Rosetta 3.2 Release Manual

Structural Refinement Options

Here is a list of options for structual refinement of a monomeric protein.

-relax:fast                            Do fast repacks only. default='false' [Boolean]
-relax:fastrelax_start_weight_low      Lowerbound on start weight. default='0.02' [Real]
-relax:fastrelax_start_weight_hi       Higherbound on start weight. default='0.02' [Real]
-relax:bb_move			                   Allow backbone to move during relax. default='true' [Boolean]
-relax:chi_move			                   Allow sidechain to move during relax. default='true' [Boolean]
-relax:jump_move                       Allow jump to move during relax. default='false' [Boolean]
-relax:stage1_ramp_cycles              Ramp cyclesin stage 1. default='8' [Integer]
-relax:stage1_ramp_inner_cycles        Inner cycles means how many small shear moves + rottrials. default='1' [Integer]
-relax:stage2_cycles                   How many stage 2 cycles. (by default its -1 means Nresidues*4 ). default='-1' [Integer]
-relax:stage2_repack_period            Full repack after how many cycles in stage 2. default='100' [Integer]
-relax:stage3_cycles                   How many stage 3 cycles. (by default its -1 means Nresidues ). default='-1' . [Integer]
-relax:fastrelax_postrelax             Do normal move+rotrial+mc moves after initial repacks. [Boolean]
-relax:fastrelax_rampcycles            Default='5' [Integer]
-relax:fastrelax_repeats               Default='3' [Integer]
-relax:fastrelax_startover             Start from scratch when doing multiple packs in fast relax every this many repeats.
                                       default='0' [Integer]
-relax:filter_stage2_beginning         FArelax score filter. default='99999999.00' [Real]
-relax:filter_stage2_quarter           FArelax score filter. default='99999999.00' [Real]
-relax:filter_stage2_half              FArelax score filter. default='99999999.00' [Real]
-relax:filter_stage2_end               FArelax score filter. default='99999999.00' [Real]
-relax:min_tolerance                   Minimizer tolerance. default='0.00025' [Real]
-relax:energycut                       Rottrial energycut (per residue!). default='0.01' [Real]
-relax:ramp_constraints                Ramp constraints during phase1 of relax from full to zero. [Boolean]

Generated on Wed Feb 16 16:04:27 2011 for Rosetta Projects by  doxygen 1.5.9

© Copyright Rosetta Commons Member Institutions. For more information, see http://www.rosettacommons.org.