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ENCODE-DCC / caper

Cromwell/WDL wrapper for Python
MIT License
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caper init slurm not working #175

Open mapostolides opened 2 years ago

mapostolides commented 2 years ago

ImportError: /lib64/libm.so.6: version `GLIBC_2.29' not found (required by /home/maposto/projects/rrg-hsn/maposto/miniconda3/lib/python3.9/site-packages/matplotlib/_path.cpython-39-x86_64-linux-gnu.so)

leepc12 commented 2 years ago

This looks like a Conda issue. I think you have conflicts between Conda and your system's glib?

mapostolides commented 2 years ago

Yes that could be! How do I fix it?

leepc12 commented 2 years ago

Sorry I can't help you with fixing system specific Conda issues. Please try with Singularity or Docker method.

mapostolides commented 2 years ago

Hi, I was trying with the Singularity method, but it requires caper, which is not found within the container for some reason . Is there more documentation with how to run with Singularity?

mapostolides commented 2 years ago

The issue I'm facing is related to the following command

$ caper init [BACKEND]

This is unrelated to which method I'm using (e.g. Singularity, etc). I can't use Singularity until the above command can be run, unfortunately.

leepc12 commented 2 years ago 
$ echo $PATH

Please uninstall your Conda or remove Conda's bin from your PATH and pip install caper and re-login. You should not see (base) environment on your command prompt.

$ pip install caper
$ caper -v