We have recently completed a full rearchitecturing of the Rosetta molecular modeling
program, generalizing and expanding its existing functionality. The new architecture enables
the rapid prototyping of novel protocols by providing easy-to-use interfaces to powerful tools
for molecular modeling. The source code of this rearchitecturing has been released as
Rosetta 3 and is freely available for academic use. At the time of its release, it contained
470,000 lines of code. Counting currently unpublished protocols at the time of this writing …