| apply(core::pose::Pose &pose) override | protocols::cyclic_peptide::TryDisulfPermutations | virtual |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const override | protocols::cyclic_peptide::TryDisulfPermutations | virtual |
| consider_already_bonded() const | protocols::cyclic_peptide::TryDisulfPermutations | inline |
| consider_already_bonded_ | protocols::cyclic_peptide::TryDisulfPermutations | private |
| create() | protocols::moves::Mover | virtual |
| Filters_map typedef | protocols::moves::Mover | |
| fresh_instance() const override | protocols::cyclic_peptide::TryDisulfPermutations | virtual |
| generate_disulf_permutations(utility::vector1< core::Size > const &residues, utility::vector1< utility::vector1< std::pair< core::Size, core::Size > > > &permutations) const | protocols::cyclic_peptide::TryDisulfPermutations | private |
| generate_disulfides(core::pose::PoseOP pose, utility::vector1< std::pair< core::Size, core::Size > > disulf_pairs) const | protocols::cyclic_peptide::TryDisulfPermutations | private |
| get_additional_output() | protocols::moves::Mover | 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::cyclic_peptide::TryDisulfPermutations | 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 |
| increment_index(utility::vector1< core::Size > &index, core::Size const index_index, core::Size const max_levels) const | protocols::cyclic_peptide::TryDisulfPermutations | private |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| is_in_list(core::Size const val, utility::vector1< core::Size > const &list) const | protocols::cyclic_peptide::TryDisulfPermutations | inlineprivate |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| mintolerance() const | protocols::cyclic_peptide::TryDisulfPermutations | inline |
| mintolerance_ | protocols::cyclic_peptide::TryDisulfPermutations | private |
| mintype() const | protocols::cyclic_peptide::TryDisulfPermutations | inline |
| mintype_ | protocols::cyclic_peptide::TryDisulfPermutations | private |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| mover_is_unpublished() const override | protocols::cyclic_peptide::TryDisulfPermutations | virtual |
| mover_name() | protocols::cyclic_peptide::TryDisulfPermutations | static |
| mover_provides_citation_info() const | protocols::moves::Mover | virtual |
| name() | protocols::moves::Mover | inlinestatic |
| parse_my_tag(utility::tag::TagCOP tag, basic::datacache::DataMap &datamap, protocols::filters::Filters_map const &filters, protocols::moves::Movers_map const &movers, core::pose::Pose const &) override | protocols::cyclic_peptide::TryDisulfPermutations | virtual |
| Pose typedef | protocols::moves::Mover | |
| PoseCOP typedef | protocols::moves::Mover | |
| provide_authorship_info_for_unpublished() const override | protocols::cyclic_peptide::TryDisulfPermutations | virtual |
| provide_citation_info() const | protocols::moves::Mover | virtual |
| provide_xml_schema(utility::tag::XMLSchemaDefinition &xsd) | protocols::cyclic_peptide::TryDisulfPermutations | static |
| recursively_generate_permutation(utility::vector1< std::pair< core::Size, core::Size > > &cur_permutation, utility::vector1< core::Size > const &residues, utility::vector1< bool > &placed, utility::vector1< core::Size > const &index, core::Size const &level) const | protocols::cyclic_peptide::TryDisulfPermutations | private |
| register_options() | protocols::moves::Mover | inlinestatic |
| reinitialize_for_each_job() const | protocols::moves::Mover | virtual |
| reinitialize_for_new_input() const | protocols::moves::Mover | virtual |
| repack_minimize_disulfides(core::pose::PoseOP pose, utility::vector1< core::Size > const &disulf_res) const | protocols::cyclic_peptide::TryDisulfPermutations | private |
| reset_status() | protocols::moves::Mover | |
| selector_ | protocols::cyclic_peptide::TryDisulfPermutations | private |
| set_consider_already_bonded(bool const setting) | protocols::cyclic_peptide::TryDisulfPermutations | inline |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inlinevirtual |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_mintolerance(core::Real const &val) | protocols::cyclic_peptide::TryDisulfPermutations | inline |
| set_mintype(std::string const &type) | protocols::cyclic_peptide::TryDisulfPermutations | inline |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_selector(core::select::residue_selector::ResidueSelectorCOP selector_in) | protocols::cyclic_peptide::TryDisulfPermutations | |
| set_type(std::string const &setting) | protocols::moves::Mover | inline |
| show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
| Strings typedef | protocols::moves::Mover | |
| TagCOP typedef | protocols::moves::Mover | |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| TryDisulfPermutations() | protocols::cyclic_peptide::TryDisulfPermutations | |
| TryDisulfPermutations(TryDisulfPermutations const &src) | protocols::cyclic_peptide::TryDisulfPermutations | |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| type() const | protocols::moves::Mover | inline |
| ~TryDisulfPermutations() override | protocols::cyclic_peptide::TryDisulfPermutations | |
1.8.7