- the XMLTask extension for Ant, that provides easy and powerful editing of XML files. This should make configuring things like web.xml and struts-config.xml a lot easier. It even provides a way to uncomment blocks of XML markup.
- SchemaSpy, which generates database documentation (including ER diagrams!) from JDBC metadata. The tool also also comes with profiles for interpreting some vendor-specific metadata. It will be interesting to see how it handles spatial datatypes in Oracle and PostGIS...
- using Doxygen to generate documentation for Java source. Doxygen provides more capabilities than Javadoc, including UML diagrams and a variety of output document formats.
- UMLGraph also allows generating UML diagrams from Java source, and embedding them directly in Javadoc.
For graph visualization, SchemaSpy, Doxygen and UMLGraph all use the GraphViz application. This looks like a great tool in its own right. It provides a DSL for specifying graph structures and node and edge symbology, along with a layout and rendering engine which outputs to numerous different formats.
JPT of course covers all the better-known tools such as Ant, Maven, CVS, SVN, JUnit, Bugzilla, Trac, and many others. It doesn`t replace the documentation for these tools, but it does give a good comparative overview and enough details to help you decide which ones you`re going to strap around your waist for the next project.