PyMOL4Win
Open Source PyMOL 2.6.0a0 for Python 3.12
Open source PyMOL is available free of charge. A pre-compiled open source PyMOL is available free from Christoph Gohlke of the Department of Biomedical Engineering, University of California, Irvine.
This repository provides a method to install PyMOL v2.6 on Windows. If necessary, a portuguese version of this guide is available here.
Follow these steps to install PyMOL v2.6:
Install the latest version of Python (v3.12.x) for Windows from here.
Note: Make sure the option to add environment variables is selected or add the folder of python.exe to system PATH.
Install required Python packages
python -m pip install numpy python -m pip install pmw python -m pip install pyqt5
Download pre-compiled Open-Source PyMOL wheel files, compatible with Python 3.12 and Windows 64-bit, from the links below:
pymol-launcher
pymol
Note: You can check Python version on anaconda by typing python --version.
If you are using a different Python version or Windows 32-bits, please there are other pre-compiled versions here.
The filename structure is the following:
pymol‑2.6.0a0‑cp312‑cp312‑win_amd64.whl ___ for 64 bit Windows ____________ for Python 3.12.x ____________________ PyMOL version 2.6.0a0
Install wheel files
In the CMD window (not PowerShell!), switch to download directory (C:Users):
cd Downloads
Then, install pymol_launcher-2.6-cp312-cp312-win_amd64.whl by typing:
python -m pip install --no-index --find-links="%CD%" pymol_launcher-2.6-cp312-cp312-win_amd64.whl
Finally, to install pymol-2.6.0a0-cp312-cp312-win_amd64.whl, run:
python -m pip install --upgrade --no-deps pymol-2.6.0a0-cp312-cp312-win_amd64.whl
Note: If you downloaded different files in Step 4, replace pymol_launcher-2.6-cp312-cp312-win_amd64.whl and pymol-2.6.0a0-cp312-cp312-win_amd64.whl by the downloaded wheel files.
Launch PyMOL v2.6
In the CMD window (not PowerShell!), run:
where.exe pymol pymol
Then, PyMOL v2.6 will be launched and ready to go.
(Optional) Create a shortcut to PyMOL
where.exe pymol
The location of pymol.exe will be displayed. Navigate to the file location, right-click on PyMOL.exe, and copy it to your Desktop.
