| allow_beta_cys_ | protocols::denovo_design::DisulfidizeMover | private |
| allow_d_cys_ | protocols::denovo_design::DisulfidizeMover | private |
| allow_l_cys_ | protocols::denovo_design::DisulfidizeMover | private |
| apply(core::pose::Pose &pose) override | protocols::rosetta_scripts::MultiplePoseMover | virtual |
| build_and_score_disulfide(core::pose::Pose &blank_pose, core::scoring::ScoreFunctionOP sfxn_disulfonly, core::scoring::ScoreFunctionOP sfxn_full, const bool relax_bb, core::Size const res1, core::Size const res2) const | protocols::denovo_design::DisulfidizeMover | |
| cached_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| check_disulfide_cb_distance(core::pose::Pose const &pose, core::Size const res1, core::Size const res2) const | protocols::denovo_design::DisulfidizeMover | |
| check_disulfide_match_rt(core::pose::Pose const &pose, core::Size const res1, core::Size const res2, core::scoring::disulfides::DisulfideMatchingPotential const &disulfPot, bool const mirror) const | protocols::denovo_design::DisulfidizeMover | |
| check_disulfide_score(core::pose::Pose &pose, core::Size const res1, core::Size const res2, core::scoring::ScoreFunctionOP sfxn_disulfonly, core::scoring::ScoreFunctionOP sfxn_full) const | protocols::denovo_design::DisulfidizeMover | |
| check_disulfide_seqpos(core::Size const res1, core::Size const res2) const | protocols::denovo_design::DisulfidizeMover | |
| check_residue_type(core::pose::Pose const &pose, core::Size const res) const | protocols::denovo_design::DisulfidizeMover | |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const override | protocols::denovo_design::DisulfidizeMover | virtual |
| create() | protocols::moves::Mover | virtual |
| current_job_ | protocols::moves::Mover | private |
| current_tag_ | protocols::moves::Mover | private |
| DisulfideList typedef | protocols::denovo_design::DisulfidizeMover | |
| DisulfidizeMover() | protocols::denovo_design::DisulfidizeMover | |
| DisulfidizeMover(DisulfidizeMover const &src) | protocols::denovo_design::DisulfidizeMover | |
| fill_input_cache() | protocols::rosetta_scripts::MultiplePoseMover | private |
| find_current_disulfides(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &subset1, core::select::residue_selector::ResidueSubset const &subset2) const | protocols::denovo_design::DisulfidizeMover | |
| find_possible_disulfides(core::pose::Pose const &pose, core::select::residue_selector::ResidueSubset const &residueset1, core::select::residue_selector::ResidueSubset const &residueset2, core::scoring::ScoreFunctionOP sfxn) const | protocols::denovo_design::DisulfidizeMover | |
| find_possible_disulfides(core::pose::Pose const &pose, std::set< core::Size > const &set1, std::set< core::Size > const &set2, core::scoring::ScoreFunctionOP sfxn) const | protocols::denovo_design::DisulfidizeMover | |
| fresh_instance() const override | protocols::rosetta_scripts::MultiplePoseMover | inlinevirtual |
| generate_pose() | protocols::rosetta_scripts::MultiplePoseMover | private |
| get_additional_output() override | protocols::rosetta_scripts::MultiplePoseMover | virtual |
| get_current_job() const | protocols::moves::Mover | |
| get_current_tag() const | protocols::moves::Mover | inline |
| get_input_pose() const | protocols::moves::Mover | |
| get_last_move_status() const | protocols::moves::Mover | |
| get_name() const override | protocols::denovo_design::DisulfidizeMover | virtual |
| get_native_pose() const | protocols::moves::Mover | |
| get_self_ptr() const | protocols::moves::Mover | inline |
| get_self_ptr() | protocols::moves::Mover | inline |
| get_self_weak_ptr() const | protocols::moves::Mover | inline |
| get_self_weak_ptr() | protocols::moves::Mover | inline |
| get_type() const | protocols::moves::Mover | inline |
| include_current_ds_ | protocols::denovo_design::DisulfidizeMover | private |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| info_ | protocols::moves::Mover | private |
| input_pose_ | protocols::moves::Mover | private |
| keep_all_ds_ | protocols::denovo_design::DisulfidizeMover | private |
| keep_current_ds_ | protocols::denovo_design::DisulfidizeMover | private |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| last_status_ | protocols::moves::Mover | private |
| make_disulfide(core::pose::Pose &pose, core::Size const res1, core::Size const res2, bool const relax_bb, core::scoring::ScoreFunctionOP sfxn) const | protocols::denovo_design::DisulfidizeMover | |
| make_disulfides(core::pose::Pose &pose, DisulfideList const &disulf, bool const relax_bb, core::scoring::ScoreFunctionOP sfxn) const | protocols::denovo_design::DisulfidizeMover | |
| match_rt_limit_ | protocols::denovo_design::DisulfidizeMover | private |
| max_dist_sq_ | protocols::denovo_design::DisulfidizeMover | private |
| max_disulf_score_ | protocols::denovo_design::DisulfidizeMover | private |
| max_disulfides_ | protocols::denovo_design::DisulfidizeMover | private |
| max_input_poses_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| max_output_poses_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| min_disulfides_ | protocols::denovo_design::DisulfidizeMover | private |
| min_loop_ | protocols::denovo_design::DisulfidizeMover | private |
| mixed_disulfide(core::pose::Pose const &pose, core::Size const res1, core::Size const res2) const | protocols::denovo_design::DisulfidizeMover | |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| mover_name() | protocols::denovo_design::DisulfidizeMover | static |
| MultiplePoseMover() | protocols::rosetta_scripts::MultiplePoseMover | |
| mutate_disulfides_to_ala(core::pose::Pose &pose, DisulfideList const ¤t_ds) const | protocols::denovo_design::DisulfidizeMover | |
| mutate_gly_ | protocols::denovo_design::DisulfidizeMover | private |
| mutate_pro_ | protocols::denovo_design::DisulfidizeMover | private |
| name() | protocols::moves::Mover | inlinestatic |
| native_pose_ | protocols::moves::Mover | private |
| noncanonical_disulfide(core::pose::Pose const &pose, core::Size const res1, core::Size const res2) const | protocols::denovo_design::DisulfidizeMover | |
| operator=(const MultiplePoseMover &)=delete | protocols::rosetta_scripts::MultiplePoseMover | private |
| parse_my_tag(utility::tag::TagCOP tag, basic::datacache::DataMap &data) override | protocols::denovo_design::DisulfidizeMover | virtual |
| Pose typedef | protocols::moves::Mover | |
| pose_input_cache_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| pose_output_cache_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| PoseCOP typedef | protocols::moves::Mover | |
| PoseList typedef | protocols::denovo_design::DisulfidizeMover | |
| poses_input_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| poses_output_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| previous_mover_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| process_pose(core::pose::Pose &pose, utility::vector1< core::pose::PoseOP > &additional_poses) override | protocols::denovo_design::DisulfidizeMover | protectedvirtual |
| process_poses(std::deque< core::pose::PoseOP > &poses) | protocols::rosetta_scripts::MultiplePoseMover | private |
| provide_citation_info(basic::citation_manager::CitationCollectionList &) const | protocols::moves::Mover | virtual |
| provide_xml_schema(utility::tag::XMLSchemaDefinition &xsd) | protocols::denovo_design::DisulfidizeMover | static |
| prune_symmetric_disulfides(core::pose::Pose const &pose, DisulfideList &disulf_list) const | protocols::denovo_design::DisulfidizeMover | protected |
| recursive_multiple_disulfide_former(DisulfideList const &disulfides_formed, DisulfideList const &disulfides_possible) const | protocols::denovo_design::DisulfidizeMover | |
| register_options() | protocols::moves::Mover | inlinestatic |
| reinitialize_for_each_job() const | protocols::moves::Mover | virtual |
| reinitialize_for_new_input() const | protocols::moves::Mover | virtual |
| reset_status() | protocols::moves::Mover | |
| rosetta_scripts_tag_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| score_or_matchrt_ | protocols::denovo_design::DisulfidizeMover | private |
| select_poses(std::deque< core::pose::PoseOP > &poses) | protocols::rosetta_scripts::MultiplePoseMover | private |
| selector_tag_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| selectors_ | protocols::rosetta_scripts::MultiplePoseMover | private |
| set1_selector_ | protocols::denovo_design::DisulfidizeMover | private |
| set2_selector_ | protocols::denovo_design::DisulfidizeMover | private |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inlinevirtual |
| set_cys_types(bool const lcys, bool const dcys, bool const beta_cys) | protocols::denovo_design::DisulfidizeMover | |
| set_include_current_ds(bool const include_current) | protocols::denovo_design::DisulfidizeMover | inline |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_keep_current_ds(bool const keep_current) | protocols::denovo_design::DisulfidizeMover | inline |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_match_rt_limit(core::Real const matchrtval) | protocols::denovo_design::DisulfidizeMover | |
| set_max_dist(core::Real const dist) | protocols::denovo_design::DisulfidizeMover | |
| set_max_disulf_score(core::Real const maxscoreval) | protocols::denovo_design::DisulfidizeMover | |
| set_max_disulfides(core::Size const max_disulf) | protocols::denovo_design::DisulfidizeMover | inline |
| set_min_disulfides(core::Size const min_disulf) | protocols::denovo_design::DisulfidizeMover | inline |
| set_min_loop(core::Size const minloopval) | protocols::denovo_design::DisulfidizeMover | |
| set_mutate_gly(bool const mutate_gly) | protocols::denovo_design::DisulfidizeMover | |
| set_mutate_pro(bool const mutate_pro) | protocols::denovo_design::DisulfidizeMover | |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_previous_mover(protocols::moves::MoverOP const m) | protocols::rosetta_scripts::MultiplePoseMover | |
| set_rosetta_scripts_tag(utility::tag::TagCOP tag) | protocols::rosetta_scripts::MultiplePoseMover | |
| set_score_or_matchrt(bool const score_or_match) | protocols::denovo_design::DisulfidizeMover | inline |
| set_scorefxn(core::scoring::ScoreFunctionCOP sfxn_in) | protocols::denovo_design::DisulfidizeMover | |
| set_set1_selector(core::select::residue_selector::ResidueSelectorCOP selector) | protocols::denovo_design::DisulfidizeMover | |
| set_set2_selector(core::select::residue_selector::ResidueSelectorCOP selector) | protocols::denovo_design::DisulfidizeMover | |
| set_sort_scorefxn(core::scoring::ScoreFunctionCOP sort_scorefxn) | protocols::denovo_design::DisulfidizeMover | |
| set_type(std::string const &setting) | protocols::moves::Mover | inline |
| sfxn_ | protocols::denovo_design::DisulfidizeMover | private |
| show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
| sort_sfxn_ | protocols::denovo_design::DisulfidizeMover | private |
| Strings typedef | protocols::moves::Mover | |
| tag_disulfide(core::pose::Pose &pose, core::Size const res1, core::Size const res2) const | protocols::denovo_design::DisulfidizeMover | |
| tag_disulfides(core::pose::Pose &pose, DisulfidizeMover::DisulfideList const &disulf) const | protocols::denovo_design::DisulfidizeMover | |
| TagCOP typedef | protocols::moves::Mover | |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| type() const | protocols::moves::Mover | inline |
| type_ | protocols::moves::Mover | private |
| ~DisulfidizeMover() override | protocols::denovo_design::DisulfidizeMover | |
| ~MultiplePoseMover() override=default | protocols::rosetta_scripts::MultiplePoseMover | |
