I am new to Rosetta 3 and trying to do some homology modeling of my mutated protein to a known template PDB. I have been using the minirosetta script with accompanying flags file. It appears to function correctly, though some errors pop up regarding debuging the fragment files generated by Robetta. Unfortunately, the output files only inlcude the threaded_model.out and threaded_model.fasc. There is no PDB file available for viewing in PyMol to determine the quality of the structure prediciton. I have attached a screen shot of the final information following the running of minirosetta and the flags file used. Please any help regarding this matter would be appreciated.