InFilePrefix /projects/compbio/experiments/undertaker/atoms-inputs/ ReadTrainingAtoms dunbrack-2191.atoms ReadRotamerLibrary dunbrack-2191.rot InFilePrefix /projects/compbio/experiments/undertaker/spots/ ReadAtomType exp-pdb.types ReadClashTable exp-pdb-2191-2symm.clash SetClashDefinition exp-pdb-2191-2symm InFilePrefix /projects/compbio/experiments/protein-predict/casp7/T0307/ ReadTargetSeq T0307.a2m 1 InFilePrefix /projects/compbio/experiments/protein-predict/casp7/T0307/ #Include /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0307/manyalignments-good-all.under InFilePrefix /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0307/ Include servers-clean.under ExtractAlignmentsContacts 8 all.constraints none metaserver OptimizeConstraints all.constraints align.constraints rejected.constraints noncontact.constraints probabilities.dat PrintContacts align.constraints align.constraints_meta01 PrintContacts align.constraints.bonus align_bonus.constraints_meta01 PrintContacts rejected.constraints rejected.constraints_meta01 PrintContacts rejected.constraints.bonus rejected_bonus.constraints_meta01 PrintContacts noncontact.constraints non_contacts.constraints_meta01 PrintContacts noncontact.constraints.bonus non_contacts_bonus.constraints_meta01 PrintContacts all.constraints all.constraints_meta01 quit