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Cocoon relies on a set of source code formatting conventions in order to extract the information it needs to make the documentation pages. The location of input and output files, lists of libraries to use, and customization options are controlled through a configuration file that is the input to the cocoon utility.
The output of Cocoon is a set of hyper-linked web pages that are organized in a directory structure that is specified in the configuration file. The directory structure can be as simple or complex as you desire. Similarily, the graphic look and feel of the pages can be customized via a wide variety of options that can be specified in the configuration file.