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JAutodoc is an Eclipse Plugin for automatically adding Javadoc and file headers to your source code. It is possible to define Velocity templates for Javadoc and file headers.
Wiki: https://github.com/mkesting/jautodoc/wiki
Source Code: https://github.com/mkesting/jautodoc/
Update Site: https://dl.bintray.com/mkesting/jautodoc/update/latest/
Literate Eclipse Programming assists developers in writing structured, well documented source code. LEP integrates automated extraction of source code and documentation into a familiar eclipse environment. Compiling and debugging are fully supported.
JS/UML is a plugin for the Eclipse IDE that reverse-engineers JavaScript code to a UML model which can then be used to generate documentation and other artifacts.
ObjectBuilder is a C++ CASE tool (CASE, refactoring, documentation generator). It lets you create, manipulate and navigate classes, class relations, class members and class methods at a high level of abstraction.
DocBook sml maintains multilingual documentations, generates fully automated artifacts(html,pdf,xml,txt), uses DocBook XSL,Saxon,Xalan,FOP,Lynx, is driven by Ant,Yax, supports Computer Aided Translation and runs standalone or in an IDE like Eclipse.
Sheets is a development environment for editing Object Oriented Languages written in Java. Rather than dealing with text and files, Sheets is based on the concepts of "Sheets" and "Fragments" which encapsulate your source code.
The Docbook Plugin for Eclipse will allow generating documents within Eclipse IDE environment to various file formats that docbook supports using docbook xsl. Possible future enhancements could include support for docbook dsssl and apache's FOP support.
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BibTeXlipse is an Eclipse plugin for managing and analyse bibliography databases. Mainly for BibTeX databases, but will import and export many other bibliographic formats.
It's currently in planning phase.