PyMOL

by Schrodinger, Inc.v3.1.8

Last updated Aug 10, 2026

A user-sponsored molecular visualization system on an open-source foundation, maintained and distributed by Schrödinger.

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Install with winget

$ winget install --id Schrodinger.PyMOL --exact --version 3.1.8

Run in Command Prompt, PowerShell, or Windows Terminal. Prompts for any agreements.

Silent install command for PyMOL

PyMOL uses EXE (NSIS). The silent install switches are /S.

One-line silent install (x64, user scope)

PyMOL-3.1.8-Windows-x86_64.exe /S /InstallationType=JustMe

See the full silent install reference for PyMOL →

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Installers · v3.1.8

Architecture	Type	Scope	Install	Download
x64	EXE NSIS	user		Direct
x64	EXE NSIS	machine		Direct

Copy a command tailored to that specific architecture, type, and scope - useful when winget would otherwise pick a different default.

Security

No known CVEs for PyMOL.

Coverage is best-effort and depends on a winget package mapping to an NVD CPE entry. Absence here is not a guarantee of safety.

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More from Schrodinger, Inc. or browse anaconda, atom, bioinformatics.

Frequently asked questions

How do I install PyMOL on Windows?

Open Windows Terminal, PowerShell, or Command Prompt and run: winget install --id Schrodinger.PyMOL --exact --version 3.1.8. winget downloads the installer from Schrodinger, Inc. and runs it. Requires Windows 10 (1809+) or Windows 11.

How do I install PyMOL silently for unattended deployment?

Add --silent and accept the agreements upfront: winget install --id Schrodinger.PyMOL --exact 3.1.8 --silent --accept-package-agreements --accept-source-agreements. This is the variant Intune, Configuration Manager, and other deployment tools should use.

What are the silent install switches for PyMOL?

PyMOL uses EXE (NSIS). Run the downloaded installer with: PyMOL-3.1.8-Windows-x86_64.exe /S /InstallationType=JustMe. The silent switches are /S.

How do I uninstall PyMOL via winget?

Run: winget uninstall --id Schrodinger.PyMOL --exact. Add --silent for unattended uninstalls. winget will use the registered uninstaller from PyMOL's Apps & Features entry.

Is PyMOL free?

PyMOL is distributed under Proprietary. Refer to the publisher (https://pymol.org/) for the full license terms - Wingetly itself does not charge for installation.

Does PyMOL work on Windows 10?

Yes, as long as your Windows 10 build supports winget (1809 or newer). winget ships with App Installer on Windows 10/11 and pulls PyMOL directly from the publisher.

How do I keep PyMOL up to date?

Run winget upgrade --id Schrodinger.PyMOL --exact, or winget upgrade --all to update everything winget tracks. We index 10 versions of PyMOL from microsoft/winget-pkgs.

Recent versions

3.1.8latest
3.1.7.2
3.1.6.1
3.1.6
3.1.5.1
3.1.4.1
3.1.4
3.1.3.1
2.5.7
2.5.5