How to reliably compile on Linux Mint 22?

[Evert-Homan]

So far I have never succeeded to succesfully compile PyMol on any system. Here I tried it again on Linux Mint 22, following the description here: https://pymolwiki.org/index.php/Linux_Install.

There are some warnings but no red errors, and compilation finishes without any obvious issues. Then when I try to start PyMOL I get:

~/pymol-open-source-build/bin$ ./pymol

/usr/bin/python3: can't open file '/usr/local/lib/python3.12/dist-packages/pymol/__init__.py': [Errno 2] No such file or directory

I am aware there is a PyMOL 2.5 deb package but I found that this version crashed easily for non-obvious reasons.

Please advise on how to resolve this. Thanks/Evert

[JarrettSJohnson]

Apologies, the wiki page still needs to be updated, and I'm extremely behind on updating the info here.

https://github.com/schrodinger/pymol-open-source/blob/9b9cd6fb7ba8df68863fa03f0efa0c7270aec9ad/INSTALL#L52-L56 is the most to date instructions that don't call setup.py directly and uses pip instead. Also, see our linux CI for a working example: https://github.com/schrodinger/pymol-open-source/blob/9b9cd6fb7ba8df68863fa03f0efa0c7270aec9ad/.github/workflows/build.yml#L45-L48

[Evert-Homan]

pip install .

Should I run this just in the cloned repo, or what?

[jrom99]

On fedora, I usually do the following:

sudo dnf install -y cmake gcc-c++ glew-devel libpng-devel freetype-devel glm-devel python3-pyqt6 python3-devel
git clone https://github.com/schrodinger/pymol-open-source
cd pymol-open-source
pip install . --config-settings libxml=false --config-settings use-msgpackc=no --config-settings vmd-plugins=false

However when I tried it today I got the following error (which may be related to nvidia, but I'm not sure):

 Detected OpenGL version 4.6. Shaders available.
 Detected GLSL version 4.60.
 OpenGL graphics engine:
  GL_VENDOR:   Intel
  GL_RENDERER: Mesa Intel(R) Graphics (ADL GT2)
  GL_VERSION:  4.6 (Compatibility Profile) Mesa 24.3.4
 Detected 16 CPU cores.  Enabled multithreaded rendering.

GL_ERROR : 0x0506 GenericBuffer::genBuffer failed

terminate called without an active exception
Aborted (core dumped)