I got a problem when I tried extracting pdb from silent file in the tutorial in Abinitio Modeling (http://www.rosettacommons.org/manuals/archive/rosetta3.2_user_guide/app_...). Actually I got nothing when I tried that command to exact pdb out. And there is no error message coming out, which I thought is very strange.
I've already solved the problem but I want to report the several opinions that are used in the manual are wrong:
The original one is:
-database ../rosetta_database \
-in:file:silent 1l2y_silent.out \
but the opinion "-output" should be "-out:output", or you may also want add opinion "-out:pdb".