|Rosetta 3.1 Release Manual|
Relax application available at rosetta_source/src/apps/public/relax. The name of the application is relax.cc. The programe can invoke a fast mode which can be 5-10 times more efficient than the normal relax mode. You can find the executable of this application in rosetta_source/bin after a successful compilation.
relax.linuxgccrelease @flags > relax.log
-database Path to Rosetta databases. [PathVector] -s Input file paths and name. [FileVector] -relax:fast Invokes a fast mode, which is almost as effective as a normal relax but 5-10 faster (optional) [Boolean]
fa_atr: Lennard-Jones attractive fa_rep: Lennard-Jones repulsive fa_sol: Lazaridis-Karplus solvation energy fa_intra_rep: Lennard-Jones repulsive between atoms in the same residue pro_close: proline ring closure energy fa_pair: statistics based pair term, favors salt bridges hbond_sr_bb: backbone-backbone hbonds close in primary sequence hbond_lr_bb: backbone-backbone hbonds distant in primary sequence hbond_bb_sc: sidechain-backbone hydrogen bond energy hbond_sc: sidechain-sidechain and sidechain-backbone hydrogen bond energy. dslf_ss_dst: distance score in current disulfide dslf_cs_ang: csangles score in current disulfide dslf_ss_dih: dihedral score in current disulfide dslf_ca_dih: ca dihedral score in current disulfide rama: ramachandran preferences omega: omega angles fa_dun: internal energy of sidechain rotamers as derived from Dunbrack's statistics. p_aa_p: probability of observing an amino acid, given its phi/psi energy method declaration ref: reference energy for each amino acid total: final score