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X-PSI: X-ray Pulse Simulation and Inference
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`/usr/bin/gcc` clashes with installed matplotlib #406

Open DevarshiChoudhury opened 2 weeks ago

DevarshiChoudhury commented 2 weeks ago

https://github.com/xpsi-group/xpsi/blob/a3fd654ca4658825253b46d563d571e766b2f855/docs/source/install.rst?plain=1#L152

I installed X-PSI in an ubuntu 20.04 virtual machine on Surf Research Cloud which came with pre-installed gcc in /usr/bin/gcc. However, after installing X-PSI as CC=/usr/bin/gcc python setup.py install, matplotlib breaks down with the following error message:

File "matplotlib/cbook.py", line 32, in <module> from matplotlib import _api, _c_internal_utils 
ImportError: /lib/x86_64-linux-gnu/libstdc++.so.6: version `GLIBCXX_3.4.29' not found (required by site-packages/matplotlib/_c_internal_utils.cpython-312-x86_64-linux-gnu.so)

Is this something people have faced before using the default ubuntu gcc?

Based on the suggestion in this Stack, the problem was solved via conda install -c conda-forge gcc prior to installing X-PSI and then running CC=<home>/anaconda3/envs/xpsi_py3/bin/gcc python setup.py install. Note that I didn't install MultiNest, so this step might need to be performed beforehand if installing MultiNest.

If others haven't face this before, perhaps a cautionary word can be added to the docs in case new users do.

thjsal commented 21 hours ago

I lately installed X-PSI to my new Ubuntu 22.04 laptop using the default ubuntu gcc, but I did not encounter this issue.