executable) on python
If you don't have environment ready, you can load library needed in python
py_install("numpy") py_install("pandas") py_install("tensorflow")
Load the VAE function
abeille_script_path <- "....rest of directory......./ABEILLE/abeille.py" source_python(abeille_script_path) <<<<<
Error in py_run_file_impl(file, local, convert) : ImportError: /lib64/libstdc++.so.6: version
GLIBCXX_3.4.29' not found (required by /data/nasif12/home_if12/l_he/miniconda3/envs/myenv/lib/python3.8/site-packages/pandas/_libs/window/aggregations.cpython-38-x86_64-linux-gnu.so) Runreticulate::py_last_error()` for details.Unfortunately I can not run abeille.py in Rstudio do you have a possible solution. I unfortunately can not use a virtual machine so I can't have a default environment set up.