Apache Jakarta Regexp is a 100% pure Java regular expression package. Expression syntax supports all of Perl5 syntax, with the exception of back reference substitution markers (several people have mentioned this lack, so please feel free to contribute a solution). It also supports a very limited subset of POSIX features. Performance and features are somewhat inferior to ORO, and the new JDK 1.4 (java.util.regex) package, but the package is especially small and features the ability to precompile expressions (without using object serialization) into byte arrays, thus avoiding the need to load the expression compiler.
db4o is an object database for Java and all .NET environments. Its features include ACID transactions, automatic class schema recognition, query-by-example, a S.O.D.A. object querying API, native queries, LINQ support on .NET, callback methods, memory files, cascade-on-delete, multi-threaded access, and Java Webstart and servlet support.
DocWiz allows you to easily add JavaDoc comments to your Java source code. With DocWiz, there's no need to tediously hand-format JavaDoc comments, adding tags and comment structures for each method. DocWiz provides a list of all the fields, methods, interfaces, and classes defined in a Java source file. You can click on any of these code elements to display a fill-in form for information about code elements. In addition, DocWiz shows you an icon for uncommented code segments.
EJBWizard is a GUI Java app that allows you to fill in forms to create the prototype code for an Enterprise Java Bean. All 4 types of EJBs are supported, and if you have an existing database connection in your JOnAS server, it will allow you to log in to the DBMS and pull field definitions into the bean-generating process.
FreeMarker is a template engine that was originally designed so that servlet-based applications could keep graphical design separate from application logic. The templates provide an easy and highly flexible way to generate any kind of text output (HTML, PostScript, TeX, source code, etc.) from a variety of data sources such as Java objects, Jython objects, XML object models, and more.
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.
JODE is a Java package containing a decompiler and an optimizer. The decompiler takes class files as input and produces something similar to the original Java file, and the optimizer transforms class files in various ways with can be controlled by a script file. It supports the following operations: Renaming class, method, field and local names to shorter or unique names or according to a given translation table, removing debugging information, removing dead code (classes, fields, methods) and constant fields, and optimizing local variable allocation.