| add_coordinate_constraints(core::pose::Pose &pose, core::pose::Pose const &source_pose, core::Size nearest_to_from, core::Size nearest_to_to, core::Size anchor, std::string atom_type="CA", core::pack::task::PackerTaskOP task=nullptr) | protocols::splice::SpliceManager | |
| add_dihedral_constraints(core::pose::Pose &pose, core::pose::Pose const &source_pose, core::Size nearest_to_from, core::Size nearest_to_to) | protocols::splice::SpliceManager | |
| add_sequence_constraints(core::pose::Pose &pose) | protocols::splice::SpliceManager | |
| add_sequence_constraints_only(bool const b) | protocols::splice::SpliceManager | inline |
| add_sequence_constraints_only() | protocols::splice::SpliceManager | inline |
| add_sequence_constraints_only_ | protocols::splice::SpliceManager | private |
| adjust_stem_positions_by_template(core::pose::Pose const &pose) | protocols::splice::SpliceManager | |
| adjust_stem_positions_by_template_ | protocols::splice::SpliceManager | |
| allowed_cuts() const | protocols::splice::SpliceManager | inline |
| allowed_cuts(core::Size const s) | protocols::splice::SpliceManager | inline |
| allowed_cuts_ | protocols::splice::SpliceManager | private |
| anchor_res() | protocols::splice::SpliceManager | inline |
| anchor_res(core::Size const c) | protocols::splice::SpliceManager | inline |
| anchor_res_ | protocols::splice::SpliceManager | private |
| chain_num(core::Size const i) | protocols::splice::SpliceManager | inline |
| chain_num() const | protocols::splice::SpliceManager | inline |
| chain_num_ | protocols::splice::SpliceManager | private |
| chainbreak_check(core::pose::Pose const &pose, core::Real const tolerance, bool fail_retry_if_found, bool crash_if_found) | protocols::splice::SpliceManager | |
| check_sequence_profile(core::pose::Pose &pose, core::id::SequenceMappingOP smap, core::sequence::SequenceProfileOP seqprof) | protocols::splice::SpliceManager | |
| cut_site(core::Size const c) | protocols::splice::SpliceManager | inline |
| cut_site() | protocols::splice::SpliceManager | inline |
| cut_site_ | protocols::splice::SpliceManager | private |
| dbase_file_name(std::string const &s) | protocols::splice::SpliceManager | inline |
| dbase_file_name() const | protocols::splice::SpliceManager | inline |
| dbase_file_name_ | protocols::splice::SpliceManager | private |
| debug() const | protocols::splice::SpliceManager | inline |
| debug(bool const s) | protocols::splice::SpliceManager | inline |
| debug_ | protocols::splice::SpliceManager | private |
| design_shell(core::Real const c) | protocols::splice::SpliceManager | inline |
| design_shell() const | protocols::splice::SpliceManager | inline |
| design_shell_ | protocols::splice::SpliceManager | private |
| dofs(ResidueBBDofs const &d) | protocols::splice::SpliceManager | inline |
| dofs() | protocols::splice::SpliceManager | inline |
| dofs_ | protocols::splice::SpliceManager | private |
| fold_tree(core::pose::Pose &pose, utility::vector1< std::array< int, 3 >> positions) const | protocols::splice::SpliceManager | |
| generate_profile_from_seq(std::map< std::string, std::string > segment_seq_map, std::string segmentName, std::string sourcename, SpliceSegmentOP SpliceSegment) | protocols::splice::SpliceManager | |
| generate_sequence_profile(core::pose::Pose &pose) | protocols::splice::SpliceManager | |
| mm() | protocols::splice::SpliceManager | inline |
| mm(core::kinematics::MoveMapOP const m) | protocols::splice::SpliceManager | inline |
| mm_ | protocols::splice::SpliceManager | private |
| modify_pdb_segments_with_current_segment(std::string const &pdb_name) | protocols::splice::SpliceManager | |
| mover_name() const | protocols::splice::SpliceManager | inline |
| mover_name(std::string const &s) | protocols::splice::SpliceManager | inline |
| mover_name_ | protocols::splice::SpliceManager | private |
| parse_segments(utility::vector1< TagCOP > const &sub_tags, TagCOP const tag, basic::datacache::DataMap &data) | protocols::splice::SpliceManager | |
| parse_tags(TagCOP const tag, basic::datacache::DataMap &data) | protocols::splice::SpliceManager | |
| pdb_segments(std::map< std::string, std::string > const &m) | protocols::splice::SpliceManager | inline |
| pdb_segments() | protocols::splice::SpliceManager | inline |
| pdb_segments_ | protocols::splice::SpliceManager | private |
| pose_from_res() | protocols::splice::SpliceManager | inline |
| pose_from_res(core::Size const i) | protocols::splice::SpliceManager | inline |
| pose_from_res_ | protocols::splice::SpliceManager | private |
| pose_to_res() | protocols::splice::SpliceManager | inline |
| pose_to_res(core::Size const i) | protocols::splice::SpliceManager | inline |
| pose_to_res_ | protocols::splice::SpliceManager | private |
| profile_weight_away_from_interface() const | protocols::splice::SpliceManager | inline |
| profile_weight_away_from_interface(core::Real const p) | protocols::splice::SpliceManager | inline |
| profile_weight_away_from_interface_ | protocols::splice::SpliceManager | private |
| rb_adjust_template(core::pose::Pose const &pose) const | protocols::splice::SpliceManager | |
| rb_sensitive(bool const b) | protocols::splice::SpliceManager | inline |
| rb_sensitive() const | protocols::splice::SpliceManager | inline |
| rb_sensitive_ | protocols::splice::SpliceManager | private |
| repack_shell(core::Real const c) | protocols::splice::SpliceManager | inline |
| repack_shell() const | protocols::splice::SpliceManager | inline |
| repack_shell_ | protocols::splice::SpliceManager | private |
| residue_diff(core::Size const c) | protocols::splice::SpliceManager | inline |
| residue_diff() | protocols::splice::SpliceManager | inline |
| residue_diff_ | protocols::splice::SpliceManager | private |
| scorefxn(core::scoring::ScoreFunctionOP sf) | protocols::splice::SpliceManager | inline |
| scorefxn() const | protocols::splice::SpliceManager | inline |
| scorefxn_ | protocols::splice::SpliceManager | private |
| segment_names_ordered(utility::vector1< std::string > SegNameOrder) | protocols::splice::SpliceManager | inline |
| segment_names_ordered() | protocols::splice::SpliceManager | inline |
| segment_names_ordered_ | protocols::splice::SpliceManager | private |
| segment_type(std::string const &s) | protocols::splice::SpliceManager | inline |
| segment_type() | protocols::splice::SpliceManager | inline |
| segment_type_ | protocols::splice::SpliceManager | private |
| set_BB_dofs(core::pose::Pose &pose) | protocols::splice::SpliceManager | |
| source_pdb_name(std::string const &s) | protocols::splice::SpliceManager | inline |
| source_pdb_name() | protocols::splice::SpliceManager | inline |
| source_pdb_name_ | protocols::splice::SpliceManager | private |
| splice_segments() | protocols::splice::SpliceManager | inline |
| splice_segments(std::map< std::string, SpliceSegmentOP > const &m) | protocols::splice::SpliceManager | inline |
| splice_segments_ | protocols::splice::SpliceManager | private |
| SpliceManager() | protocols::splice::SpliceManager | |
| tail_seg() | protocols::splice::SpliceManager | inline |
| tail_seg(std::string const &s) | protocols::splice::SpliceManager | inline |
| tail_seg_ | protocols::splice::SpliceManager | private |
| task_factory() const | protocols::splice::SpliceManager | inline |
| task_factory(core::pack::task::TaskFactoryOP tf) | protocols::splice::SpliceManager | inline |
| task_factory_ | protocols::splice::SpliceManager | private |
| template_file() const | protocols::splice::SpliceManager | inline |
| template_file(std::string const &s) | protocols::splice::SpliceManager | inline |
| template_file_ | protocols::splice::SpliceManager | private |
| template_from_res() | protocols::splice::SpliceManager | inline |
| template_from_res(core::Size const i) | protocols::splice::SpliceManager | inline |
| template_from_res_ | protocols::splice::SpliceManager | private |
| template_pose() | protocols::splice::SpliceManager | inline |
| template_pose(core::pose::PoseOP const pose) | protocols::splice::SpliceManager | inline |
| template_pose_ | protocols::splice::SpliceManager | private |
| template_to_res() | protocols::splice::SpliceManager | inline |
| template_to_res(core::Size const i) | protocols::splice::SpliceManager | inline |
| template_to_res_ | protocols::splice::SpliceManager | private |
| thread_original_sequence() const | protocols::splice::SpliceManager | inline |
| thread_original_sequence(bool const s) | protocols::splice::SpliceManager | inline |
| thread_original_sequence_ | protocols::splice::SpliceManager | private |
| update_pose_stem_positions() | protocols::splice::SpliceManager | |
| use_sequence_profiles(bool const b) | protocols::splice::SpliceManager | inline |
| use_sequence_profiles() | protocols::splice::SpliceManager | inline |
| use_sequence_profiles_ | protocols::splice::SpliceManager | private |
| ~SpliceManager() override | protocols::splice::SpliceManager | |
1.8.7