Compare PyMOL vs. Sonatype Vulnerability Scanner in 2025

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Description

PyMOL is a molecular visualization system that operates on a user-sponsored, open-source basis, with oversight and distribution managed by Schrödinger. The PyQt interface has replaced Tcl/Tk and MacPyMOL across all platforms, enhancing the user experience significantly. This software offers improved support for third-party plugins and custom scripting, making it a comprehensive tool for rendering and animating three-dimensional structures. Additionally, it includes a plug-in that allows users to incorporate 3D images and animations directly into PowerPoint presentations. Although PyMOL is a commercial product, the majority of its source code is accessible for free under a permissive license. This open-source initiative is sustained by Schrödinger and primarily funded through the sales of PyMOL licenses. Users benefit from open access to executables and a flexible evaluation policy. Recent updates feature an improved fuse command that prevents hypervalent bonds and replaces them with monovalent atoms instead, along with a properties inspector that now allows users to unset settings using the “delete” key. Furthermore, issues regarding the workspace disappearing at certain display resolutions have also been resolved, contributing to a more seamless experience for users.

Description

Sonatype’s Vulnerability Scanner provides deep visibility into the security and compliance of open-source components used in your applications. By generating a Software Bill of Materials (SBOM) and performing detailed risk analysis, it highlights potential vulnerabilities, license violations, and security threats associated with your software. The scanner offers automated scans, helping developers identify risks early and make informed decisions to mitigate security issues. With comprehensive reporting and actionable recommendations, it empowers teams to manage open-source dependencies securely and efficiently.