| apply(core::pose::Pose &) | protocols::motifs::MotifDnaPacker | virtual |
| protocols::moves::Mover::apply(core::io::serialization::PipeMap &pmap) | protocols::moves::Mover | virtual |
| aromatic_motifs(core::pose::Pose &pose, utility::vector1< core::Size > &design_positions, std::set< core::Size > &src_pos, std::map< core::Size, core::pack::rotamer_set::Rotamers > &rotamer_map, std::map< core::Size, std::set< std::string > > &types_map, std::list< std::string > &info_lines, core::pack::task::TaskFactoryOP taskfactory) | protocols::motifs::MotifDnaPacker | private |
| aromatic_motifs_ | protocols::motifs::MotifDnaPacker | private |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const | protocols::motifs::MotifDnaPacker | virtual |
| create() | protocols::moves::Mover | virtual |
| dna_design_ | protocols::motifs::MotifDnaPacker | private |
| dna_packer_ | protocols::motifs::MotifDnaPacker | private |
| expand_motifs(core::pose::Pose &pose, utility::vector1< core::Size > &design_positions, std::set< core::Size > &src_pos, std::map< core::Size, core::pack::rotamer_set::Rotamers > &rotamer_map, std::map< core::Size, std::set< std::string > > &types_map, std::list< std::string > &info_lines, core::pack::task::TaskFactoryOP taskfactory) | protocols::motifs::MotifDnaPacker | private |
| expand_motifs_ | protocols::motifs::MotifDnaPacker | private |
| filename_root_ | protocols::motifs::MotifDnaPacker | private |
| Filters_map typedef | protocols::moves::Mover | |
| flex_dna_sugar_ | protocols::motifs::MotifDnaPacker | private |
| fresh_instance() const | protocols::motifs::MotifDnaPacker | virtual |
| 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 | protocols::motifs::MotifDnaPacker | virtual |
| get_native_pose() const | protocols::moves::Mover | |
| get_type() const | protocols::moves::Mover | inline |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| init_options() | protocols::motifs::MotifDnaPacker | private |
| init_standard(core::pose::Pose &) | protocols::motifs::MotifDnaPacker | private |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| minimize_dna_ | protocols::motifs::MotifDnaPacker | private |
| motif_search_ | protocols::motifs::MotifDnaPacker | private |
| MotifDnaPacker() | protocols::motifs::MotifDnaPacker | |
| MotifDnaPacker(core::scoring::ScoreFunctionOP, bool minimize=false, std::string filename_root="dnapacker") | protocols::motifs::MotifDnaPacker | |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| Mover(Mover const &other) | protocols::moves::Mover | |
| name() | protocols::moves::Mover | inlinestatic |
| num_repacks_ | protocols::motifs::MotifDnaPacker | private |
| operator=(Mover const &other) | protocols::moves::Mover | |
| parse_def(utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache) | protocols::moves::Mover | virtual |
| parse_my_tag(TagCOP tag, basic::datacache::DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose) | protocols::moves::Mover | virtual |
| parse_state(SerializableState const &state) | protocols::moves::Mover | virtual |
| pdboutput_ | protocols::motifs::MotifDnaPacker | private |
| Pose typedef | protocols::moves::Mover | |
| PoseCOP typedef | protocols::moves::Mover | |
| 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 | |
| run_motifs(core::pose::Pose &pose, utility::vector1< core::Size > &design_positions, std::set< core::Size > &src_pos, std::map< core::Size, core::pack::rotamer_set::Rotamers > &rotamer_map, std::map< core::Size, std::set< std::string > > &types_map, std::list< std::string > &info_lines, core::pack::task::TaskFactoryOP taskfactory) | protocols::motifs::MotifDnaPacker | private |
| run_motifs_ | protocols::motifs::MotifDnaPacker | private |
| save_state(SerializableState &state) | protocols::moves::Mover | virtual |
| scorefxn_ | protocols::motifs::MotifDnaPacker | private |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inline |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
| special_rotweight_ | protocols::motifs::MotifDnaPacker | private |
| starting_pose_ | protocols::motifs::MotifDnaPacker | private |
| Strings typedef | protocols::moves::Mover | |
| TagCOP typedef | protocols::moves::Mover | |
| targeted_dna_ | protocols::motifs::MotifDnaPacker | private |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| type() const | protocols::moves::Mover | inline |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| ~MotifDnaPacker() | protocols::motifs::MotifDnaPacker | virtual |
| ~Mover() | protocols::moves::Mover | virtual |
1.8.7