I have two queries regarding ab initio structure prediction with cs-rosetta using rosetta-3.1:
a) For one of the runs while using the script extract_pdb3.com default.out I get the error core.io.silent: ERROR: did not find coordinates for all sequence positions for empty_tag
and only one pdb is generated. The program is still running though.
b) I am running an abinitio structure prediction calculation with rosetta 3.1. I have generated the fragment files from the robetta server. However, on running the command I get the error 'ore.fragments.ConstantLengthFragSet: line too short: Skipping line ' a number of times and the program stops running.
Any help regarding these two problems will be highly appreciated.
Thanks in advance,