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Rosetta
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Functions | |
| BooleanOptionKey const | bunsat_calc2::generous_hbonds ("bunsat_calc2:generous_hbonds") |
| RealOptionKey const | bunsat_calc2::AHD_cutoff ("bunsat_calc2:AHD_cutoff") |
| RealOptionKey const | bunsat_calc2::dist_cutoff ("bunsat_calc2:dist_cutoff") |
| RealOptionKey const | bunsat_calc2::hxl_dist_cutoff ("bunsat_calc2:hxl_dist_cutoff") |
| RealOptionKey const | bunsat_calc2::sulph_dist_cutoff ("bunsat_calc2:sulph_dist_cutoff") |
| RealOptionKey const | bunsat_calc2::metal_dist_cutoff ("bunsat_calc2:metal_dist_cutoff") |
| BooleanOptionKey const | canonical_sampling::canonical_sampling ("canonical_sampling") |
| BooleanOptionKey const | canonical_sampling::probabilities::probabilities ("canonical_sampling:probabilities") |
| RealOptionKey const | canonical_sampling::probabilities::sc ("canonical_sampling:probabilities:sc") |
| RealOptionKey const | canonical_sampling::probabilities::localbb ("canonical_sampling:probabilities:localbb") |
| RealOptionKey const | canonical_sampling::probabilities::sc_prob_uniform ("canonical_sampling:probabilities:sc_prob_uniform") |
| RealOptionKey const | canonical_sampling::probabilities::sc_prob_withinrot ("canonical_sampling:probabilities:sc_prob_withinrot") |
| RealOptionKey const | canonical_sampling::probabilities::sc_prob_perturbcurrent ("canonical_sampling:probabilities:sc_prob_perturbcurrent") |
| BooleanOptionKey const | canonical_sampling::probabilities::MPI_sync_pools ("canonical_sampling:probabilities:MPI_sync_pools") |
| BooleanOptionKey const | canonical_sampling::probabilities::MPI_bcast ("canonical_sampling:probabilities:MPI_bcast") |
| BooleanOptionKey const | canonical_sampling::probabilities::fast_sc_moves ("canonical_sampling:probabilities:fast_sc_moves") |
| RealOptionKey const | canonical_sampling::probabilities::fast_sc_moves_ntrials ("canonical_sampling:probabilities:fast_sc_moves_ntrials") |
| BooleanOptionKey const | canonical_sampling::probabilities::no_jd2_output ("canonical_sampling:probabilities:no_jd2_output") |
| BooleanOptionKey const | canonical_sampling::probabilities::use_hierarchical_clustering ("canonical_sampling:probabilities:use_hierarchical_clustering") |
| RealOptionKey const | canonical_sampling::probabilities::backrub ("canonical_sampling:probabilities:backrub") |
| RealOptionKey const | canonical_sampling::probabilities::conrot ("canonical_sampling:probabilities:conrot") |
| BooleanOptionKey const | canonical_sampling::sampling::sampling ("canonical_sampling:sampling") |
| BooleanOptionKey const | canonical_sampling::sampling::no_detailed_balance ("canonical_sampling:sampling:no_detailed_balance") |
| IntegerOptionKey const | canonical_sampling::sampling::ntrials ("canonical_sampling:sampling:ntrials") |
| RealOptionKey const | canonical_sampling::sampling::mc_kt ("canonical_sampling:sampling:mc_kt") |
| IntegerOptionKey const | canonical_sampling::sampling::interval_pose_dump ("canonical_sampling:sampling:interval_pose_dump") |
| IntegerOptionKey const | canonical_sampling::sampling::interval_data_dump ("canonical_sampling:sampling:interval_data_dump") |
| BooleanOptionKey const | canonical_sampling::sampling::output_only_cluster_transitions ("canonical_sampling:sampling:output_only_cluster_transitions") |
| RealOptionKey const | canonical_sampling::sampling::transition_threshold ("canonical_sampling:sampling:transition_threshold") |
| IntegerOptionKey const | canonical_sampling::sampling::max_files_per_dir ("canonical_sampling:sampling:max_files_per_dir") |
| BooleanOptionKey const | canonical_sampling::sampling::save_loops_only ("canonical_sampling:sampling:save_loops_only") |
| BooleanOptionKey const | canonical_sampling::sampling::dump_loops_only ("canonical_sampling:sampling:dump_loops_only") |
| BooleanOptionKey const | canonical_sampling::out::out ("canonical_sampling:out") |
| FileOptionKey const | canonical_sampling::out::new_structures ("canonical_sampling:out:new_structures") |
| BooleanOptionKey const | casp::casp ("casp") |
| RealOptionKey const | casp::opt_radius ("casp:opt_radius") |
| BooleanOptionKey const | casp::repack ("casp:repack") |
| BooleanOptionKey const | casp::sc_min ("casp:sc_min") |
| BooleanOptionKey const | casp::sequential ("casp:sequential") |
| RealOptionKey const | casp::num_iterations ("casp:num_iterations") |
| StringOptionKey const | casp::refine_res ("casp:refine_res") |
| BooleanOptionKey const | chemically_conjugated_docking::chemically_conjugated_docking ("chemically_conjugated_docking") |
| FileOptionKey const | chemically_conjugated_docking::UBQpdb ("chemically_conjugated_docking:UBQpdb") |
| FileOptionKey const | chemically_conjugated_docking::E2pdb ("chemically_conjugated_docking:E2pdb") |
| IntegerOptionKey const | chemically_conjugated_docking::E2_residue ("chemically_conjugated_docking:E2_residue") |
| RealOptionKey const | chemically_conjugated_docking::SASAfilter ("chemically_conjugated_docking:SASAfilter") |
| RealOptionKey const | chemically_conjugated_docking::scorefilter ("chemically_conjugated_docking:scorefilter") |
| BooleanOptionKey const | chemically_conjugated_docking::publication ("chemically_conjugated_docking:publication") |
| IntegerOptionKey const | chemically_conjugated_docking::n_tail_res ("chemically_conjugated_docking:n_tail_res") |
| BooleanOptionKey const | chemically_conjugated_docking::two_ubiquitins ("chemically_conjugated_docking:two_ubiquitins") |
| FileVectorOptionKey const | chemically_conjugated_docking::extra_bodies ("chemically_conjugated_docking:extra_bodies") |
| IntegerOptionKey const | chemically_conjugated_docking::UBQ2_lys ("chemically_conjugated_docking:UBQ2_lys") |
| FileOptionKey const | chemically_conjugated_docking::UBQ2_pdb ("chemically_conjugated_docking:UBQ2_pdb") |
| BooleanOptionKey const | chemically_conjugated_docking::dont_minimize_omega ("chemically_conjugated_docking:dont_minimize_omega") |
| BooleanOptionKey const | chemically_conjugated_docking::pdz ("chemically_conjugated_docking:pdz") |
| FileOptionKey const | chemically_conjugated_docking::GTPasepdb ("chemically_conjugated_docking:GTPasepdb") |
| IntegerOptionKey const | chemically_conjugated_docking::GTPase_residue ("chemically_conjugated_docking:GTPase_residue") |
| BooleanOptionKey const | chunk::chunk ("chunk") |
| FileOptionKey const | chunk::pdb2 ("chunk:pdb2") |
| FileOptionKey const | chunk::loop2 ("chunk:loop2") |
| BooleanOptionKey const | cloud::cloud ("cloud") |
| StringOptionKey const | cloud::auth ("cloud:auth") |
| StringOptionKey const | cloud::key ("cloud:key") |
| BooleanOptionKey const | cloud::clean ("cloud:clean") |
| StringOptionKey const | cloud::host ("cloud:host") |
| IntegerOptionKey const | cloud::port ("cloud:port") |
| BooleanOptionKey const | cloud::block ("cloud:block") |
| BooleanOptionKey const | cluster::cluster ("cluster") |
| BooleanOptionKey const | cluster::lite ("cluster:lite") |
| RealOptionKey const | cluster::input_score_filter ("cluster:input_score_filter") |
| RealOptionKey const | cluster::output_score_filter ("cluster:output_score_filter") |
| IntegerVectorOptionKey const | cluster::exclude_res ("cluster:exclude_res") |
| RealOptionKey const | cluster::thinout_factor ("cluster:thinout_factor") |
| RealOptionKey const | cluster::radius ("cluster:radius") |
| IntegerOptionKey const | cluster::limit_cluster_size ("cluster:limit_cluster_size") |
| RealOptionKey const | cluster::limit_cluster_size_percent ("cluster:limit_cluster_size_percent") |
| RealOptionKey const | cluster::random_limit_cluster_size_percent ("cluster:random_limit_cluster_size_percent") |
| IntegerOptionKey const | cluster::limit_clusters ("cluster:limit_clusters") |
| IntegerOptionKey const | cluster::limit_total_structures ("cluster:limit_total_structures") |
| IntegerOptionKey const | cluster::max_total_cluster ("cluster:max_total_cluster") |
| BooleanOptionKey const | cluster::gdtmm ("cluster:gdtmm") |
| BooleanOptionKey const | cluster::skip_align ("cluster:skip_align") |
| IntegerOptionKey const | cluster::max_rms_matrix ("cluster:max_rms_matrix") |
| BooleanOptionKey const | cluster::rna_P ("cluster:rna_P") |
| BooleanOptionKey const | cluster::sort_groups_by_energy ("cluster:sort_groups_by_energy") |
| BooleanOptionKey const | cluster::sort_groups_by_size ("cluster:sort_groups_by_size") |
| BooleanOptionKey const | cluster::remove_singletons ("cluster:remove_singletons") |
| BooleanOptionKey const | cluster::export_only_low ("cluster:export_only_low") |
| BooleanOptionKey const | cluster::remove_highest_energy_member ("cluster:remove_highest_energy_member") |
| BooleanOptionKey const | cluster::idealize_final_structures ("cluster:idealize_final_structures") |
| IntegerOptionKey const | cluster::limit_dist_matrix ("cluster:limit_dist_matrix") |
| BooleanOptionKey const | cluster::make_ensemble_cst ("cluster:make_ensemble_cst") |
| BooleanOptionKey const | cluster::hotspot_hash ("cluster:hotspot_hash") |
| BooleanOptionKey const | cluster::loops ("cluster:loops") |
| RealOptionKey const | cluster::population_weight ("cluster:population_weight") |
| StringOptionKey const | cluster::template_scores ("cluster:template_scores") |
| IntegerOptionKey const | cluster::K_level ("cluster:K_level") |
| RealVectorOptionKey const | cluster::K_radius ("cluster:K_radius") |
| IntegerVectorOptionKey const | cluster::K_n_cluster ("cluster:K_n_cluster") |
| StringVectorOptionKey const | cluster::K_style ("cluster:K_style") |
| IntegerOptionKey const | cluster::K_n_sub ("cluster:K_n_sub") |
| IntegerOptionKey const | cluster::K_deque_size ("cluster:K_deque_size") |
| IntegerOptionKey const | cluster::K_deque_level ("cluster:K_deque_level") |
| BooleanOptionKey const | cluster::K_redundant ("cluster:K_redundant") |
| BooleanOptionKey const | cluster::K_not_fit_xyz ("cluster:K_not_fit_xyz") |
| BooleanOptionKey const | cluster::K_save_headers ("cluster:K_save_headers") |
| RealOptionKey const | cluster::score_diff_cut ("cluster:score_diff_cut") |
| BooleanOptionKey const | cluster::auto_tune ("cluster:auto_tune") |
| BooleanOptionKey const | cluster::write_centers ("cluster:write_centers") |
| BooleanOptionKey const | cluster::energy_based_clustering::energy_based_clustering ("cluster:energy_based_clustering") |
| BooleanOptionKey const | cluster::energy_based_clustering::prerelax ("cluster:energy_based_clustering:prerelax") |
| IntegerOptionKey const | cluster::energy_based_clustering::relax_rounds ("cluster:energy_based_clustering:relax_rounds") |
| StringOptionKey const | cluster::energy_based_clustering::cluster_by ("cluster:energy_based_clustering:cluster_by") |
| BooleanOptionKey const | cluster::energy_based_clustering::use_CB ("cluster:energy_based_clustering:use_CB") |
| RealOptionKey const | cluster::energy_based_clustering::cluster_radius ("cluster:energy_based_clustering:cluster_radius") |
| IntegerVectorOptionKey const | cluster::energy_based_clustering::residues_to_ignore ("cluster:energy_based_clustering:residues_to_ignore") |
| IntegerVectorOptionKey const | cluster::energy_based_clustering::chains_to_ignore ("cluster:energy_based_clustering:chains_to_ignore") |
| IntegerOptionKey const | cluster::energy_based_clustering::limit_structures_per_cluster ("cluster:energy_based_clustering:limit_structures_per_cluster") |
| IntegerOptionKey const | cluster::energy_based_clustering::limit_clusters ("cluster:energy_based_clustering:limit_clusters") |
| BooleanOptionKey const | cluster::energy_based_clustering::cyclic ("cluster:energy_based_clustering:cyclic") |
| IntegerOptionKey const | cluster::energy_based_clustering::cyclic_symmetry ("cluster:energy_based_clustering:cyclic_symmetry") |
| BooleanOptionKey const | cluster::energy_based_clustering::cyclic_symmetry_mirroring ("cluster:energy_based_clustering:cyclic_symmetry_mirroring") |
| RealOptionKey const | cluster::energy_based_clustering::cyclic_symmetry_threshold ("cluster:energy_based_clustering:cyclic_symmetry_threshold") |
| BooleanOptionKey const | cluster::energy_based_clustering::cluster_cyclic_permutations ("cluster:energy_based_clustering:cluster_cyclic_permutations") |
| IntegerOptionKey const | cluster::energy_based_clustering::cyclic_permutation_offset ("cluster:energy_based_clustering:cyclic_permutation_offset") |
| BooleanOptionKey const | cluster::energy_based_clustering::perform_ABOXYZ_bin_analysis ("cluster:energy_based_clustering:perform_ABOXYZ_bin_analysis") |
| BooleanOptionKey const | cluster::energy_based_clustering::mutate_to_ala ("cluster:energy_based_clustering:mutate_to_ala") |
| IntegerVectorOptionKey const | cluster::energy_based_clustering::disulfide_positions ("cluster:energy_based_clustering:disulfide_positions") |
| BooleanOptionKey const | cluster::energy_based_clustering::homooligomer_swap ("cluster:energy_based_clustering:homooligomer_swap") |
| BooleanOptionKey const | cluster::energy_based_clustering::silent_output ("cluster:energy_based_clustering:silent_output") |
| FileVectorOptionKey const | cluster::energy_based_clustering::cst_file ("cluster:energy_based_clustering:cst_file") |
| StringVectorOptionKey const | cluster::energy_based_clustering::extra_rms_atoms ("cluster:energy_based_clustering:extra_rms_atoms") |
| BooleanOptionKey const | cluster::energy_based_clustering::rebuild_all_in_dihedral_mode ("cluster:energy_based_clustering:rebuild_all_in_dihedral_mode") |
| FileOptionKey const | cluster::energy_based_clustering::alternative_score_file ("cluster:energy_based_clustering:alternative_score_file") |
| BooleanOptionKey const | partial_thread::partial_thread ("partial_thread") |
| BooleanOptionKey const | partial_thread::skip_repack ("partial_thread:skip_repack") |
| BooleanOptionKey const | cm::cm ("cm") |
| BooleanOptionKey const | cm::sanitize::sanitize ("cm:sanitize") |
| IntegerOptionKey const | cm::sanitize::num_fragments ("cm:sanitize:num_fragments") |
| RealOptionKey const | cm::sanitize::cst_weight_pair ("cm:sanitize:cst_weight_pair") |
| RealOptionKey const | cm::sanitize::cst_weight_coord ("cm:sanitize:cst_weight_coord") |
| BooleanOptionKey const | cm::start_models_only ("cm:start_models_only") |
| StringOptionKey const | cm::aln_format ("cm:aln_format") |
| BooleanOptionKey const | cm::recover_side_chains ("cm:recover_side_chains") |
| FileVectorOptionKey const | cm::steal_extra_residues ("cm:steal_extra_residues") |
| StringOptionKey const | cm::loop_mover ("cm:loop_mover") |
| IntegerOptionKey const | cm::loop_close_level ("cm:loop_close_level") |
| IntegerOptionKey const | cm::min_loop_size ("cm:min_loop_size") |
| IntegerOptionKey const | cm::max_loop_rebuild ("cm:max_loop_rebuild") |
| RealOptionKey const | cm::loop_rebuild_filter ("cm:loop_rebuild_filter") |
| RealOptionKey const | cm::aln_length_filter_quantile ("cm:aln_length_filter_quantile") |
| IntegerOptionKey const | cm::aln_length_filter ("cm:aln_length_filter") |
| StringVectorOptionKey const | cm::seq_score ("cm:seq_score") |
| StringOptionKey const | cm::aligner ("cm:aligner") |
| RealOptionKey const | cm::min_gap_open ("cm:min_gap_open") |
| RealOptionKey const | cm::max_gap_open ("cm:max_gap_open") |
| RealOptionKey const | cm::min_gap_extend ("cm:min_gap_extend") |
| RealOptionKey const | cm::max_gap_extend ("cm:max_gap_extend") |
| IntegerOptionKey const | cm::nn ("cm:nn") |
| FileVectorOptionKey const | cm::ev_map ("cm:ev_map") |
| FileVectorOptionKey const | cm::hh_map ("cm:hh_map") |
| IntegerVectorOptionKey const | cm::seeds ("cm:seeds") |
| IntegerOptionKey const | cm::nremain_reset ("cm:nremain_reset") |
| RealVectorOptionKey const | cm::quota_per_silent ("cm:quota_per_silent") |
| RealOptionKey const | cm::similarity_cut ("cm:similarity_cut") |
| RealOptionKey const | cm::similarity_limit ("cm:similarity_limit") |
| RealOptionKey const | cm::refsimilarity_cut ("cm:refsimilarity_cut") |
| BooleanOptionKey const | cm::hybridize::hybridize ("cm:hybridize") |
| IntegerVectorOptionKey const | cm::hybridize::starting_template ("cm:hybridize:starting_template") |
| BooleanOptionKey const | cm::hybridize::realign_domains ("cm:hybridize:realign_domains") |
| BooleanOptionKey const | cm::hybridize::realign_domains_stage2 ("cm:hybridize:realign_domains_stage2") |
| IntegerOptionKey const | cm::hybridize::add_non_init_chunks ("cm:hybridize:add_non_init_chunks") |
| RealOptionKey const | cm::hybridize::stage1_increase_cycles ("cm:hybridize:stage1_increase_cycles") |
| RealOptionKey const | cm::hybridize::stage2_increase_cycles ("cm:hybridize:stage2_increase_cycles") |
| RealOptionKey const | cm::hybridize::stage2min_increase_cycles ("cm:hybridize:stage2min_increase_cycles") |
| RealOptionKey const | cm::hybridize::stage1_probability ("cm:hybridize:stage1_probability") |
| BooleanOptionKey const | cm::hybridize::skip_stage2 ("cm:hybridize:skip_stage2") |
| BooleanOptionKey const | cm::hybridize::no_global_frame ("cm:hybridize:no_global_frame") |
| BooleanOptionKey const | cm::hybridize::linmin_only ("cm:hybridize:linmin_only") |
| IntegerOptionKey const | cm::hybridize::relax ("cm:hybridize:relax") |
| RealOptionKey const | cm::hybridize::frag_weight_aligned ("cm:hybridize:frag_weight_aligned") |
| IntegerOptionKey const | cm::hybridize::max_registry_shift ("cm:hybridize:max_registry_shift") |
| RealOptionKey const | cm::hybridize::frag_1mer_insertion_weight ("cm:hybridize:frag_1mer_insertion_weight") |
| RealOptionKey const | cm::hybridize::small_frag_insertion_weight ("cm:hybridize:small_frag_insertion_weight") |
| RealOptionKey const | cm::hybridize::big_frag_insertion_weight ("cm:hybridize:big_frag_insertion_weight") |
| BooleanOptionKey const | cm::hybridize::auto_frag_insertion_weight ("cm:hybridize:auto_frag_insertion_weight") |
| IntegerOptionKey const | cm::hybridize::stage1_1_cycles ("cm:hybridize:stage1_1_cycles") |
| IntegerOptionKey const | cm::hybridize::stage1_2_cycles ("cm:hybridize:stage1_2_cycles") |
| IntegerOptionKey const | cm::hybridize::stage1_3_cycles ("cm:hybridize:stage1_3_cycles") |
| IntegerOptionKey const | cm::hybridize::stage1_4_cycles ("cm:hybridize:stage1_4_cycles") |
| RealOptionKey const | cm::hybridize::stage2_temperature ("cm:hybridize:stage2_temperature") |
| StringOptionKey const | cm::hybridize::stage1_4_cenrot_score ("cm:hybridize:stage1_4_cenrot_score") |
| BooleanOptionKey const | cm::hybridize::include_loop_ss_chunks ("cm:hybridize:include_loop_ss_chunks") |
| BooleanOptionKey const | constel::constel ("constel") |
| BooleanOptionKey const | constel::pair_all_res ("constel:pair_all_res") |
| BooleanOptionKey const | constel::triple_all_res ("constel:triple_all_res") |
| IntegerOptionKey const | constel::pair_target_resnum ("constel:pair_target_resnum") |
| IntegerOptionKey const | constel::triple_target_resnum ("constel:triple_target_resnum") |
| StringOptionKey const | constel::target_chain ("constel:target_chain") |
| StringOptionKey const | constel::pair_target_mutations ("constel:pair_target_mutations") |
| StringOptionKey const | constel::target_cnl ("constel:target_cnl") |
| BooleanOptionKey const | constel::cnl_stripped ("constel:cnl_stripped") |
| RealOptionKey const | constel::max_atom_sasa ("constel:max_atom_sasa") |
| BooleanOptionKey const | constel::chain_interface ("constel:chain_interface") |
| BooleanOptionKey const | constel::aromatic ("constel:aromatic") |
| StringOptionKey const | constel::cnl_exclude ("constel:cnl_exclude") |
| RealOptionKey const | constel::prox_ct_max ("constel:prox_ct_max") |
| RealOptionKey const | constel::prox_tt_max ("constel:prox_tt_max") |
| IntegerOptionKey const | constel::prox_nres ("constel:prox_nres") |
| BooleanOptionKey const | constel::indole_coo ("constel:indole_coo") |
| BooleanOptionKey const | constel::tryptamine ("constel:tryptamine") |
| BooleanOptionKey const | constel::amphetamine ("constel:amphetamine") |
| BooleanOptionKey const | constel::histamine ("constel:histamine") |
| BooleanOptionKey const | contactMap::contactMap ("contactMap") |
| StringOptionKey const | contactMap::prefix ("contactMap:prefix") |
| RealOptionKey const | contactMap::distance_cutoff ("contactMap:distance_cutoff") |
| StringOptionKey const | contactMap::region_def ("contactMap:region_def") |
| BooleanOptionKey const | contactMap::row_format ("contactMap:row_format") |
| BooleanOptionKey const | contactMap::distance_matrix ("contactMap:distance_matrix") |
| BooleanOptionKey const | coupled_moves::coupled_moves ("coupled_moves") |
| IntegerOptionKey const | coupled_moves::ntrials ("coupled_moves:ntrials") |
| IntegerOptionKey const | coupled_moves::number_ligands ("coupled_moves:number_ligands") |
| RealOptionKey const | coupled_moves::mc_kt ("coupled_moves:mc_kt") |
| RealOptionKey const | coupled_moves::boltzmann_kt ("coupled_moves:boltzmann_kt") |
| RealOptionKey const | coupled_moves::mm_bend_weight ("coupled_moves:mm_bend_weight") |
| BooleanOptionKey const | coupled_moves::trajectory ("coupled_moves:trajectory") |
| BooleanOptionKey const | coupled_moves::trajectory_gz ("coupled_moves:trajectory_gz") |
| IntegerOptionKey const | coupled_moves::trajectory_stride ("coupled_moves:trajectory_stride") |
| StringOptionKey const | coupled_moves::trajectory_file ("coupled_moves:trajectory_file") |
| StringOptionKey const | coupled_moves::output_fasta ("coupled_moves:output_fasta") |
| StringOptionKey const | coupled_moves::output_stats ("coupled_moves:output_stats") |
| BooleanOptionKey const | coupled_moves::ligand_mode ("coupled_moves:ligand_mode") |
| BooleanOptionKey const | coupled_moves::initial_repack ("coupled_moves:initial_repack") |
| BooleanOptionKey const | coupled_moves::min_pack ("coupled_moves:min_pack") |
| BooleanOptionKey const | coupled_moves::save_sequences ("coupled_moves:save_sequences") |
| BooleanOptionKey const | coupled_moves::save_structures ("coupled_moves:save_structures") |
| RealOptionKey const | coupled_moves::ligand_prob ("coupled_moves:ligand_prob") |
| BooleanOptionKey const | coupled_moves::fix_backbone ("coupled_moves:fix_backbone") |
| BooleanOptionKey const | coupled_moves::uniform_backrub ("coupled_moves:uniform_backrub") |
| BooleanOptionKey const | coupled_moves::bias_sampling ("coupled_moves:bias_sampling") |
| BooleanOptionKey const | coupled_moves::bump_check ("coupled_moves:bump_check") |
| RealOptionKey const | coupled_moves::ligand_weight ("coupled_moves:ligand_weight") |
| StringOptionKey const | coupled_moves::output_prefix ("coupled_moves:output_prefix") |
| RealOptionKey const | coupled_moves::walking_perturber_magnitude ("coupled_moves:walking_perturber_magnitude") |
| RealOptionKey const | coupled_moves::kic_loop_size ("coupled_moves:kic_loop_size") |
| StringOptionKey const | coupled_moves::kic_perturber ("coupled_moves:kic_perturber") |
| StringOptionKey const | coupled_moves::backbone_mover ("coupled_moves:backbone_mover") |
| BooleanOptionKey const | coupled_moves::repack_neighborhood ("coupled_moves:repack_neighborhood") |
| BooleanOptionKey const | coupled_moves::exclude_nonclashing_positions ("coupled_moves:exclude_nonclashing_positions") |
| BooleanOptionKey const | cp::cp ("cp") |
| RealOptionKey const | cp::cutoff ("cp:cutoff") |
| StringOptionKey const | cp::relax_sfxn ("cp:relax_sfxn") |
| StringOptionKey const | cp::pack_sfxn ("cp:pack_sfxn") |
| StringOptionKey const | cp::minimizer_score_fxn ("cp:minimizer_score_fxn") |
| StringOptionKey const | cp::output ("cp:output") |
| IntegerOptionKey const | cp::ncycles ("cp:ncycles") |
| IntegerOptionKey const | cp::max_failures ("cp:max_failures") |
| BooleanOptionKey const | cp::print_reports ("cp:print_reports") |
| StringOptionKey const | cp::vipReportFile ("cp:vipReportFile") |
| StringOptionKey const | cp::exclude_file ("cp:exclude_file") |
| StringOptionKey const | cp::relax_mover ("cp:relax_mover") |
| BooleanOptionKey const | cp::skip_relax ("cp:skip_relax") |
| BooleanOptionKey const | cp::local_relax ("cp:local_relax") |
| BooleanOptionKey const | cp::print_intermediate_pdbs ("cp:print_intermediate_pdbs") |
| BooleanOptionKey const | cp::use_unrelaxed_starting_points ("cp:use_unrelaxed_starting_points") |
| BooleanOptionKey const | cp::easy_vip_acceptance ("cp:easy_vip_acceptance") |
| BooleanOptionKey const | cryst::cryst ("cryst") |
| StringOptionKey const | cryst::mtzfile ("cryst:mtzfile") |
| BooleanOptionKey const | cryst::crystal_refine ("cryst:crystal_refine") |
| BooleanOptionKey const | cryst::refinable_lattice ("cryst:refinable_lattice") |
| RealOptionKey const | cryst::interaction_shell ("cryst:interaction_shell") |
| BooleanOptionKey const | csa::csa ("csa") |
| BooleanOptionKey const | csa::useZ ("csa:useZ") |
| BooleanOptionKey const | cutoutdomain::cutoutdomain ("cutoutdomain") |
| IntegerOptionKey const | cutoutdomain::start ("cutoutdomain:start") |
| IntegerOptionKey const | cutoutdomain::end ("cutoutdomain:end") |
| BooleanOptionKey const | cyclization::cyclization ("cyclization") |
| IntegerVectorOptionKey const | cyclization::chains_to_cyclize ("cyclization:chains_to_cyclize") |
| IntegerOptionKey const | cyclization::num_min_rebuild ("cyclization:num_min_rebuild") |
| BooleanOptionKey const | cyclization::add_constraints ("cyclization:add_constraints") |
| BooleanOptionKey const | cyclic_peptide::cyclic_peptide ("cyclic_peptide") |
| StringOptionKey const | cyclic_peptide::cyclization_type ("cyclic_peptide:cyclization_type") |
| BooleanOptionKey const | cyclic_peptide::use_chainbreak_energy ("cyclic_peptide:use_chainbreak_energy") |
| StringOptionKey const | cyclic_peptide::rand_checkpoint_file ("cyclic_peptide:rand_checkpoint_file") |
| StringOptionKey const | cyclic_peptide::checkpoint_file ("cyclic_peptide:checkpoint_file") |
| StringOptionKey const | cyclic_peptide::checkpoint_job_identifier ("cyclic_peptide:checkpoint_job_identifier") |
| IntegerVectorOptionKey const | cyclic_peptide::exclude_residues_from_rms ("cyclic_peptide:exclude_residues_from_rms") |
| StringOptionKey const | cyclic_peptide::default_rama_sampling_table ("cyclic_peptide:default_rama_sampling_table") |
| StringVectorOptionKey const | cyclic_peptide::rama_sampling_table_by_res ("cyclic_peptide:rama_sampling_table_by_res") |
| StringOptionKey const | cyclic_peptide::sequence_file ("cyclic_peptide:sequence_file") |
| IntegerOptionKey const | cyclic_peptide::genkic_closure_attempts ("cyclic_peptide:genkic_closure_attempts") |
| IntegerOptionKey const | cyclic_peptide::genkic_min_solution_count ("cyclic_peptide:genkic_min_solution_count") |
| BooleanOptionKey const | cyclic_peptide::cyclic_permutations ("cyclic_peptide:cyclic_permutations") |
1.9.1