Referenced by binder.add_relevant_includes(), align_sf4(), align_zns(), numeric::deriv.angle_p1_deriv(), numeric::deriv.angle_p1_p2_p3_deriv(), numeric::deriv.angle_p2_deriv(), MinToolMover.apply(), RDCToolMover.apply(), CenRelaxMover.apply(), HolesTrainingDataMover.apply(), MyScoreMover.apply(), MinCenrotMover.apply(), CenRotRelaxMover.apply(), RepackMinCenrotMover.apply(), CenRotRBRelaxMover.apply(), pointGroupHit.as_string(), numeric::urs_Quat.asR(), utility::keys::ClassKeyMap< K, T, C >.assign(), utility::keys::SmallKeyMap< K, T >.assign(), atom_tree_torsion_test(), numeric::AxisRotationSampler.AxisRotationSampler(), benchmark_contacts(), bin_angle(), binder::ClassBinder.bind(), binder.bind_enum(), utility::graph.breadth_first_search_prune(), utility::graph.breadth_first_visit_prune(), numeric::alignment::QCPKernel< Real >.calc_rmsd_Theobald_method(), capri15_relax(), catch(), numeric.ccd_angle(), HubDenovo.cen_fold(), utility::options::OptionCollection.check_specs(), utility::options::OptionCollection.check_values(), utility::keys::ClassKeyMap< K, T, C >.ClassKeyMap(), utility::options::OptionCollection.cleaned(), comp(), compare_gpu_result_against_cpu(), contact_model_prediction(), ui::task.create_viewer_for_file(), numeric.cubic_polynomial_from_spline(), numeric::statistics.Dawson(), utility::deep_copy_vector1< T >.deep_copy_vector1(), utility::tag.define_xml_schema_group(), denom(), design(), design_cluster(), design_pose_motifs_only(), numeric::deriv.dihedral_deriv_second(), numeric::deriv.dihedral_p1_cosine_deriv_first(), numeric::deriv.dihedral_p2_cosine_deriv_first(), numeric::kinematic_closure.dixon_eig(), dna_stats(), do_initial_checks(), dock(), dump_energy_kinemage(), numeric::coordinate_fitting::CoordinateArray_RMSD_FlatLookup< Real >.entry_distance(), numeric::coordinate_fitting::CoordinateArray_RMSD_FlatLookup< Real >.entry_radius(), numeric::statistics.errf(), numeric::statistics.errfi(), numeric.euler_angles_from_rotation_matrix_ZXZ(), numeric.euler_angles_from_rotation_matrix_ZYX(), numeric.euler_angles_from_rotation_matrix_ZYZ(), numeric::HomogeneousTransform< T >.euler_angles_rad(), numeric::xyzTransform< T >.euler_angles_rad(), numeric::HomogeneousTransform< T >.euler_angles_ZYX_rad(), PerformanceBenchmark.execute(), binder.expresion_to_string(), ObjexxFCL::FArray1D< T >.FArray1D(), InterfaceDDGBindJobInputter.fill_jobs(), ObjexxFCL::Fstring.find(), ObjexxFCL::Fstring.find_first_not_of(), ObjexxFCL::Fstring.find_first_of(), utility::options::OptionCollection.find_key_cl(), ObjexxFCL::Fstring.find_last_not_of(), ObjexxFCL::Fstring.find_last_of(), ObjexxFCL.floops(), detail::dragonbox.floor_log10_pow2(), detail::dragonbox.floor_log10_pow2_minus_log10_4_over_3(), detail::dragonbox.floor_log2_pow10(), numeric::EulerAngles< T >.from_rotation_matrix(), utility::factory::Factory< P >.fxn_registry_transfer(), generate_combined_model(), generate_from_fiber(), generate_from_point(), get_atom_lk_energy_by_residue_no_count_pair(), get_axis_angle(), get_reflection_axis(), get_sc(), utility::graph::RingSizeVisitor< Graph, DistanceMap, LabelMap >.gray_target(), ObjexxFCL::Fstring.has_any_of(), numeric::xyzTransform< T >.hash64(), numeric::HomogeneousTransform< T >.HomogeneousTransform(), HubDenovo.HubDenovo(), init_torsions_still_present(), interp_linear(), ObjexxFCL.is_any_of(), is_small(), ObjexxFCL::Fstring.is_type(), ObjexxFCL::KeyFArray1D< T >.KeyFArray1D(), utility::options::ScalarOption_T_< K, T >.legal_string(), utility::options::VectorOption_T_< K, T >.legal_string(), ObjexxFCL::FArray1< T >.length(), ObjexxFCL::FArray1< T >.length_squared(), linmin(), loop_modeling_test(), m_inv_gen(), main(), make_motif_task(), numeric.max(), ObjexxFCL.max(), utility.max(), binder::ClassBinder.maybe_base_classes(), numeric.min(), ObjexxFCL.min(), utility.min(), HubDenovo.min_as_poly_ala(), minimize(), motif_column_deviation(), MoveThenFixHMin.MoveThenFixHMin(), my_main(), utility::options::OptionCollection.n_part(), numeric::HomogeneousTransform< T >.normal(), octree_test(), utility::sql_database::session.open_mysql_session(), utility::sql_database::session.open_postgres_session(), utility::sql_database::session.open_sqlite3_session(), utility::BitVector< B >.operator+=(), utility::BitSet< B >.operator-=(), utility::BitVector< B >.operator-=(), operator<<(), ObjexxFCL.operator<<(), utility::deep_copy_vector1< T >.operator=(), utility::keys::ClassKeyMap< K, T, C >.operator=(), utility::keys::SmallKeyMap< K, T >.operator=(), utility::keys::ClassKeyVector< K, T, C >.operator=(), utility::keys::KeyVector< K, T >.operator=(), utility::keys::SmallKeyVector< K, T >.operator=(), operator>>(), utility::BitVector< B >.operator|=(), SSM_energies.optimization_loop(), numeric::HomogeneousTransform< T >.orthoganol(), numeric::deriv.p1_theta_deriv(), pointGroupHit.pointGroupHit(), PoseWrap.PoseWrap(), print_energies(), basic::sampling::orientations::Quaternion.PrintEuler(), process_the_pose(), utility::factory::Factory< P >.ptr_registry_transfer(), numeric::linear_algebra.qzval(), ObjexxFCL.read_binary(), real_test_GA(), rebuild_test(), reconstruct_lattice_pose_info(), refine(), relax_cenrot_pose(), repack_all(), repack_cluster(), repackmin(), MinPackMin.rigid_body_minimization(), numeric::xyzTransform< T >.rt6(), run(), ScoreFragmentSetMover.run(), myspace::Scheduler.run_md(), ObjexxFCL::FArray2< T >.set_diagonal(), setup_symmetric_dimer(), utility::options.show_accessed_options_T(), utility::options::OptionCollection.show_all(), utility::options::OptionCollection.show_all_hier(), utility::options::OptionCollection.show_help(), utility::options::OptionCollection.show_help_hier(), utility::options::OptionCollection.show_inaccessed_user_options(), utility::options::OptionCollection.show_table_text(), utility::options::OptionCollection.show_table_Wiki(), utility::options.show_unused_options_T(), utility::options::OptionCollection.show_user(), sicdock_thread_num(), sigmoid_train(), numeric::statistics.sinc(), utility::keys::SmallKeyMap< K, T >.SmallKeyMap(), binder::Context.sort_binders(), utility.split_whitespace(), utility::keys::KeyLookup< K >.stripped_whitespace(), superimpose_A_to_all(), superimpose_pose(), svm_predict_probability(), SymmSilentFileTest(), utility.terminate_handler(), test_chunk(), tf_specificity_test(), ObjexxFCL::FArray2< T >.to_diag(), ObjexxFCL::FArray2< T >.to_identity(), transforms_equiv(), transforms_equiv_mod1(), utility::graph::RingSizeVisitor< Graph, DistanceMap, LabelMap >.tree_edge(), ObjexxFCL::Fstring.trimmed_whitespace_range(), ObjexxFCL::Fstring.type_of(), numeric::UniformRotationSampler.UniformRotationSampler(), numeric.update_5way_operation(), detail.utf8_decode(), basic::resource_manager::ResourceManager.validate_input_against_xsd(), numeric::statistics.w(), utility::options::OptionCollection.wrapped(), wriggle_test(), ObjexxFCL.write_binary(), and basic::database.write_schema_to_database().
