Ujorm is an easy-to-use ORM framework based on key-value objects. The framework was designed for rapid Java development with great performance and a small footprint. The key features are type safe queries, relation mapping by Java code, no entity states, and a memory overloading protection cache.
PathVisio is a bioinformatics tool that lets you do everything with biological pathway diagrams. PathVisio helps you organize biological information and lets you present or publish that information easily. You can create and draw pathways, export them to many image formats, annotate them with links to online biological databases such as Ensembl, Entrez or HMDB, and add comments and literature references from pubmed. PathVisio also lets you sort through high-throughput experimental data in pathway context. This is a much more pleasant way to present data than just a large table. You can import microarray, proteomics or metabolomics data. PathVisio has a plugin interface that lets users customize it to new analysis types, new visualization methods, and new pathway formats. PathVisio is compatible with WikiPathways.
The maven-buildmetadata-plugin is a Maven 2 plugin that helps you easily add build metadata to generated archive artifacts. When a product is running on an application server, this tool can tell you which version of which artifact is currently running on that server, which artifact maps to which source code version in the SCM repository, what configuration set (including profiles and environment variables) has been used to generate the artifact, on which machine was the artifact built, and when was the artifact built. The provided metadata include SCM information, build time, operating system, Java runtime, Maven execution information, build user, build host name, and build version.
BRAP is a Java remoting protocol that uses native Java object serialization encapsulated in HTTP. It aims to be an alternative to Spring HttpInvoker and Spring Security, especially when you don't need or want the dependencies of Spring in your client, such as when building a rich client application where size might be an issue. The authentication mechanism lets you use your own domain objects as credentials. BRAP gives you "pass by reference" even though the object arguments are serialized and passed to the remote service: changes that happen on the remote side can be applied to the client side automatically. BRAP focuses on being easy to use, small in size, yet powerful and extensible.
SPT JCR Manager is a simple Web application used to view and manage Java Content Repositories. The application supports viewing the contents of a repository through a tree view, or through querying (XPath, SQL) or searching the entire repository. It supports CRUD operations on Nodes and properties (all standard types mandated by the specifications are supported).
XMT (XStream Migration Tool) is a library to migrate XStream serialized XML when the associated Java class evolves. XStream is a popular library to serialize a Java object to XML and back again, and XMT enables a smooth migration of this XML with the help of dom4j when you change the class definition of the Java object.