pymol-open-source
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schrodinger
Open-source foundation of the user-sponsored PyMOL molecular visualization system.
Dear PyMol team, I want to select atoms dynamically in a trajectory by judging the distance in every state individually. I found current selection algebra seems cant achieve so, as...
Hello, I use "distance hbonds, h_acceptors, h_donors, 3.2, mode=2" to get different results than "cmd.distance("hbonds", 'h_acceptors', 'h_donors', 3.2, mode = 2)". The result from "distance hbonds, h_acceptors, h_donors, 3.2, mode=2"...
# Motivation I wanted to automatically add more plugin paths to pymol without relying on the existence of a "pymolpluginrc" file. So I proceeded to add more directories to the...
## I moved the build process to use the pyproject.toml file ### Why it needs to be done: * It will be possible to add dependencies for the build step...
When using the dist command with mode=2 for structures that have sensibly placed polar hydrogens, it becomes apparent that many hydrogen bonds with very good geometry are missed. The problem...
Can I use Pymol on a remote Linux server **without** GUI installed? My server is Ubuntu 22.04, without any GUI installed. Try to install Pymol via `pip install pymol‑2.5.0a0‑cp37‑cp37m‑win_amd64.whl`, the...
Good morning, I would like to report a bug in the mutagenesis feature of the new pymol version. When I try to mutate residues the new residue is automatically placed...
I use apbs and get opendx file, then load it into pymol and show the dots It shows like this:  but how can i select the very part...
When I use pymol as a library, scripts usually use several threads, which becomes a bit disastrous when using multiprocessing. Is there a way to control pymol's thread usage?
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Open-source foundation of the user-sponsored PyMOL molecular visualization system.