antibody.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::antibody
	basic::options::OptionKeys::antibody::design

Variables
BooleanOptionKey const	basic::options::OptionKeys::antibody::antibody
StringOptionKey const	basic::options::OptionKeys::antibody::input_ab_scheme
StringOptionKey const	basic::options::OptionKeys::antibody::output_ab_scheme
StringOptionKey const	basic::options::OptionKeys::antibody::cdr_definition
StringOptionKey const	basic::options::OptionKeys::antibody::light_chain
BooleanOptionKey const	basic::options::OptionKeys::antibody::check_cdr_chainbreaks
BooleanOptionKey const	basic::options::OptionKeys::antibody::check_cdr_pep_bond_geom
BooleanOptionKey const	basic::options::OptionKeys::antibody::constrain_cter
BooleanOptionKey const	basic::options::OptionKeys::antibody::auto_generate_kink_constraint
BooleanOptionKey const	basic::options::OptionKeys::antibody::all_atom_mode_kink_constraint
StringOptionKey const	basic::options::OptionKeys::antibody::numbering_scheme
BooleanOptionKey const	basic::options::OptionKeys::antibody::graft_l1
StringOptionKey const	basic::options::OptionKeys::antibody::l1_template
BooleanOptionKey const	basic::options::OptionKeys::antibody::graft_l2
StringOptionKey const	basic::options::OptionKeys::antibody::l2_template
BooleanOptionKey const	basic::options::OptionKeys::antibody::graft_l3
StringOptionKey const	basic::options::OptionKeys::antibody::l3_template
BooleanOptionKey const	basic::options::OptionKeys::antibody::graft_h1
StringOptionKey const	basic::options::OptionKeys::antibody::h1_template
BooleanOptionKey const	basic::options::OptionKeys::antibody::graft_h2
StringOptionKey const	basic::options::OptionKeys::antibody::h2_template
BooleanOptionKey const	basic::options::OptionKeys::antibody::graft_h3
StringOptionKey const	basic::options::OptionKeys::antibody::h3_template
StringOptionKey const	basic::options::OptionKeys::antibody::light_heavy_template
StringOptionKey const	basic::options::OptionKeys::antibody::frl_template
StringOptionKey const	basic::options::OptionKeys::antibody::frh_template
BooleanOptionKey const	basic::options::OptionKeys::antibody::run_snugdock
BooleanOptionKey const	basic::options::OptionKeys::antibody::h3_no_stem_graft
BooleanOptionKey const	basic::options::OptionKeys::antibody::packonly_after_graft
BooleanOptionKey const	basic::options::OptionKeys::antibody::stem_optimize
IntegerOptionKey const	basic::options::OptionKeys::antibody::stem_optimize_size
StringOptionKey const	basic::options::OptionKeys::antibody::preprocessing_script_version
BooleanOptionKey const	basic::options::OptionKeys::antibody::model_h3
BooleanOptionKey const	basic::options::OptionKeys::antibody::snugfit
BooleanOptionKey const	basic::options::OptionKeys::antibody::refine_h3
BooleanOptionKey const	basic::options::OptionKeys::antibody::h3_filter
RealOptionKey const	basic::options::OptionKeys::antibody::h3_filter_tolerance
BooleanOptionKey const	basic::options::OptionKeys::antibody::sc_min
BooleanOptionKey const	basic::options::OptionKeys::antibody::rt_min
BooleanOptionKey const	basic::options::OptionKeys::antibody::extend_h3_before_modeling
StringOptionKey const	basic::options::OptionKeys::antibody::centroid_refine
BooleanOptionKey const	basic::options::OptionKeys::antibody::h3_loop_csts_lr
BooleanOptionKey const	basic::options::OptionKeys::antibody::h3_loop_csts_hr
BooleanOptionKey const	basic::options::OptionKeys::antibody::auto_generate_h3_kink_constraint
BooleanOptionKey const	basic::options::OptionKeys::antibody::constrain_vlvh_qq
BooleanOptionKey const	basic::options::OptionKeys::antibody::snug_loops
FileOptionKey const	basic::options::OptionKeys::antibody::input_fv
BooleanOptionKey const	basic::options::OptionKeys::antibody::camelid
BooleanOptionKey const	basic::options::OptionKeys::antibody::camelid_constraints
BooleanOptionKey const	basic::options::OptionKeys::antibody::use_mean_cluster_cst_data
BooleanOptionKey const	basic::options::OptionKeys::antibody::force_use_of_cluster_csts_with_outliers
IntegerOptionKey const	basic::options::OptionKeys::antibody::cluster_csts_stats_cutoff
RealOptionKey const	basic::options::OptionKeys::antibody::general_dihedral_cst_phi_sd
RealOptionKey const	basic::options::OptionKeys::antibody::general_dihedral_cst_psi_sd
BooleanOptionKey const	basic::options::OptionKeys::antibody::allow_omega_mismatches_for_north_clusters
StringOptionKey const	basic::options::OptionKeys::antibody::prefix
StringOptionKey const	basic::options::OptionKeys::antibody::grafting_database
StringOptionKey const	basic::options::OptionKeys::antibody::blastp
StringVectorOptionKey const	basic::options::OptionKeys::antibody::exclude_pdbs
BooleanOptionKey const	basic::options::OptionKeys::antibody::exclude_homologs
RealOptionKey const	basic::options::OptionKeys::antibody::exclude_homologs_cdr_cutoff
RealOptionKey const	basic::options::OptionKeys::antibody::exclude_homologs_fr_cutoff
RealOptionKey const	basic::options::OptionKeys::antibody::ocd_cutoff
RealOptionKey const	basic::options::OptionKeys::antibody::bfactor_cutoff
IntegerOptionKey const	basic::options::OptionKeys::antibody::n_multi_templates
StringOptionKey const	basic::options::OptionKeys::antibody::json_cdr
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::design
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::view
StringOptionKey const	basic::options::OptionKeys::antibody::design::base_cdr_instructions
StringOptionKey const	basic::options::OptionKeys::antibody::design::cdr_instructions
StringOptionKey const	basic::options::OptionKeys::antibody::design::antibody_database
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::paper_ab_db
StringOptionKey const	basic::options::OptionKeys::antibody::design::paper_ab_db_path
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::seq_design_cdrs
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::graft_design_cdrs
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::primary_cdrs
StringOptionKey const	basic::options::OptionKeys::antibody::design::mintype
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::disallow_aa
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::top_designs
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::high_mem_mode
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::cdr_set_cache_limit
StringOptionKey const	basic::options::OptionKeys::antibody::design::design_protocol
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::run_relax
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::run_interface_analyzer
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::paratope
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::epitope
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::use_epitope_constraints
RealOptionKey const	basic::options::OptionKeys::antibody::design::dihedral_cst_weight
RealOptionKey const	basic::options::OptionKeys::antibody::design::atom_pair_cst_weight
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::global_dihedral_cst_scoring
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::global_atom_pair_cst_scoring
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::do_dock
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::dock_first_cycles
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::dock_second_cycles
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::outer_cycle_rounds
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::inner_cycle_rounds
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::dock_cycle_rounds
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::relax_cycle_rounds
RealOptionKey const	basic::options::OptionKeys::antibody::design::interface_dis
RealOptionKey const	basic::options::OptionKeys::antibody::design::neighbor_dis
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::use_outliers
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::use_H3_graft_outliers
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::use_only_H3_kinked
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::design_antigen
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::design_framework
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::conservative_framework_design
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::design_H3_stem
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::design_proline
RealOptionKey const	basic::options::OptionKeys::antibody::design::sample_zero_probs_at
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::force_mutate_framework_for_cluster
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::no_profile_probabilities
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::seq_design_stats_cutoff
IntegerOptionKey const	basic::options::OptionKeys::antibody::design::seq_design_profile_samples
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::idealize_graft_cdrs
StringVectorOptionKey const	basic::options::OptionKeys::antibody::design::add_backrub_pivots
RealOptionKey const	basic::options::OptionKeys::antibody::design::inner_kt
RealOptionKey const	basic::options::OptionKeys::antibody::design::outer_kt
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::random_start
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::adapt_graft
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::enable_adapt_graft_cartesian
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::remove_antigen
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::add_graft_log_to_pdb
BooleanOptionKey const	basic::options::OptionKeys::antibody::design::mutate_framework_for_cluster

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)