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See wikipedia:Doxygen for a high-level description of Doxygen.

Installing

Configuring

Doxygen didn't need any special configure options the way I installed it:

#!/bin/sh

./configure \
 --prefix=/path/to/doxygen

Prerequisites

Doxygen uses "dot", part of Graphviz visualization software, for producing diagrams. This software has a binary installer for common platforms, and is open-source. "dot" should be installed and available on the path, so when you type $ which dot you should see a location returned. Typically it's located in /usr/local/bin/dot.