- r -

• R2quat() : protocols::simple_filters
• R3z1() : protocols::sic_dock::scores
• R3z2() : protocols::sic_dock::scores
• R3z3() : protocols::sic_dock::scores
• radius_of_gyration() : core::pose
• rama_list_pred() : protocols::relax
• ramp_minpack_loop() : protocols::mpi_refinement
• ramp_minpack_pose() : protocols::mpi_refinement
• rand_rot() : core::scoring::packstat
• random_conformer_tracer() : protocols::ligand_docking
• random_connection() : protocols::ligand_docking
• random_delay() : core::init
• random_reorientation_matrix() : protocols::geometry
• random_rotation() : core::scoring::motif , protocols::simple_moves
• randomize_missing_coords() : core::io::pose_from_sfr
• randomize_selected_atoms() : protocols::comparative_modeling
• range() : protocols::sic_dock
• rb_grid_rotamer_trials_atr_rep() : protocols::ligand_docking
• rb_grid_score_atr_rep() : protocols::ligand_docking
• RBSegmentRelax_main() : protocols
• rdc_D_const() : core::scoring::nmr::rdc
• rdc_D_max() : core::scoring::nmr::rdc
• rdc_erf() : core::scoring::nmr::rdc
• rdc_ideal_bond_length() : core::scoring::nmr::rdc
• rdc_scaling_factor_toCH() : core::scoring::nmr::rdc
• rdc_scaling_factor_toNH() : core::scoring::nmr::rdc
• rdc_type_from_atom_names() : core::scoring::nmr
• read1() : protocols::cluster
• read_additional_pdb_data() : core::import_pose
• read_alignment_file() : core::sequence
• read_all_alignments() : core::sequence
• read_all_poses() : core::import_pose
• read_aln() : core::sequence
• read_alternative_3_letter_codes_from_database_file() : core::io
• read_atom_selection_from_string() : core::io::nmr
• read_binary() : core::io::serialization
• read_biounit() : protocols::sic_dock
• read_body() : protocols::hydrate
• read_bytes() : core::io::serialization
• read_center_normal_from_cmd() : protocols::membrane
• read_center_normal_from_tag() : protocols::membrane
• read_checkpoint_log() : protocols::rna::movers , protocols::stepwise::monte_carlo::mover
• read_codes_and_roots_from_database_file() : core::chemical::carbohydrates
• read_comment_pdb() : core::pose
• read_conformers_from_database_file_for_ring_size() : core::chemical::rings
• read_cp_tables_from_db() : core::scoring::elec
• read_ddg_predictions_file() : core::io::PositionDdGInfo
• read_disulf_pairing_list() : protocols::jumping
• read_DNA_rotlib() : core::pack::rotamer_set
• read_enzyme_data_from_file() : core::enzymes
• read_extra_data() : core::io::mmtf
• read_extra_residues() : protocols::comparative_modeling
• read_fasta_file() : core::sequence
• read_fasta_file_and_concatenate() : core::sequence
• read_fasta_file_return_str() : core::sequence
• read_fasta_file_section() : core::sequence
• read_fasta_file_str() : core::sequence
• read_file_into_string() : protocols::cyclic_peptide_predict
• read_fold_tree_from_file() : protocols::backrub
• read_fragment_candidates() : protocols::frag_picker
• read_frags() : protocols::topology_broker
• read_Gaussian_parameters_from_database_file() : core::scoring::carbohydrates
• read_general_aln() : core::sequence
• read_general_aln_file() : core::sequence
• read_glycan_sequence_file() : core::chemical::carbohydrates
• read_gridsearch_values_from_string() : core::io::nmr
• read_grishin_aln_file() : core::sequence
• read_H3_cter_fragment() : protocols::antibody_legacy
• read_H3_seq() : protocols::splice
• read_header() : protocols::hydrate
• read_hyfile() : protocols::hydrate
• read_in_database_file() : core::io::nmr
• read_in_mutations() : protocols
• read_key_value_pair_from_line() : core::io::nmr
• read_lines_from_file() : update_ResidueType_enum_files
• read_linkage_conformers_from_database_file() : core::chemical::carbohydrates
• read_loop_fragments() : protocols::loops
• read_minor_helix_params() : protocols::helical_bundle
• read_model_file() : protocols::legacy_sewing
• read_motifs_binary() : core::scoring::motif
• read_native_residue_file() : protocols::legacy_sewing
• read_nomenclature_table_from_database_file() : core::chemical::carbohydrates
• read_pairing_list() : core::scoring::dssp , protocols::jumping
• read_pcs_datafile() : core::io::nmr
• read_pcs_dataset_params_list() : core::io::nmr
• read_pdb_seq() : protocols::splice
• read_peptide_design_file() : protocols::cyclic_peptide_predict
• read_pose_from_file() : protocols::enzdes::enzutil
• read_pre_datafile() : core::io::nmr
• read_pre_dataset_params_list() : core::io::nmr
• read_psipred_ss2_file() : core::pose
• read_rama_map_file_shapovalov() : core::chemical::mainchain_potential
• read_RBSegment_file() : protocols::rbsegment_relax
• read_rdc_datafile() : core::io::nmr
• read_rdc_dataset_params_list() : core::io::nmr
• read_rdc_tensor_values_from_string() : core::io::nmr
• read_record_definitions_from_file() : core::io::pdb
• read_rigid_core() : protocols::abinitio::abscript
• read_ring_sizes_and_morphemes_from_database_file() : core::chemical::carbohydrates
• read_selection_group_from_string() : core::io::nmr
• read_short_names_to_iupac_format_string() : core::chemical::carbohydrates
• read_ss2() : protocols::mpi_refinement
• read_std_frags_from_cmd() : core::fragment
• read_stoopid() : core::scoring::packstat
• read_template_scores() : protocols::cluster
• read_topology_file() : core::chemical
• read_xfrag_binary() : core::scoring::motif
• read_xfres_binary() : core::scoring::motif
• readValueOrDie() : core::scoring::func
• real6_to_rt() : core::scoring::motif
• real_regex_pattern() : protocols::docking::membrane , protocols::qsar
• real_to_uint16() : core::scoring::motif
• real_to_uint8() : core::scoring::motif
• real_to_virtual() : core::chemical
• RealAngleToShort() : protocols::loophash
• REALLY_BAD_SCORE() : protocols::loops::loop_closure::ccd
• rebuild_disulfide() : core::util
• rebuild_fa_disulfides() : core::util
• rebuild_loops_until_closed() : protocols::comparative_modeling
• rebuild_missing_atoms() : protocols::denovo_design
• recces_pose_setup() : protocols::recces
• recenter() : core::conformation::symmetry
• recreate_task() : protocols::enzdes::enzutil
• recursive_multiple_disulfide_former() : protocols::forge::remodel
• recursively_access_all_attributes() : protocols::rosetta_scripts
• reduced_size() : protocols::scoring::methods::pcs2
• REF_2015() : core::scoring
• reference_from_restype_ptr() : core::conformation
• REFINE() : protocols::loops::loop_mover
• refine_all_cdr_loops() : protocols::tcr
• refine_cdr3_loops() : protocols::tcr
• refine_cdr_loop() : protocols::tcr
• refine_mindis_with_xyzHash() : protocols::sic_dock
• refine_tcr_cdr_loops() : protocols::tcr
• regenerate_graph_vertex_index() : core::chemical
• regex_usable() : core::select::residue_selector
• register1() : protocols::init
• register2() : protocols::init
• register3() : protocols::init
• register4() : protocols::init
• register_common_options() : protocols::abinitio
• register_creators() : protocols::init
• register_cutoff() : protocols::abinitio
• register_options() : protocols::evaluation , protocols::jd2
• register_options_broker() : protocols::abinitio
• register_options_universal_main() : protocols::jobdist
• register_unpublished_author_info() : core::pack::annealer
• regular_edges_within_interval() : protocols::forge::methods
• regular_facet_containing_position() : protocols::forge::methods
• reinitialize_mingraph_neighborhood_for_residue() : core::pack
• rel_per_res_sc_sasa() : core::scoring::sasa
• Relax_main() : protocols::relax
• relax_pose() : protocols::relax
• remap_cis_omega_torsion_bins_to_trans() : core::conformation
• remap_names_on_geometry() : core::io::pose_from_sfr
• remap_rb_segments() : protocols::rbsegment_relax
• remap_vect() : core::chemical
• remodel_fold_tree_to_account_for_insertion() : core::kinematics
• remodel_generic_taskfactory() : protocols::forge::methods
• remodel_tcr_cdr_loops() : protocols::tcr
• remove_all_anchors_and_ENF() : protocols::hydrate
• remove_all_enzdes_constraints() : protocols::enzdes::enzutil
• remove_all_jump_atoms() : protocols::denovo_design
• remove_all_variant_types() : protocols::stepwise::modeler::rna
• remove_all_virtual_phosphates() : protocols::stepwise::modeler::rna
• remove_and_store_bracketed() : core::pose::rna
• remove_bracketed() : core::pose::rna
• remove_carbohydrate_branch_point_variants() : core::pose::carbohydrates
• remove_chain_break_jump_point() : protocols::stepwise::legacy::modeler::rna
• remove_chain_break_variants() : protocols::stepwise::modeler::rna
• remove_chainbreaks_according_to_jumps() : protocols::toolbox::pose_manipulation
• remove_constraint_from_residue_constraints() : core::scoring::constraints
• remove_constraints_of_type() : core::scoring::constraints
• remove_coordinate_constraints_from_pose() : protocols::protein_interface_design
• remove_cut() : protocols::jumping
• remove_cutpoint() : protocols::forge::methods
• remove_cutpoint_closed() : core::import_pose
• remove_cutpoint_variants() : core::util , protocols::forge::methods , protocols::loops
• remove_cutpoint_variants_for_ccd() : protocols::grafting
• remove_cutpoints() : protocols::forge::methods
• remove_cutpoints_closed() : core::import_pose
• remove_file() : protocols::stepwise::modeler::rna
• remove_high_energy_water_molecules() : protocols::hydrate
• remove_hotspot_constraints_from_pose() : protocols::hotspot_hashing
• remove_ligand_canonical_residues() : core::pose
• remove_lower_terminus_type_from_conformation_residue() : core::conformation
• remove_lower_terminus_type_from_pose_residue() : core::pose
• remove_mg_bound_waters() : protocols::magnesium
• remove_missing_density() : protocols::loops
• remove_missing_jump_atoms() : protocols::denovo_design
• remove_models_from_dssp() : protocols::legacy_sewing
• remove_non_buried_wat() : protocols::hydrate
• remove_non_protein_residues() : protocols::toolbox::pose_manipulation
• remove_nonbb_constraints() : core::scoring::constraints
• remove_nonprotein_residues() : core::pose
• remove_register_shift_single_pair() : protocols::fldsgn::filters
• remove_register_shifts() : protocols::fldsgn::filters
• remove_remark_header_for_geomcst() : protocols::enzdes::enzutil
• remove_residues() : protocols::hybridization
• remove_set1_elements_from_set2() : protocols::rna::movers
• remove_short_chunks() : protocols::loops
• remove_silent_file_if_it_exists() : core::io::silent
• remove_small_gaps() : protocols::loops
• remove_terminal_phosphates() : protocols::stepwise::modeler::rna::phosphate
• remove_terminus_variant_types_for_rna() : core::import_pose::libraries
• remove_upper_lower_variants_from_RNA() : core::pose::rna
• remove_upper_terminus_type_from_conformation_residue() : core::conformation
• remove_upper_terminus_type_from_pose_residue() : core::pose
• remove_variant_type_from_conformation_residue() : core::conformation
• remove_variant_type_from_pose_residue() : core::pose
• remove_variant_type_from_residue() : core::pose
• remove_virtual_O2Prime_hydrogen() : protocols::stepwise::modeler::rna
• remove_virtual_residues() : core::pose
• remove_virtual_rna_residue_variant_type() : core::pose::rna
• remove_waters_except_mg_bound() : protocols::magnesium
• remove_whitespaces() : core::scoring::rna::chemical_shift
• rename_atoms() : core::chemical
• renumber_pdbinfo_based_on_conf_chains() : core::pose
• renumber_with_pdb_info() : protocols::hybridization
• reorder_chains() : protocols::denovo_design::components
• reorder_full_model_info_after_append() : core::pose::full_model_info
• reorder_full_model_info_after_delete() : core::pose::full_model_info
• reorder_full_model_info_after_prepend() : core::pose::full_model_info
• reorder_glycan_residues() : core::io
• reorder_membrane_foldtree() : protocols::membrane
• reorder_moving_res_list_after_delete() : core::pose::full_model_info
• reorder_moving_res_list_after_insert() : core::pose::full_model_info
• reorder_pose() : core::import_pose
• reorder_res_list_after_append() : core::pose::full_model_info
• reorder_res_list_after_delete() : core::pose::full_model_info
• reorder_res_list_after_prepend() : core::pose::full_model_info
• reorder_root_partition_res() : core::pose
• reorder_with_first_non_mobile_as_root() : protocols::ligand_docking
• reorient_extended_fibril() : protocols::fibril
• repack_connection_and_residues_in_movemap() : protocols::grafting
• repack_connection_and_residues_in_movemap_and_piece() : protocols::grafting
• repack_connection_and_residues_in_movemap_and_piece_and_neighbors() : protocols::grafting
• repack_these_residues() : protocols::toolbox::pose_manipulation
• repack_this_residue() : protocols::toolbox::pose_manipulation
• repackable_residues() : core::pack
• repackable_residues_dup() : core::pack
• RepGridTracer() : protocols::qsar::scoring_grid
• replace() : protocols::forge::methods
• replace_conformation_residue_copying_existing_coordinates() : core::conformation
• replace_file() : protocols::monte_carlo
• replace_pose_residue_copying_existing_coordinates() : core::pose
• replace_region() : protocols::grafting
• replace_residue_in_atom_tree() : core::conformation
• replace_residue_keeping_all_atom_positions() : protocols::toolbox::match_enzdes_util
• replace_substr() : core::kinematics
• replace_underscores_with_spaces() : core::chemical::carbohydrates
• replaced_symmetric_foldtree_with_new_monomer() : core::conformation::symmetry
• report_application_command() : core::init
• report_batch_inconsistency() : protocols::jd2::archive
• report_coordinate_constraints() : protocols::splice
• report_des_pack_res() : protocols::splice
• report_designable_packable_residues() : protocols::splice
• report_heading_directions_of_all_AA_in_a_strand() : protocols::features::strand_assembly
• report_tag_error() : protocols::jd2::archive
• report_unfolded() : protocols::fold_from_loops::utils
• report_value_error() : protocols::jd2::archive
• represent_residue_selector() : core::select::residue_selector
• requires_CB_mapping() : core::scoring::constraints
• reroot() : core::pose
• reroot_based_on_full_model_info() : protocols::stepwise::modeler
• reroot_restype() : core::chemical
• res1_pointed_at_res2() : core::select::util
• res_filter_schema_w_attributes() : core::pack::task::operation
• res_in_chain() : core::pose
• res_lvl_task_op_schema_empty() : core::pack::task::operation
• res_lvl_task_op_schema_w_attributes() : core::pack::task::operation
• res_res_min_distance() : protocols::simple_filters
• res_rmsd() : protocols::protein_interface_design::filters , protocols::simple_filters
• resample() : core::scoring::electron_density
• rescale_scorefxn() : protocols::stepwise::modeler::rna
• reset_x() : protocols::toolbox
• resids() : core::select
• residue_burial_filter_tracer() : protocols::simple_filters
• residue_center_of_mass() : core::conformation::symmetry , core::pose
• residue_cutoff() : protocols::abinitio
• residue_distance_filter_tracer() : protocols::simple_filters
• residue_entries_to_pose() : protocols::indexed_structure_store
• residue_fast_pair_energy_attached_H() : core::scoring
• residue_gws_string() : core::io::carbohydrates
• residue_is_bulge() : core::pose::rna
• residue_is_compatible() : protocols::denovo_design::components
• residue_is_floppy() : protocols::sic_dock
• residue_near_water() : core::scoring::hbonds , protocols::hydrate
• residue_packer_states() : protocols::rosetta_scripts
• residue_point_graph_from_conformation() : core::conformation
• residue_range_gws_string() : core::io::carbohydrates
• residue_rebuild_checkpoint_namer() : protocols::stepwise::monte_carlo::mover
• residue_rebuild_log_namer() : protocols::stepwise::monte_carlo::mover
• residue_rmsd_nosuper() : core::scoring
• residue_rmsd_super() : core::scoring
• residue_rotamer_recovery() : core::pack
• residue_sc_rmsd_no_super() : core::scoring , protocols::hotspot_hashing
• residue_selector_single_from_line() : core::chemical
• residue_subset() : protocols::pose_metric_calculators
• residue_type_all_patches_name() : core::chemical
• residue_type_base_name() : core::chemical
• residue_type_bases_identical() : core::chemical
• residue_types_from_saccharide_sequence() : core::pose
• residue_types_from_saccharide_sequence_recursive() : core::pose
• residue_types_from_sequence() : core::pose
• residue_types_identical() : core::chemical
• residues_downstream_of_jump() : core::kinematics
• residues_in_interface_tracer() : protocols::simple_filters
• residues_interact() : core::scoring::methods
• residues_upstream_of_jump() : core::kinematics
• resize_and_add_if_not_empty() : core::io::mmtf
• resnums_from_bool_mask() : core::pack::task::residue_selector
• resnums_from_task() : core::pack::task::residue_selector
• restore_pose_from_rbsegs() : protocols::rbsegment_relax
• restore_residues() : protocols::forge::methods
• restrain_ligand_nbr_atom() : protocols::ligand_docking
• restrict_dna_rotamers() : protocols::dna
• restrict_prec() : core::io::pose_to_sfr
• restrict_to_canonical_aas() : protocols::multistate_design
• restrict_to_protein_residues() : protocols::ligand_docking
• restrict_to_single_sequence() : protocols::dna
• result_to_five_ss_models() : protocols::legacy_sewing
• result_to_models() : protocols::legacy_sewing
• retain_top() : core::fragment
• retrieve_assignment() : protocols::noesy_assign
• retrieve_base_partner_from_pose() : core::scoring::dna
• retrieve_base_partner_from_pose_inline() : core::scoring::methods
• retrieve_centroid_scatter_from_pose() : core::scoring::fiber_diffraction
• retrieve_connection_architect() : protocols::denovo_design::connection
• retrieve_const_ss_info_from_pose() : core::scoring
• retrieve_coordinates() : core::scoring
• retrieve_CSA_from_pose() : core::scoring
• retrieve_DC_from_pose() : core::scoring
• retrieve_denovo_architect() : protocols::denovo_design::architects
• retrieve_fa_scatter_from_pose() : core::scoring::fiber_diffraction
• retrieve_lkb_resdata() : core::scoring::lkball
• retrieve_lkb_rotamer_set_info() : core::scoring::lkball
• retrieve_mp_pairdata() : core::scoring::methods
• retrieve_mp_resdata() : core::scoring::methods
• retrieve_mp_resdata_ptr() : core::scoring::methods
• retrieve_mp_residue_info() : core::scoring::methods
• retrieve_nonconst_mp_pairdata() : core::scoring::methods
• retrieve_nonconst_mp_resdata() : core::scoring::methods
• retrieve_nonconst_mp_residue_info() : core::scoring::methods
• retrieve_nonconst_ss_info_from_pose() : core::scoring
• retrieve_nonconst_vdw_pairdata() : core::scoring::methods
• retrieve_nonconst_vdw_resdata() : core::scoring::methods
• retrieve_nonconst_vdw_residue_info() : core::scoring::methods
• retrieve_RDC_from_pose() : core::scoring
• retrieve_RDC_ROHL_from_pose() : core::scoring
• retrieve_RDC_segments_from_pose() : protocols::scoring
• retrieve_residue_num_of_rkde() : protocols::features::strand_assembly
• retrieve_vdw_pairdata() : core::scoring::methods
• retrieve_vdw_resdata() : core::scoring::methods
• retrieve_vdw_resdata_ptr() : core::scoring::methods
• retrieve_vdw_residue_info() : core::scoring::methods
• return_nearest_residue() : core::conformation::symmetry , core::pose
• return_region() : protocols::grafting
• retype_is_aromatic() : core::chemical
• reverse_chains() : protocols::denovo_design::components
• reverse_lengths() : protocols::denovo_design::components
• reverse_orientations() : protocols::denovo_design::components
• revert_to_pre_talaris_2013_defaults() : core::init
• revise_root_and_moving_res() : protocols::stepwise::modeler
• revise_root_and_moving_res_list() : protocols::stepwise::modeler
• rigid_body_move() : protocols::toolbox::pose_manipulation
• ring_current_effect() : core::scoring::rna::chemical_shift
• ring_current_effect_individual_ring() : core::scoring::rna::chemical_shift
• ring_pos() : core::scoring::rna::chemical_shift
• rlto_datamap_category() : core::pack::task::operation
• rm_variant() : protocols::environment
• rms_at_all_corresponding_atoms() : core::scoring
• rms_at_corresponding_atoms() : core::scoring
• rms_at_corresponding_atoms_no_super() : core::scoring
• rms_at_corresponding_heavy_atoms() : core::scoring
• rms_error_with_noise() : core::import_pose::atom_tree_diffs
• RMSD() : protocols::cluster::calibur
• RMSD_FRAG_STORE() : protocols::loops::loop_closure::ccd
• rmsd_no_super() : core::scoring
• rmsd_no_super_subset() : core::scoring
• rmsd_over_residue_list() : protocols::stepwise::modeler::rna
• rmsd_with_super() : core::scoring
• rmsd_with_super_subset() : core::scoring
• RMSwrapper() : protocols::simple_filters
• rna_dna_match() : core::chemical::rna
• rna_elec_weight() : core::scoring::elec
• RNA_HIRES_WTS() : core::scoring
• RNA_LORES_PLUS_HIRES_WTS() : core::scoring
• RNA_LORES_WTS() : core::scoring
• rna_nts() : core::chemical::rna
• rna_residue_name_to_num() : core::scoring::rna
• rna_residue_type_to_num() : core::scoring::rna
• rna_scoring_info_from_pose() : core::scoring::rna
• rolling_score() : protocols::frag_picker::scores
• rootj() : core::scoring::fiber_diffraction
• ROSETTA_LIBRARY_DOMAIN() : core::import_pose::libraries
• rosetta_recharge_fullatom() : core::chemical
• rosetta_retype_fullatom() : core::chemical
• rot_mat() : protocols::forge::remodel
• rot_pose() : protocols::matdes , protocols::sic_dock
• rot_sample_from_name() : core::pack::task
• rotamer_from_chi() : core::pack::dunbrack
• rotamer_from_chi_02() : core::pack::dunbrack
• rotamer_information_from_PDB_stream() : core::pack::rotamers
• rotamer_recovery() : core::pack
• rotamer_sampling_data_xml_schema_attributes() : core::pack::task::operation
• rotamer_trials() : core::pack
• rotamers_for_trials() : protocols::ligand_docking
• RotamerTracer() : protocols::RotamerDump
• ROTATE() : core::scoring , protocols::cluster::calibur
• rotate() : protocols::cluster::calibur
• ROTATE() : protocols::evaluation
• rotate() : protocols::toolbox::rigid_body
• ROTATE() : protocols::toolbox
• rotate_anchor_to_x_axis() : core::pose::symmetry
• rotate_into_nucleobase_frame() : protocols::toolbox::sample_around
• rotate_into_phosphate_frame() : protocols::toolbox::sample_around
• rotate_vec() : protocols::toolbox
• rotates_tracer() : protocols::ligand_docking
• rotation_matrix_from_euler_angles() : core::scoring::nmr
• RotBoltzWeight_subelement_ct_name() : protocols::calc_taskop_filters
• rots_from_pose() : protocols::comparative_modeling
• round() : protocols::noesy_assign
• round_to_float() : protocols::features::strand_assembly
• round_to_Real() : protocols::features::strand_assembly
• round_to_Size() : protocols::features::strand_assembly
• rpm_type1() : core::scoring::motif
• rpm_type2() : core::scoring::motif
• rsd_closest_to_chain_com() : protocols::membrane
• rsd_closest_to_chain_tm_com() : protocols::membrane
• rsd_closest_to_pose_tm_com() : protocols::membrane
• rsd_op() : protocols::denovo_design::components
• rsd_set_from_cmd_line() : core::chemical
• rt6_rt6_bb_dis2() : core::scoring::motif
• rt6_rt6_bb_dis2_explicit_stupid() : core::scoring::motif
• rt6_rt6_dis2() : core::scoring::motif
• RT_from_epos() : protocols::jumping
• rt_to_real6() : core::scoring::motif
• rtas_subelement_ct_naming_function() : protocols::task_operations
• run_boinc_debug() : protocols::abinitio
• run_command() : protocols::frag_picker
• run_metrics() : core::simple_metrics
• run_shear_min_pack() : protocols::carbohydrates
• Run_WriteToDB_sandwich() : protocols::features::strand_assembly
• runpsipred_name_mangle_check() : core::io::external