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basic::options::OptionKeys::optE Namespace Reference

Namespaces

 rescore
 

Variables

BooleanOptionKey const optE
 
StringOptionKey const load_from_silent
 
StringOptionKey const data_in
 
StringOptionKey const data_out
 
StringOptionKey const weights
 
StringVectorOptionKey const fix
 
FileOptionKey const free
 
FileOptionKey const fixed
 
FileOptionKey const parse_tagfile
 
FileOptionKey const constant_logic_taskops_file
 
BooleanOptionKey const optE_soft_rep
 
BooleanOptionKey const no_hb_env_dependence
 
BooleanOptionKey const no_hb_env_dependence_DNA
 
BooleanOptionKey const optE_no_protein_fa_elec
 
BooleanOptionKey const include_intra_res_protein
 
BooleanOptionKey const centroid_rot
 
BooleanOptionKey const centroid_rot_min
 
BooleanOptionKey const design_first
 
IntegerOptionKey const n_design_cycles
 
BooleanOptionKey const recover_nat_rot
 
FileOptionKey const component_weights
 
BooleanOptionKey const optimize_nat_aa
 
BooleanOptionKey const optimize_nat_rot
 
FileOptionKey const optimize_ligand_rot
 
BooleanOptionKey const optimize_pssm
 
FileOptionKey const optimize_dGbinding
 
FileOptionKey const optimize_ddG_bind_correlation
 
FileOptionKey const optimize_ddGmutation
 
BooleanOptionKey const optimize_ddGmutation_straight_mean
 
BooleanOptionKey const optimize_ddGmutation_boltzman_average
 
RealOptionKey const exclude_badrep_ddGs
 
BooleanOptionKey const pretend_no_ddG_repulsion
 
FileOptionKey const optimize_decoy_discrimination
 
StringOptionKey const normalize_decoy_score_spread
 
BooleanOptionKey const ramp_nativeness
 
IntegerOptionKey const n_top_natives_to_optimize
 
RealOptionKey const approximate_decoy_entropy
 
BooleanOptionKey const repack_and_minimize_decoys
 
BooleanOptionKey const repack_and_minimize_input_structures
 
IntegerOptionKey const output_top_n_new_decoys
 
FileOptionKey const optimize_ligand_discrimination
 
BooleanOptionKey const no_design
 
BooleanOptionKey const sqrt_pssm
 
RealOptionKey const min_decoy_rms_to_native
 
RealOptionKey const max_rms_from_native
 
BooleanOptionKey const optimize_starting_free_weights
 
FileOptionKey const wrap_dof_optimization
 
RealOptionKey const randomly_perturb_starting_free_weights
 
RealOptionKey const inv_kT_natrot
 
RealOptionKey const inv_kT_nataa
 
RealOptionKey const inv_kT_natstruct
 
BooleanOptionKey const mpi_weight_minimization
 
BooleanOptionKey const dont_use_reference_energies
 
IntegerOptionKey const number_of_swarm_particles
 
IntegerOptionKey const number_of_swarm_cycles
 
FileOptionKey const constrain_weights
 
BooleanOptionKey const fit_reference_energies_to_aa_profile_recovery
 
FileOptionKey const starting_refEs
 
BooleanOptionKey const repeat_swarm_optimization_until_fitness_improves
 
BooleanOptionKey const design_with_minpack
 
BooleanOptionKey const design_with_fast_design
 
BooleanOptionKey const design_with_offrotpack
 
BooleanOptionKey const limit_bad_scores
 
BooleanOptionKey const no_design_pdb_output
 

Variable Documentation

RealOptionKey const basic::options::OptionKeys::optE::approximate_decoy_entropy

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::centroid_rot

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::centroid_rot_min

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::component_weights

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::constant_logic_taskops_file

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::constrain_weights

Referenced by add_rosetta_options_11().

StringOptionKey const basic::options::OptionKeys::optE::data_in

Referenced by add_rosetta_options_11().

StringOptionKey const basic::options::OptionKeys::optE::data_out

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::design_first

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::design_with_fast_design

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::design_with_minpack

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::design_with_offrotpack

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::dont_use_reference_energies

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::exclude_badrep_ddGs

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::fit_reference_energies_to_aa_profile_recovery

Referenced by add_rosetta_options_11().

StringVectorOptionKey const basic::options::OptionKeys::optE::fix
FileOptionKey const basic::options::OptionKeys::optE::fixed
FileOptionKey const basic::options::OptionKeys::optE::free

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::include_intra_res_protein

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::inv_kT_nataa

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::inv_kT_natrot

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::inv_kT_natstruct

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::limit_bad_scores

Referenced by add_rosetta_options_11().

StringOptionKey const basic::options::OptionKeys::optE::load_from_silent

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::max_rms_from_native

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::min_decoy_rms_to_native

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::mpi_weight_minimization

Referenced by add_rosetta_options_11().

IntegerOptionKey const basic::options::OptionKeys::optE::n_design_cycles

Referenced by add_rosetta_options_11().

IntegerOptionKey const basic::options::OptionKeys::optE::n_top_natives_to_optimize

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::no_design

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::no_design_pdb_output

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::no_hb_env_dependence

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::no_hb_env_dependence_DNA

Referenced by add_rosetta_options_11().

StringOptionKey const basic::options::OptionKeys::optE::normalize_decoy_score_spread

Referenced by add_rosetta_options_11().

IntegerOptionKey const basic::options::OptionKeys::optE::number_of_swarm_cycles

Referenced by add_rosetta_options_11().

IntegerOptionKey const basic::options::OptionKeys::optE::number_of_swarm_particles

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optE

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optE_no_protein_fa_elec

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optE_soft_rep

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::optimize_ddG_bind_correlation

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::optimize_ddGmutation

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optimize_ddGmutation_boltzman_average

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optimize_ddGmutation_straight_mean

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::optimize_decoy_discrimination

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::optimize_dGbinding

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::optimize_ligand_discrimination

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::optimize_ligand_rot

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optimize_nat_aa

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optimize_nat_rot

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optimize_pssm

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::optimize_starting_free_weights

Referenced by add_rosetta_options_11().

IntegerOptionKey const basic::options::OptionKeys::optE::output_top_n_new_decoys

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::parse_tagfile

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::pretend_no_ddG_repulsion

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::ramp_nativeness

Referenced by add_rosetta_options_11().

RealOptionKey const basic::options::OptionKeys::optE::randomly_perturb_starting_free_weights

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::recover_nat_rot

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::repack_and_minimize_decoys

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::repack_and_minimize_input_structures

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::repeat_swarm_optimization_until_fitness_improves

Referenced by add_rosetta_options_11().

BooleanOptionKey const basic::options::OptionKeys::optE::sqrt_pssm

Referenced by add_rosetta_options_11().

FileOptionKey const basic::options::OptionKeys::optE::starting_refEs

Referenced by add_rosetta_options_11().

StringOptionKey const basic::options::OptionKeys::optE::weights
FileOptionKey const basic::options::OptionKeys::optE::wrap_dof_optimization

Referenced by add_rosetta_options_11().