Member Site Forums Rosetta 3 Rosetta 3 – General make_fragments Reply To: make_fragments


    No clue, but this older thread describes running make_fragments in kind of a bare-bones mode. By turning off most of the SS predictors you can get results immediately instead of hammering on all the weird secondary libraries the perl script wants:

    Messing with is fine for some fragment purposes. If you are doing abinitio, running the full might be important because of the intensive SS prediction. If you just need fragments for loop modeling, it doesn’t really matter (they’re used for sampling and get overwritten as the loop closes). (I don’t do abinitio so I’m not sure, but I do loops all the time and I’ve never cared how good the fragments were, it’s all loop anyway!)