Referenced by CustomMover::apply(), InteractionDistMinimizer::apply(), MembraneViewMover::apply(), MembraneRelaxMover::apply(), backrub_protocol(), build_helix_test(), build_next_nucleotide_test(), calc_rmsd_test(), dsRNA_grow::constrain_and_minimize(), convert_to_native_test(), define_states_test(), dinucleotide_test(), dsRNA_grow::dsRNA_grow(), env_sugar_test(), erraser_monte_carlo(), get_pose_energy_breakdown(), hermann_phase_two_minimize(), juke_sam_test(), loop_closure_test(), main(), dsRNA_grow::minimize(), minimize_helix(), minimize_pdb(), minimize_poses(), minimize_protocol(), minimize_to_close(), minimizer_test(), modeler_closure_test(), mutate_residues_wrapper(), MembraneViewMover::new_fastrelax_cycle(), parse_pathway_test(), pdb_to_silent_file(), pdb_to_silent_file_simple(), post_rebuild_bulge_assembly(), print_hbonds_test(), rebuild_test(), repack_test(), rna_close_chainbreaks_test(), rna_fullatom_minimize_silent_test(), rna_fullatom_multiscore_test(), rna_o2prime_test(), rotamerize_rna_test(), sample_trp_test(), sample_trp_tyr_test(), sasa_test(), slice_ellipsoid_envelope(), slice_sample_res_and_surrounding(), stepwise_template_test(), sugar_frag_RNA_test(), sugar_geometry_RNA_test(), and test_function().
