Although Rosetta is famous for its de novo prediction protocol, it did provide comparative modeling package with the Rosetta 3.1 bundle but without any documentation. It is obvious that one should provide alignment file for making Rosetta-CM work. In its code, it seems to only accept one of the two alignment formats: grishin or general.
So my question is what is "grishin" or "general" alignment formats, and how to obtain such files? It is easy to guess that "grishin" refers to Dr. Grishin at SWMED. But his web provides so many softwares...