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cyclic_peptide.OptionKeys.gen.hh File Reference

basic::options::OptionKeys collection More...

#include <basic/options/keys/OptionKeys.hh>

Namespaces

 basic
 Tags used to tag messeges sent by MPI functions used to decide whether a slave is requesting a new job id or flagging as job as being a bad input.
 
 basic::options
 
 basic::options::OptionKeys
 
 basic::options::OptionKeys::cyclic_peptide
 

Variables

BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::cyclic_peptide
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::cyclization_type
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_chainbreak_energy
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::rand_checkpoint_file
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::checkpoint_file
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::checkpoint_job_identifier
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::exclude_residues_from_rms
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::default_rama_sampling_table
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::rama_sampling_table_by_res
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::sequence_file
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::genkic_closure_attempts
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::genkic_min_solution_count
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::cyclic_permutations
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_rama_filter
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::rama_cutoff
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::high_hbond_weight_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::min_genkic_hbonds
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::min_final_hbonds
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::total_energy_cutoff
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::hbond_energy_cutoff
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::do_not_count_adjacent_res_hbonds
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::fast_relax_rounds
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::count_sc_hbonds
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::require_disulfides
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::disulf_cutoff_prerelax
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::disulf_cutoff_postrelax
 
RealVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::user_set_alpha_dihedrals
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::user_set_alpha_dihedral_perturbation
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::bondlength_perturbation_magnitude
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::bondangle_perturbation_magnitude
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::filter_oversaturated_hbond_acceptors
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::hbond_acceptor_energy_cutoff
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::sample_cis_pro_frequency
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::design_peptide
 
FileOptionKey const basic::options::OptionKeys::cyclic_peptide::allowed_residues_by_position
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::prohibit_D_at_negative_phi
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::prohibit_L_at_positive_phi
 
FileOptionKey const basic::options::OptionKeys::cyclic_peptide::L_alpha_comp_file
 
FileOptionKey const basic::options::OptionKeys::cyclic_peptide::D_alpha_comp_file
 
FileOptionKey const basic::options::OptionKeys::cyclic_peptide::L_beta_comp_file
 
FileOptionKey const basic::options::OptionKeys::cyclic_peptide::D_beta_comp_file
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::angle_relax_rounds
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::angle_length_relax_rounds
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::cartesian_relax_rounds
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_classic_rama_for_sampling
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::n_methyl_positions
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::lariat_sidechain_index
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::sidechain_isopeptide_indices
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::paraBBMB_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_paraBBMB_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::paraBBMB_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::paraBBMB_constraints_energy_filter_multiplier
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::link_all_cys_with_paraBBMB
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::TBMB_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_TBMB_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::TBMB_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::TBMB_constraints_energy_filter_multiplier
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::link_all_cys_with_TBMB
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::TMA_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_TMA_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::TMA_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::TMA_constraints_energy_filter_multiplier
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::square_pyramidal_metal_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_square_pyramidal_metal_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::square_pyramidal_metal_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::square_pyramidal_metal_constraints_energy_filter_multiplier
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::square_planar_metal_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_square_planar_metal_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::square_planar_metal_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::square_planar_metal_constraints_energy_filter_multiplier
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::trigonal_pyramidal_metal_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_trigonal_pyramidal_metal_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::trigonal_pyramidal_metal_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::trigonal_pyramidal_metal_constraints_energy_filter_multiplier
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::trigonal_planar_metal_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_trigonal_planar_metal_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::trigonal_planar_metal_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::trigonal_planar_metal_constraints_energy_filter_multiplier
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::tetrahedral_metal_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_tetrahedral_metal_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::tetrahedral_metal_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::tetrahedral_metal_constraints_energy_filter_multiplier
 
StringVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::octahedral_metal_positions
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::use_octahedral_metal_filters
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::octahedral_metal_sidechain_distance_filter_multiplier
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::octahedral_metal_constraints_energy_filter_multiplier
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::require_symmetry_repeats
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::require_symmetry_mirroring
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::require_symmetry_angle_threshold
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::require_symmetry_perturbation
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_auto_2level_distribution
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_processes_by_level
 
IntegerVectorOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_batchsize_by_level
 
StringOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_sort_by
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_choose_highest
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_output_fraction
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_stop_after_time
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_pnear_lambda
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::MPI_pnear_kbt
 
IntegerOptionKey const basic::options::OptionKeys::cyclic_peptide::threads_per_worker
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::compute_rmsd_to_lowest
 
RealOptionKey const basic::options::OptionKeys::cyclic_peptide::compute_pnear_to_this_fract
 
BooleanOptionKey const basic::options::OptionKeys::cyclic_peptide::compute_ensemble_sasa_metrics
 

Detailed Description

basic::options::OptionKeys collection

Author
Stuart G. Mentzer (Stuar.nosp@m.t_Me.nosp@m.ntzer.nosp@m.@obj.nosp@m.exx.c.nosp@m.om)
James M. Thompson (tex@u.nosp@m..was.nosp@m.hingt.nosp@m.on.e.nosp@m.du)