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start /wait "" PyMOL-2.3.4_0-Windows-x86_64.exe /InstallationType=AllUsers /S /D=C:\Programs\PyMOL
tar -jxf PyMOL-2.2.0_0-Linux-x86_64.tar.bz2
cd pymol; ./pymol
conda install -c schrodinger pymol
Yes, the license file can be placed at
$PREFIX/share/pymol/license.lic, for example:
/Library/Application Support/Schrodinger/licenses/*.lic(gatekeeper-friendly, since PyMOL 2.2.2)
Don't open it. Save it on your workstation and then navigate to it when PyMOL prompts you for a license.
AxPyMOL 2.0.7 is now available.
Please upgrade to PyMOL 2.1 (see driver installation instructions)
Most likely not. But if you miss a Python package, it's very likely available from Anaconda Cloud! All our bundles are based on the Anaconda Python distribution and ship with the conda package manager.
Yes, use the pse_export_version setting (please let us know if you experience issues with Python 3).
The on-demand installation of ffmpeg may install an incompatible version (Error message:
dyld: Library not loaded: @rpath/libopenh264.5.dylib). This can be fixed by running the following command in a terminal:
/Applications/PyMOL.app/Contents/bin/conda install conda-forge::ffmpeg
precomputed_lighting setting (fixed in PyMOL 2.3.0)
Fixed in 2.1.0, please download the new version.
Also make sure your conda environment has pyqt=5.6 (not 5.9).
With pyqt>=5.9 you need to launch PyMOL with
Fixed in 2.4.0, please download the new version.
Remove the file
~/.pymolpluginsrc.py (fixed in PyMOL 2.3.1)
Remove the file
%USERPROFILE%\.pymol\winfiletypes_done.txt (fixed in PyMOL 2.3.1)
Issue on a default Fedora installation. Please do
sudo dnf install libnsl
Please cite PyMOL and AxPyMOL as shown below. Be sure to edit the version number in accordance with your usage. If you use BibTex or EndNote, download the handy citation files below.
The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC.
The AxPyMOL Molecular Graphics Plugin for PowerPoint, Version 2.0 Schrödinger, LLC.
For help with BibTex see: