I wanted to let you know about a bug that I was able to fix. if you use the make_fragments.pl in the /rosetta/tools/fragments/ folder it calls another script install_dependencies.pl it calls an online script update_blastdb.pl which in the install_dependencies.pl is at this url:
it returns a 404 error.
I found the ftp site for this script which look some fumbling around and changed the url in update_dependenccie.pl to:
This seems to make the program run. I don't know if this is correct but I wanted to give a heads up in case you wanted to make this adjustment (or put the correct url in in future updates).