The developers guide contains instructions for compiling the command-line alignment software for both Windows and unix-like systems.

The Mauve graphical interface is written in Java and can be compiled on any system with an installed Java Development Kit.

Windows releases are packaged with the Nullsoft Scriptable Installer System to produce an installer binary.

Source code 

 The Mauve source code is licensed freely under the GNU General Public License (GPL).
Mauve source code snapshots are produced on a nightly basis and can be downloaded here: http://gel.ahabs.wisc.edu/mauve/source/snapshots
We also maintain a subversion repository of all source code.

API documentation 

 API documentation is automatically generated nightly from our subversion repository . Thus, the online API documentation reflects the latest snapshot release and may differ slightly from the most recent official source code release. Browse the online API documentation
 

Alternatively, the API documentation can be generated by running the command

doxygen projects/[doxyfile]