| _static_type_name() | core::fragment::Frame | static |
| add_fragment(FragDataCOP new_frag) | core::fragment::Frame | |
| add_fragment(FragDataCOPs new_frags) | core::fragment::Frame | |
| align(core::id::SequenceMapping const &map) | core::fragment::Frame | virtual |
| apply(kinematics::MoveMap const &, core::Size frag_num, pose::Pose &pose) const | core::fragment::Frame | |
| apply(core::Size frag_num, pose::Pose &pose) const | core::fragment::Frame | |
| apply_ranked_fragment(core::pose::Pose &pose, core::Size frag_rank) | protocols::enzdes::EnzdesFlexibleRegion | |
| apply_ss(kinematics::MoveMap const &, core::Size frag_num, std::string &ss) const | core::fragment::Frame | |
| assemble_enzdes_fragdata(core::pose::Pose const &pose) | protocols::enzdes::EnzdesFlexibleRegion | |
| cache(std::string tag, BaseCacheUnitOP const &new_cache) const | core::fragment::Frame | |
| calculate_rotamer_set_design_targets_partition_sum(core::pose::Pose const &pose, core::scoring::ScoreFunctionCOP scorefxn, core::pack::task::PackerTaskCOP task, core::Size const threads_to_request) const | protocols::enzdes::EnzdesFlexibleRegion | |
| clear() | core::fragment::Frame | |
| clone() const | core::fragment::Frame | virtual |
| clone_cache_data(Frame const &source, core::Size sid, core::Size nid) | core::fragment::Frame | |
| clone_with_frags() const | core::fragment::Frame | virtual |
| clone_with_template() | core::fragment::Frame | virtual |
| compare_SizeRealPairs(SizeRealPair const &first, SizeRealPair const &second) | protocols::enzdes::EnzdesFlexibleRegion | inlinestatic |
| contains_catalytic_res() const | protocols::enzdes::EnzdesFlexibleRegion | |
| contains_seqpos(core::Size seqpos) const | core::fragment::Frame | |
| declare_remodelable(core::Size min_length, core::Size max_length) | protocols::enzdes::EnzdesFlexibleRegion | |
| deltaE_best(core::Size const frag_rank) const | protocols::enzdes::EnzdesFlexibleRegion | |
| design_targets_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| desired_remodel_ss_strings_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| end() const | core::fragment::Frame | |
| enz_loop_info() const | protocols::enzdes::EnzdesFlexibleRegion | |
| enzdes_protocol_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| EnzdesFlexibleRegion(core::Size index_in, core::Size start, core::Size end, core::Size nr_res, core::pose::Pose const &pose, EnzdesFlexBBProtocolCAP enz_prot) | protocols::enzdes::EnzdesFlexibleRegion | |
| EnzdesFlexibleRegion() | protocols::enzdes::EnzdesFlexibleRegion | private |
| examine_new_loopconf(core::pose::Pose const &pose, core::pose::Pose &template_pose, utility::vector1< core::pose::PoseOP > &compare_poses, utility::vector1< core::Real > &rmsd_to_native) | protocols::enzdes::EnzdesFlexibleRegion | |
| extract_lig_designability_score(core::pose::Pose const &pose, core::pack::task::PackerTaskCOP task, core::Real &backgroundE) | protocols::enzdes::EnzdesFlexibleRegion | |
| frag_designabilities_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| frag_id(core::Size frag_num) const | core::fragment::Frame | |
| fragment(core::Size frag_num) const | core::fragment::Frame | |
| fragment_as_pose(core::Size frag_num, pose::Pose &pose, chemical::ResidueTypeSetCAP restype_set) const | core::fragment::Frame | |
| fragment_ptr(core::Size frag_num) const | core::fragment::Frame | |
| Frame() | core::fragment::Frame | |
| Frame(core::Size begin, core::Size end, core::Size nr_res) | core::fragment::Frame | |
| Frame(core::Size start, core::Size length) | core::fragment::Frame | |
| Frame(core::Size start) | core::fragment::Frame | |
| Frame(core::Size start, FragDataCOP const &frag1) | core::fragment::Frame | |
| Frame(core::Size start, core::Size length, SingleResidueFragDataOP srfd) | core::fragment::Frame | |
| generate_sub_frame(Size length, Size start=1) const | core::fragment::Frame | |
| get_10A_neighbors(core::pose::Pose const &pose) const | protocols::enzdes::EnzdesFlexibleRegion | |
| get_region_mm_bend_score(core::pose::Pose const &pose) const | protocols::enzdes::EnzdesFlexibleRegion | |
| get_region_total_score(core::pose::Pose const &pose) const | protocols::enzdes::EnzdesFlexibleRegion | |
| hack_fillup_frag_designabilities() | protocols::enzdes::EnzdesFlexibleRegion | |
| index() const | protocols::enzdes::EnzdesFlexibleRegion | inline |
| index_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| init_length(core::Size start, core::Size end, core::Size length) | core::fragment::Frame | protected |
| is_applicable(kinematics::MoveMap const &) const | core::fragment::Frame | |
| is_compatible(FragDataCOP new_frag) const | core::fragment::Frame | protected |
| is_continuous() const | core::fragment::Frame | virtual |
| is_mergeable(Frame const &other) const | core::fragment::Frame | |
| is_valid() const | core::fragment::Frame | |
| length() const | core::fragment::Frame | |
| merge(Frame const &other) | core::fragment::Frame | |
| minimize_region(core::pose::Pose &pose, core::scoring::ScoreFunctionCOP scorefxn, std::set< core::Size > const &chi_to_move, bool const including_CA_angles, core::Real min_tolerance) | protocols::enzdes::EnzdesFlexibleRegion | |
| moves_residue(core::Size pos) const | core::fragment::Frame | virtual |
| native_conf_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| no_ranked_frags() const | protocols::enzdes::EnzdesFlexibleRegion | inline |
| nr_frags() const | core::fragment::Frame | |
| nr_res_affected(kinematics::MoveMap const &mm) const | core::fragment::Frame | |
| positions() const | protocols::enzdes::EnzdesFlexibleRegion | inline |
| positions_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| read(std::istream &in) | core::fragment::Frame | virtual |
| remap_resid(core::pose::Pose const &pose, core::id::SequenceMapping const &smap) | protocols::enzdes::EnzdesFlexibleRegion | |
| remodel_max_length() const | protocols::enzdes::EnzdesFlexibleRegion | inline |
| remodel_max_length_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| remodel_min_length() const | protocols::enzdes::EnzdesFlexibleRegion | inline |
| remodel_min_length_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| remodelable() const | protocols::enzdes::EnzdesFlexibleRegion | inline |
| remodelable_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| scale_target_proximity_to_other_conformations(core::Real factor) | protocols::enzdes::EnzdesFlexibleRegion | inline |
| scale_target_proximity_to_starting_conformation(core::Real factor) | protocols::enzdes::EnzdesFlexibleRegion | inline |
| seqpos(core::Size intra_pos) const | core::fragment::Frame | virtual |
| set_target_proximity_to_starting_conformation(core::Real proximity) | protocols::enzdes::EnzdesFlexibleRegion | inline |
| shift_by(int offset) | core::fragment::Frame | virtual |
| shift_to(core::Size setting) | core::fragment::Frame | virtual |
| show(std::ostream &out) const | core::fragment::Frame | virtual |
| show_classic(std::ostream &out) const | core::fragment::Frame | virtual |
| show_fragments(std::ostream &out) const | core::fragment::Frame | protectedvirtual |
| show_header(std::ostream &out) const | core::fragment::Frame | virtual |
| SizeRealPair typedef | protocols::enzdes::EnzdesFlexibleRegion | private |
| sort_ensemble_by_designability(core::pose::Pose const &ref_pose, core::scoring::ScoreFunctionOP scorefxn, core::pack::task::PackerTaskCOP task) | protocols::enzdes::EnzdesFlexibleRegion | |
| start() const | core::fragment::Frame | |
| steal(pose::Pose const &pose) | core::fragment::Frame | |
| stop() const | core::fragment::Frame | |
| Super typedef | protocols::enzdes::EnzdesFlexibleRegion | private |
| target_proximity_to_native_conformation_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| target_proximity_to_other_conformations_ | protocols::enzdes::EnzdesFlexibleRegion | private |
| type() const | core::fragment::Frame | virtual |
| ~EnzdesFlexibleRegion() override | protocols::enzdes::EnzdesFlexibleRegion | |
| ~Frame() override | core::fragment::Frame | |
1.8.7