Does the PAUP* plugin work with the new alpha version?

The Geneious PAUP* plugin ( provides an interface for running PAUP* but you must obtain your own copy of the PAUP* program.  

The plugin works with commercial releases of PAUP* up to and including version PAUP* 4.0b10, which used to be available from Sinnauer Associates.  It also works with the new alpha "test version" command line binaries, available from  You must be using version PAUP*4.0a149 or above, with the plugin version 1.3.1 or above.  



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    Sam Williams

    Will the PAUP plugin eventually be available on the PAUP* alpha version. As those who do not have a old PAUP subscription can no longer get them and without PAUP there is no was off constructing parsimony trees through geneious.

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    Moreland Gibbs

    We are not planning to revise the plugin to be compatible with the alpha version, as this is a time-limited stop-gap release that the author is providing until new distribution arrangements are made for the commercial version of the software.

     As of April 2016 PAUP* Plugin 1.3.0 is compatible with PAUP*  4.0a148 for Windows and OSX.