Installation fails because of missing C++ header file

[nrminor]

Hello!

My colleagues and I were excited to try this tool this week, as we use viralrecon and a few other home-grown Nextflow pipelines that should be compatible with wgscovplot. However, after attempting to install the tool on both ARM and x86 MacOS machines, I ran into the same fatal error:

edlib.bycython.cpp:198:12: fatal error: 'longintrepr.h' file not found

After some google searching, it sounds like the header file may have been moved in a recent version of Cython, though I'm not familiar enough with how Cython is configured to know if that makes sense. Regardless, I totally understand if this is a Cython issue and not a 'wgscovplot` issue.

Still, I'll attach the full outputs from both the build-from-source setup.py method and the pip method so you can see what I ran into. Happy to share any more information if needed.

Many thanks,
--Nick

setup_py.output.txt
pip_install.output.txt

[nhhaidee]

@nrminor Thank for reporting issue! We are currently working on major changes for this tool. However, for now you can try with pip instllation (https://pypi.org/project/wgscovplot/).

I have not tried with ARM and MacOS. However, can you create conda env (on MacOS or Linux) and use pip installation on it? I have no issue with installation on conda env (e.g conda create --name=wgscovplot python=3.9)

[nrminor]

Ah yes, looks like trying to install it globally with Python 3.12 might have been part of the cause. I just created conda environments with python 3.9 on both an intel and an ARM macos machine, and the pip-based wgscovplot installation worked in both environments. Thanks for your help!