basic::options::OptionKeys::chemical Namespace Reference

Variables
BooleanOptionKey const	chemical
StringVectorOptionKey const	exclude_patches
StringVectorOptionKey const	include_patches
StringVectorOptionKey const	add_atom_type_set_parameters
StringVectorOptionKey const	set_atom_properties
StringVectorOptionKey const	patch_selectors
BooleanOptionKey const	override_rsd_type_limit
StringVectorOptionKey const	clone_atom_types
StringVectorOptionKey const	reassign_atom_types
StringVectorOptionKey const	reassign_icoor
StringVectorOptionKey const	set_atomic_charge
StringVectorOptionKey const	set_patch_atomic_charge
BooleanOptionKey const	enlarge_H_lj
BooleanOptionKey const	no_hbonds_to_ether_oxygens
BooleanOptionKey const	unset_acceptor_ether_oxygens

Variable Documentation

StringVectorOptionKey const basic::options::OptionKeys::chemical::add_atom_type_set_parameters

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::chemical::chemical

Referenced by add_rosetta_options_2(), align_pdbs(), analyze_base_pair_test(), PhProtocol::apply(), calc_rms_test(), calc_scores(), calculate_pairwise_RMSD(), calculate_sasa(), StepWiseJobQueen::complete_larval_job_maturation(), correct_dunbrack(), correct_rama(), create_base_pair_step_database_test(), create_bp_jump_database_test(), MPDomainAssembly::create_residue_from_olc(), create_rna_vall_torsions_test(), drrafter_error_estimation(), filter_combine_long_loop(), gen_pep_bb_sequential(), get_clash_pairs(), get_pose_and_numbering(), graft_pdb(), has_clash(), import_and_dump_pdb(), is_semi_rot(), main(), match_main(), mg_modeler_test(), minimize_test(), mutate_residue(), mutate_residues_wrapper(), nucleobase_probe_score_test(), o2prime_packer(), pdb_to_silent_file(), poses_from_cmd_line(), post_rebuild_bulge_assembly(), predict_chem_map_test(), prepare_threaded_model(), quick_score_test(), rebuild_test(), repack_test(), resample_full_model_test(), rhiju_pdbstats(), rna_build_helix_test(), rna_design_test(), rna_features_from_pose(), rna_fullatom_minimize_test(), rna_motif_test(), rna_sample_virtual_sugar(), rna_score_test(), rna_suitename(), run_pep_prep(), set_pep_cst(), slice_ellipsoid_envelope(), slice_sample_res_and_surrounding(), ss_ds_ts_assign_test(), stepwise_monte_carlo_legacy(), swa_rna_sample(), and PhProtocol::titrate_pH().

StringVectorOptionKey const basic::options::OptionKeys::chemical::clone_atom_types

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::chemical::enlarge_H_lj

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::exclude_patches

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::include_patches

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::chemical::no_hbonds_to_ether_oxygens

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::chemical::override_rsd_type_limit

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::patch_selectors

Referenced by add_rosetta_options_2(), and main().

StringVectorOptionKey const basic::options::OptionKeys::chemical::reassign_atom_types

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::reassign_icoor

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::set_atom_properties

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::set_atomic_charge

Referenced by add_rosetta_options_2().

StringVectorOptionKey const basic::options::OptionKeys::chemical::set_patch_atomic_charge

Referenced by add_rosetta_options_2().

BooleanOptionKey const basic::options::OptionKeys::chemical::unset_acceptor_ether_oxygens

Referenced by add_rosetta_options_2().