Rosetta  2021.16
 All Classes Namespaces Files Functions Variables Typedefs Enumerations Enumerator Friends Macros Pages
Namespaces | Functions
OptionKeys.cc.gen4.hh File Reference

Namespaces

 loops
 
 loops::ccd
 
 intf
 
 mp
 
 mp::lipids
 
 mp::viewer
 
 mp::visualize
 
 mp::scoring
 
 mp::setup
 
 mp::lipid_acc
 
 mp::transform
 
 mp::assembly
 
 mp::dock
 
 mp::quickrelax
 
 mp::mutate_relax
 
 mp::benchmark
 
 mp::benchmark::ideal_helix
 
 mp::benchmark::tilt_angle
 
 mp::output
 
 membrane
 
 mistakes
 
 mistakes::chemical
 
 MonteCarlo
 
 optimization
 
 orbitals
 
 pose_metrics
 
 pose_metrics::shobuns
 
 rigid
 
 sasa
 
 symmetry
 
 abinitio
 

Functions

StringOptionKey const loops::relax ("loops:relax")
 
BooleanOptionKey const loops::final_clean_fastrelax ("loops:final_clean_fastrelax")
 
BooleanOptionKey const loops::relax_with_foldtree ("loops:relax_with_foldtree")
 
RealOptionKey const loops::constrain_rigid_segments ("loops:constrain_rigid_segments")
 
StringOptionKey const loops::loopscores ("loops:loopscores")
 
BooleanOptionKey const loops::timer ("loops:timer")
 
BooleanOptionKey const loops::vicinity_sampling ("loops:vicinity_sampling")
 
RealOptionKey const loops::vicinity_degree ("loops:vicinity_degree")
 
RealOptionKey const loops::neighbor_dist ("loops:neighbor_dist")
 
IntegerOptionKey const loops::kic_max_seglen ("loops:kic_max_seglen")
 
BooleanOptionKey const loops::kic_recover_last ("loops:kic_recover_last")
 
BooleanOptionKey const loops::kic_min_after_repack ("loops:kic_min_after_repack")
 
BooleanOptionKey const loops::optimize_only_kic_region_sidechains_after_move ("loops:optimize_only_kic_region_sidechains_after_move")
 
IntegerOptionKey const loops::max_kic_build_attempts ("loops:max_kic_build_attempts")
 
IntegerOptionKey const loops::remodel_kic_attempts ("loops:remodel_kic_attempts")
 
IntegerOptionKey const loops::max_kic_perturber_samples ("loops:max_kic_perturber_samples")
 
BooleanOptionKey const loops::nonpivot_torsion_sampling ("loops:nonpivot_torsion_sampling")
 
BooleanOptionKey const loops::fix_ca_bond_angles ("loops:fix_ca_bond_angles")
 
BooleanOptionKey const loops::kic_use_linear_chainbreak ("loops:kic_use_linear_chainbreak")
 
BooleanOptionKey const loops::sample_omega_at_pre_prolines ("loops:sample_omega_at_pre_prolines")
 
BooleanOptionKey const loops::allow_omega_move ("loops:allow_omega_move")
 
BooleanOptionKey const loops::kic_with_cartmin ("loops:kic_with_cartmin")
 
BooleanOptionKey const loops::allow_takeoff_torsion_move ("loops:allow_takeoff_torsion_move")
 
IntegerOptionKey const loops::extend_length ("loops:extend_length")
 
IntegerOptionKey const loops::perturb_outer_cycles ("loops:perturb_outer_cycles")
 
IntegerOptionKey const loops::refine_outer_cycles ("loops:refine_outer_cycles")
 
IntegerOptionKey const loops::max_inner_cycles ("loops:max_inner_cycles")
 
IntegerOptionKey const loops::repack_period ("loops:repack_period")
 
RealOptionKey const loops::remodel_init_temp ("loops:remodel_init_temp")
 
RealOptionKey const loops::remodel_final_temp ("loops:remodel_final_temp")
 
RealOptionKey const loops::refine_init_temp ("loops:refine_init_temp")
 
RealOptionKey const loops::refine_final_temp ("loops:refine_final_temp")
 
IntegerOptionKey const loops::gapspan ("loops:gapspan")
 
IntegerOptionKey const loops::spread ("loops:spread")
 
IntegerOptionKey const loops::kinematic_wrapper_cycles ("loops:kinematic_wrapper_cycles")
 
IntegerOptionKey const loops::kic_num_rotamer_trials ("loops:kic_num_rotamer_trials")
 
BooleanOptionKey const loops::kic_omega_sampling ("loops:kic_omega_sampling")
 
RealOptionKey const loops::kic_bump_overlap_factor ("loops:kic_bump_overlap_factor")
 
IntegerOptionKey const loops::minimize_max_iter ("loops:minimize_max_iter")
 
StringOptionKey const loops::restrict_kic_sampling_to_torsion_string ("loops:restrict_kic_sampling_to_torsion_string")
 
BooleanOptionKey const loops::derive_torsion_string_from_native_pose ("loops:derive_torsion_string_from_native_pose")
 
BooleanOptionKey const loops::always_remodel_full_loop ("loops:always_remodel_full_loop")
 
BooleanOptionKey const loops::taboo_sampling ("loops:taboo_sampling")
 
BooleanOptionKey const loops::taboo_in_fa ("loops:taboo_in_fa")
 
BooleanOptionKey const loops::ramp_fa_rep ("loops:ramp_fa_rep")
 
BooleanOptionKey const loops::ramp_rama ("loops:ramp_rama")
 
BooleanOptionKey const loops::kic_rama2b ("loops:kic_rama2b")
 
BooleanOptionKey const loops::kic_leave_centroid_after_initial_closure ("loops:kic_leave_centroid_after_initial_closure")
 
BooleanOptionKey const loops::legacy_kic ("loops:legacy_kic")
 
BooleanOptionKey const loops::alternative_closure_protocol ("loops:alternative_closure_protocol")
 
RealOptionKey const loops::chainbreak_max_accept ("loops:chainbreak_max_accept")
 
BooleanOptionKey const loops::debug_loop_closure ("loops:debug_loop_closure")
 
BooleanOptionKey const loops::non_ideal_loop_closing ("loops:non_ideal_loop_closing")
 
RealOptionKey const loops::scored_frag_cycles ("loops:scored_frag_cycles")
 
RealOptionKey const loops::short_frag_cycles ("loops:short_frag_cycles")
 
RealOptionKey const loops::rmsd_tol ("loops:rmsd_tol")
 
RealOptionKey const loops::chain_break_tol ("loops:chain_break_tol")
 
BooleanOptionKey const loops::random_loop ("loops:random_loop")
 
FileVectorOptionKey const loops::stealfrags ("loops:stealfrags")
 
IntegerOptionKey const loops::stealfrags_times ("loops:stealfrags_times")
 
RealOptionKey const loops::coord_cst ("loops:coord_cst")
 
RealOptionKey const loops::skip_1mers ("loops:skip_1mers")
 
RealOptionKey const loops::skip_3mers ("loops:skip_3mers")
 
RealOptionKey const loops::skip_9mers ("loops:skip_9mers")
 
BooleanOptionKey const loops::loop_model ("loops:loop_model")
 
RealOptionKey const loops::score_filter_cutoff ("loops:score_filter_cutoff")
 
BooleanOptionKey const loops::ccd_closure ("loops:ccd_closure")
 
BooleanOptionKey const loops::skip_ccd_moves ("loops:skip_ccd_moves")
 
BooleanOptionKey const loops::no_randomize_loop ("loops:no_randomize_loop")
 
BooleanOptionKey const loops::loops_subset ("loops:loops_subset")
 
IntegerOptionKey const loops::num_desired_loops ("loops:num_desired_loops")
 
RealOptionKey const loops::loop_combine_rate ("loops:loop_combine_rate")
 
RealOptionKey const loops::final_score_filter ("loops:final_score_filter")
 
BooleanOptionKey const loops::no_combine_if_fail ("loops:no_combine_if_fail")
 
BooleanOptionKey const loops::shorten_long_terminal_loop ("loops:shorten_long_terminal_loop")
 
IntegerOptionKey const loops::backrub_trials ("loops:backrub_trials")
 
RealOptionKey const loops::looprlx_cycle_ratio ("loops:looprlx_cycle_ratio")
 
RealOptionKey const loops::extended_beta ("loops:extended_beta")
 
BooleanOptionKey const loops::no_looprebuild ("loops:no_looprebuild")
 
BooleanOptionKey const loops::allow_lig_move ("loops:allow_lig_move")
 
FileOptionKey const loops::keep_natro ("loops:keep_natro")
 
IntegerOptionKey const loops::refine_design_iterations ("loops:refine_design_iterations")
 
BooleanOptionKey const loops::ccd::ccd ("loops:ccd")
 
RealOptionKey const loops::ccd::max_rama_score_increase ("loops:ccd:max_rama_score_increase")
 
RealVectorOptionKey const loops::ccd::max_torsion_delta_per_move ("loops:ccd:max_torsion_delta_per_move")
 
RealVectorOptionKey const loops::ccd::max_torsion_delta ("loops:ccd:max_torsion_delta")
 
RealOptionKey const loops::ccd::tolerance ("loops:ccd:tolerance")
 
IntegerOptionKey const loops::ccd::max_cycles ("loops:ccd:max_cycles")
 
BooleanOptionKey const loops::ccd::check_rama_scores ("loops:ccd:check_rama_scores")
 
BooleanOptionKey const loops::ccd::rama_2b ("loops:ccd:rama_2b")
 
RealOptionKey const loops::ccd::temperature ("loops:ccd:temperature")
 
BooleanOptionKey const intf::intf ("intf")
 
StringOptionKey const intf::chains ("intf:chains")
 
BooleanOptionKey const mp::mp ("mp")
 
BooleanOptionKey const mp::restore_lazaridis_imm_behavior ("mp:restore_lazaridis_imm_behavior")
 
RealOptionKey const mp::thickness ("mp:thickness")
 
RealOptionKey const mp::membrane_core ("mp:membrane_core")
 
RealOptionKey const mp::steepness ("mp:steepness")
 
RealVectorOptionKey const mp::center_start ("mp:center_start")
 
RealOptionKey const mp::center_delta ("mp:center_delta")
 
RealOptionKey const mp::center_search_cycles ("mp:center_search_cycles")
 
RealVectorOptionKey const mp::normal_start ("mp:normal_start")
 
RealOptionKey const mp::normal_angle_start ("mp:normal_angle_start")
 
RealOptionKey const mp::normal_angle_delta ("mp:normal_angle_delta")
 
RealOptionKey const mp::normal_search_cycles ("mp:normal_search_cycles")
 
RealOptionKey const mp::chain_normal_angle_max ("mp:chain_normal_angle_max")
 
RealOptionKey const mp::pose_normal_angle_max ("mp:pose_normal_angle_max")
 
BooleanOptionKey const mp::no_interpolate_Mpair ("mp:no_interpolate_Mpair")
 
BooleanOptionKey const mp::Hbond_depth_correction ("mp:Hbond_depth_correction")
 
BooleanOptionKey const mp::TMprojection ("mp:TMprojection")
 
RealOptionKey const mp::wt_TMprojection ("mp:wt_TMprojection")
 
BooleanOptionKey const mp::non_helix ("mp:non_helix")
 
RealOptionKey const mp::wt_non_helix ("mp:wt_non_helix")
 
BooleanOptionKey const mp::termini ("mp:termini")
 
RealOptionKey const mp::wt_termini ("mp:wt_termini")
 
BooleanOptionKey const mp::secstruct ("mp:secstruct")
 
RealOptionKey const mp::wt_secstruct ("mp:wt_secstruct")
 
BooleanOptionKey const mp::spanning ("mp:spanning")
 
RealOptionKey const mp::wt_spanning ("mp:wt_spanning")
 
BooleanOptionKey const mp::lipids::lipids ("mp:lipids")
 
StringOptionKey const mp::lipids::composition ("mp:lipids:composition")
 
RealOptionKey const mp::lipids::temperature ("mp:lipids:temperature")
 
BooleanOptionKey const mp::lipids::has_pore ("mp:lipids:has_pore")
 
BooleanOptionKey const mp::viewer::viewer ("mp:viewer")
 
RealOptionKey const mp::viewer::thickness ("mp:viewer:thickness")
 
IntegerOptionKey const mp::viewer::num_points ("mp:viewer:num_points")
 
BooleanOptionKey const mp::visualize::visualize ("mp:visualize")
 
BooleanOptionKey const mp::visualize::embedding ("mp:visualize:embedding")
 
RealOptionKey const mp::visualize::spacing ("mp:visualize:spacing")
 
RealOptionKey const mp::visualize::width ("mp:visualize:width")
 
RealOptionKey const mp::visualize::thickness ("mp:visualize:thickness")
 
RealOptionKey const mp::visualize::plane_radius ("mp:visualize:plane_radius")
 
BooleanOptionKey const mp::scoring::scoring ("mp:scoring")
 
BooleanOptionKey const mp::scoring::hbond ("mp:scoring:hbond")
 
BooleanOptionKey const mp::setup::setup ("mp:setup")
 
StringVectorOptionKey const mp::setup::spanfiles ("mp:setup:spanfiles")
 
BooleanOptionKey const mp::setup::spans_from_structure ("mp:setup:spans_from_structure")
 
StringOptionKey const mp::setup::lipsfile ("mp:setup:lipsfile")
 
RealVectorOptionKey const mp::setup::center ("mp:setup:center")
 
RealVectorOptionKey const mp::setup::normal ("mp:setup:normal")
 
RealOptionKey const mp::setup::membrane_rsd ("mp:setup:membrane_rsd")
 
BooleanOptionKey const mp::setup::transform_into_membrane ("mp:setup:transform_into_membrane")
 
BooleanOptionKey const mp::setup::position_from_topo ("mp:setup:position_from_topo")
 
BooleanOptionKey const mp::setup::optimize1 ("mp:setup:optimize1")
 
BooleanOptionKey const mp::setup::optimize2 ("mp:setup:optimize2")
 
BooleanOptionKey const mp::lipid_acc::lipid_acc ("mp:lipid_acc")
 
RealOptionKey const mp::lipid_acc::angle_cutoff ("mp:lipid_acc:angle_cutoff")
 
RealOptionKey const mp::lipid_acc::slice_width ("mp:lipid_acc:slice_width")
 
RealOptionKey const mp::lipid_acc::shell_radius ("mp:lipid_acc:shell_radius")
 
RealOptionKey const mp::lipid_acc::dist_cutoff ("mp:lipid_acc:dist_cutoff")
 
BooleanOptionKey const mp::lipid_acc::tm_alpha ("mp:lipid_acc:tm_alpha")
 
BooleanOptionKey const mp::transform::transform ("mp:transform")
 
BooleanOptionKey const mp::transform::optimize_embedding ("mp:transform:optimize_embedding")
 
BooleanOptionKey const mp::assembly::assembly ("mp:assembly")
 
IntegerOptionKey const mp::assembly::TM_pose_number ("mp:assembly:TM_pose_number")
 
StringVectorOptionKey const mp::assembly::poses ("mp:assembly:poses")
 
BooleanOptionKey const mp::dock::dock ("mp:dock")
 
StringOptionKey const mp::dock::weights_cen ("mp:dock:weights_cen")
 
StringOptionKey const mp::dock::weights_fa ("mp:dock:weights_fa")
 
BooleanOptionKey const mp::dock::lowres ("mp:dock:lowres")
 
BooleanOptionKey const mp::dock::allow_flips ("mp:dock:allow_flips")
 
BooleanOptionKey const mp::dock::flexible_bb ("mp:dock:flexible_bb")
 
BooleanOptionKey const mp::dock::flexible_sc ("mp:dock:flexible_sc")
 
RealOptionKey const mp::dock::slide_threshold ("mp:dock:slide_threshold")
 
BooleanOptionKey const mp::quickrelax::quickrelax ("mp:quickrelax")
 
RealOptionKey const mp::quickrelax::angle_max ("mp:quickrelax:angle_max")
 
StringOptionKey const mp::quickrelax::nmoves ("mp:quickrelax:nmoves")
 
BooleanOptionKey const mp::quickrelax::repack_again ("mp:quickrelax:repack_again")
 
BooleanOptionKey const mp::mutate_relax::mutate_relax ("mp:mutate_relax")
 
StringVectorOptionKey const mp::mutate_relax::mutation ("mp:mutate_relax:mutation")
 
StringOptionKey const mp::mutate_relax::mutant_file ("mp:mutate_relax:mutant_file")
 
IntegerOptionKey const mp::mutate_relax::nmodels ("mp:mutate_relax:nmodels")
 
BooleanOptionKey const mp::mutate_relax::repack_mutation_only ("mp:mutate_relax:repack_mutation_only")
 
RealOptionKey const mp::mutate_relax::repack_radius ("mp:mutate_relax:repack_radius")
 
BooleanOptionKey const mp::mutate_relax::relax ("mp:mutate_relax:relax")
 
BooleanOptionKey const mp::benchmark::benchmark ("mp:benchmark")
 
BooleanOptionKey const mp::benchmark::ideal_helix::ideal_helix ("mp:benchmark:ideal_helix")
 
RealOptionKey const mp::benchmark::ideal_helix::helix_start ("mp:benchmark:ideal_helix:helix_start")
 
RealOptionKey const mp::benchmark::ideal_helix::helix_end ("mp:benchmark:ideal_helix:helix_end")
 
BooleanOptionKey const mp::benchmark::tilt_angle::tilt_angle ("mp:benchmark:tilt_angle")
 
StringOptionKey const mp::benchmark::tilt_angle::output ("mp:benchmark:tilt_angle:output")
 
BooleanOptionKey const mp::output::output ("mp:output")
 
BooleanOptionKey const mp::output::normalize_to_thk ("mp:output:normalize_to_thk")
 
BooleanOptionKey const mp::output::output_mem_to_pdb ("mp:output:output_mem_to_pdb")
 
BooleanOptionKey const membrane::membrane ("membrane")
 
IntegerOptionKey const membrane::normal_cycles ("membrane:normal_cycles")
 
RealOptionKey const membrane::normal_mag ("membrane:normal_mag")
 
RealOptionKey const membrane::center_mag ("membrane:center_mag")
 
RealOptionKey const membrane::smooth_move_frac ("membrane:smooth_move_frac")
 
BooleanOptionKey const membrane::no_interpolate_Mpair ("membrane:no_interpolate_Mpair")
 
BooleanOptionKey const membrane::Menv_penalties ("membrane:Menv_penalties")
 
BooleanOptionKey const membrane::Membed_init ("membrane:Membed_init")
 
BooleanOptionKey const membrane::Fa_Membed_update ("membrane:Fa_Membed_update")
 
BooleanOptionKey const membrane::center_search ("membrane:center_search")
 
BooleanOptionKey const membrane::normal_search ("membrane:normal_search")
 
IntegerOptionKey const membrane::center_max_delta ("membrane:center_max_delta")
 
IntegerOptionKey const membrane::normal_start_angle ("membrane:normal_start_angle")
 
IntegerOptionKey const membrane::normal_delta_angle ("membrane:normal_delta_angle")
 
IntegerOptionKey const membrane::normal_max_angle ("membrane:normal_max_angle")
 
BooleanOptionKey const membrane::debug ("membrane:debug")
 
BooleanOptionKey const membrane::fixed_membrane ("membrane:fixed_membrane")
 
RealVectorOptionKey const membrane::membrane_center ("membrane:membrane_center")
 
RealVectorOptionKey const membrane::membrane_normal ("membrane:membrane_normal")
 
BooleanOptionKey const membrane::view ("membrane:view")
 
BooleanOptionKey const membrane::Mhbond_depth ("membrane:Mhbond_depth")
 
RealOptionKey const membrane::thickness ("membrane:thickness")
 
BooleanOptionKey const mistakes::mistakes ("mistakes")
 
BooleanOptionKey const mistakes::restore_pre_talaris_2013_behavior ("mistakes:restore_pre_talaris_2013_behavior")
 
BooleanOptionKey const mistakes::chemical::chemical ("mistakes:chemical")
 
BooleanOptionKey const mistakes::chemical::pre_talaris2013_geometries ("mistakes:chemical:pre_talaris2013_geometries")
 
BooleanOptionKey const MonteCarlo::MonteCarlo ("MonteCarlo")
 
RealOptionKey const MonteCarlo::temp_initial ("MonteCarlo:temp_initial")
 
RealOptionKey const MonteCarlo::temp_final ("MonteCarlo:temp_final")
 
BooleanOptionKey const optimization::optimization ("optimization")
 
IntegerOptionKey const optimization::default_max_cycles ("optimization:default_max_cycles")
 
RealOptionKey const optimization::armijo_min_stepsize ("optimization:armijo_min_stepsize")
 
RealOptionKey const optimization::scale_normalmode_dampen ("optimization:scale_normalmode_dampen")
 
IntegerOptionKey const optimization::lbfgs_M ("optimization:lbfgs_M")
 
RealOptionKey const optimization::scale_d ("optimization:scale_d")
 
RealOptionKey const optimization::scale_theta ("optimization:scale_theta")
 
RealOptionKey const optimization::scale_rb ("optimization:scale_rb")
 
RealOptionKey const optimization::scale_rbangle ("optimization:scale_rbangle")
 
BooleanOptionKey const optimization::scmin_nonideal ("optimization:scmin_nonideal")
 
BooleanOptionKey const optimization::scmin_cartesian ("optimization:scmin_cartesian")
 
BooleanOptionKey const optimization::nonideal ("optimization:nonideal")
 
BooleanOptionKey const optimization::old_sym_min ("optimization:old_sym_min")
 
BooleanOptionKey const optimization::debug_inaccurate_G ("optimization:debug_inaccurate_G")
 
BooleanOptionKey const orbitals::orbitals ("orbitals")
 
BooleanOptionKey const orbitals::Hpol ("orbitals:Hpol")
 
BooleanOptionKey const orbitals::Haro ("orbitals:Haro")
 
BooleanOptionKey const orbitals::bb_stats ("orbitals:bb_stats")
 
BooleanOptionKey const orbitals::sc_stats ("orbitals:sc_stats")
 
BooleanOptionKey const pose_metrics::pose_metrics ("pose_metrics")
 
RealOptionKey const pose_metrics::atomic_burial_cutoff ("pose_metrics:atomic_burial_cutoff")
 
RealOptionKey const pose_metrics::sasa_calculator_probe_radius ("pose_metrics:sasa_calculator_probe_radius")
 
RealOptionKey const pose_metrics::interface_cutoff ("pose_metrics:interface_cutoff")
 
IntegerOptionKey const pose_metrics::min_sequence_separation ("pose_metrics:min_sequence_separation")
 
RealOptionKey const pose_metrics::contact_cutoffE ("pose_metrics:contact_cutoffE")
 
RealOptionKey const pose_metrics::neighbor_by_distance_cutoff ("pose_metrics:neighbor_by_distance_cutoff")
 
RealOptionKey const pose_metrics::inter_group_neighbors_cutoff ("pose_metrics:inter_group_neighbors_cutoff")
 
RealOptionKey const pose_metrics::semiex_water_burial_cutoff ("pose_metrics:semiex_water_burial_cutoff")
 
BooleanOptionKey const pose_metrics::shobuns::shobuns ("pose_metrics:shobuns")
 
StringOptionKey const pose_metrics::shobuns::tgt_amino ("pose_metrics:shobuns:tgt_amino")
 
StringOptionKey const pose_metrics::shobuns::tgt_atom ("pose_metrics:shobuns:tgt_atom")
 
FileOptionKey const pose_metrics::shobuns::tgt_res ("pose_metrics:shobuns:tgt_res")
 
RealOptionKey const pose_metrics::shobuns::sho_cutoff ("pose_metrics:shobuns:sho_cutoff")
 
BooleanOptionKey const rigid::rigid ("rigid")
 
RealOptionKey const rigid::chainbreak_bias ("rigid:chainbreak_bias")
 
BooleanOptionKey const rigid::close_loops ("rigid:close_loops")
 
IntegerOptionKey const rigid::fragment_cycles ("rigid:fragment_cycles")
 
BooleanOptionKey const rigid::log_accepted_moves ("rigid:log_accepted_moves")
 
RealOptionKey const rigid::max_ca_ca_dist ("rigid:max_ca_ca_dist")
 
FileOptionKey const rigid::patch ("rigid:patch")
 
IntegerOptionKey const rigid::residues_backbone_move ("rigid:residues_backbone_move")
 
RealOptionKey const rigid::rotation ("rigid:rotation")
 
FileOptionKey const rigid::sampling_prob ("rigid:sampling_prob")
 
StringOptionKey const rigid::score ("rigid:score")
 
IntegerOptionKey const rigid::sequence_separation ("rigid:sequence_separation")
 
IntegerOptionKey const rigid::small_cycles ("rigid:small_cycles")
 
IntegerOptionKey const rigid::stages ("rigid:stages")
 
RealOptionKey const rigid::temperature ("rigid:temperature")
 
RealOptionKey const rigid::translation ("rigid:translation")
 
BooleanOptionKey const sasa::sasa ("sasa")
 
StringOptionKey const sasa::method ("sasa:method")
 
BooleanOptionKey const sasa::include_hydrogens_explicitly ("sasa:include_hydrogens_explicitly")
 
RealOptionKey const sasa::probe_radius ("sasa:probe_radius")
 
BooleanOptionKey const sasa::include_probe_radius_in_atom_radii ("sasa:include_probe_radius_in_atom_radii")
 
BooleanOptionKey const sasa::include_only_C_S_in_hsasa ("sasa:include_only_C_S_in_hsasa")
 
BooleanOptionKey const sasa::exclude_polar_atoms_by_charge_in_hsasa ("sasa:exclude_polar_atoms_by_charge_in_hsasa")
 
RealOptionKey const sasa::polar_charge_cutoff ("sasa:polar_charge_cutoff")
 
StringOptionKey const sasa::implicit_hydrogen_radii_set ("sasa:implicit_hydrogen_radii_set")
 
StringOptionKey const sasa::explicit_hydrogen_radii_set ("sasa:explicit_hydrogen_radii_set")
 
BooleanOptionKey const symmetry::symmetry ("symmetry")
 
StringOptionKey const symmetry::symmetry_definition ("symmetry:symmetry_definition")
 
RealOptionKey const symmetry::reweight_symm_interactions ("symmetry:reweight_symm_interactions")
 
BooleanOptionKey const symmetry::initialize_rigid_body_dofs ("symmetry:initialize_rigid_body_dofs")
 
BooleanOptionKey const symmetry::detect_bonds ("symmetry:detect_bonds")
 
RealVectorOptionKey const symmetry::perturb_rigid_body_dofs ("symmetry:perturb_rigid_body_dofs")
 
BooleanOptionKey const symmetry::symmetric_rmsd ("symmetry:symmetric_rmsd")
 
BooleanOptionKey const abinitio::abinitio ("abinitio")
 
BooleanOptionKey const abinitio::membrane ("abinitio:membrane")
 
BooleanOptionKey const abinitio::use_loophash_filter ("abinitio:use_loophash_filter")
 
RealOptionKey const abinitio::loophash_filter_acceptance_rate ("abinitio:loophash_filter_acceptance_rate")
 
FileOptionKey const abinitio::kill_hairpins ("abinitio:kill_hairpins")
 
RealOptionKey const abinitio::kill_hairpins_frequency ("abinitio:kill_hairpins_frequency")
 
BooleanOptionKey const abinitio::smooth_cycles_only ("abinitio:smooth_cycles_only")
 
BooleanOptionKey const abinitio::relax ("abinitio:relax")