Jmol is a Free, Open Source molecule viewer and editor. It is a collaboratively developed visualization and measurement tool for chemical scientists. Jmol is an active project, and there are new features being added to it on a daily basis. Users are encouraged to modify it to fit their needs and to contribute their changes to the project.
joeq is a Java 2 (JDK 1.3 and 1.4) compatible virtual machine. It is unique in that it is entirely implemented in Java, leading to greater reliability, portability, maintainability, and efficiency. It is also language-independent, so code from any supported language can be seamlessly compiled, linked, and executed dynamically.
OpenIsis provides a library and tools to access CDS/ISIS databases, which are mostly used for bibliographic data (ISO2709, Z39.50) but also well suited for other catalogues due to the very flexible indexing mechanism. Based on a C library, there are also bindings for Perl and Java (Tcl to come).
Lucane is a free groupware platform written in Java, designed with extensibility in mind. Some applications are bundled with the platform, like a peer to peer quick message service, client/server and peer to peer file sharing, shared drawing, multi-user chat, audioconf, forums, a shared calendar, and more. The platform as a whole provides easy development for your networked applications with an object based network protocol, client/server and peer to peer integration, user and groups management, internationalization, and more.