| acknowledge_neighbors_substitution() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| add_background_edge(BackgroundToFirstClassEdge< V, E, G > *edge) | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| alt_state_dots_matches_current_state_dots_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| alt_state_exp_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| alt_state_exp_hphobes_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| alt_state_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| alt_state_inv_dots() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| alt_state_inv_dots_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| alt_state_rotamer() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| alt_state_rotamer_dots_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| assign_zero_state() override | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| BackgroundEdgeList typedef | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| BackgroundEdgeListIter typedef | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| BackgroundEdgeVector typedef | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| BackgroundEdgeVectorIter typedef | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| BackgroundNodeVector typedef | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| calculate_PD_deltaE_for_substitution(int alternate_state, core::PackerEnergy &prev_PDenergies_for_node) | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| commit_considered_substitution() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| consider_alternate_state() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| count_dynamic_memory() const override | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| count_static_memory() const override | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| curr_state_exp_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| curr_state_exp_hphobes_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| curr_state_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| curr_state_inv_dots() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| curr_state_inv_dots_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| curr_state_rotamer() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| current_state_rotamer_dots_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| detect_any_overlap_with_rotamer(RotamerDots const &rotamer) const | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| drop_background_edge(BackgroundEdgeListIter edge) | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| FirstClassNode(G *owner, int node_id, int num_states) | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| get_adjacent_background_node(int index) const | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_adjacent_background_node(int index) | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_alt_state_num_atoms() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| get_alt_state_rotamer_dots() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_alternate_state_sasa(Size atom_index) const | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_atom_atom_self_overlaps_for_state(Size state) const | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_bg_edge_vector_up_to_date_() const | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_current_state_num_atoms() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| get_current_state_rotamer_dots() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_current_state_sasa() const | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_current_state_sasa(Size atom_index) const | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_edge_to_bg_node(int index) const | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_edge_to_bg_node(int index) | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_edge_to_hpatch_bg_node(int index) const | core::pack::interaction_graph::HPatchNode< V, E, G > | inlineprotected |
| get_hpatch_owner() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inlineprotected |
| get_incident_hpatch_edge(int index) const | core::pack::interaction_graph::HPatchNode< V, E, G > | inlineprotected |
| get_index_of_adjacent_background_node(int index) const | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_num_edges_to_background_nodes() const | core::pack::interaction_graph::FirstClassNode< V, E, G > | inlineprotected |
| get_pd_energy_delta() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_rotamer(int state) const | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| get_sasa_difference() const | core::pack::interaction_graph::HPatchNode< V, E, G > | protected |
| getMemoryUsageInBytes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | virtual |
| grandparent typedef | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| HPatchNode(G *owner, int node_index, int num_states) | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| HPatchNode() | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| HPatchNode(HPatchNode< V, E, G > const &) | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| hphobe_ats_for_restype_group_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| initialize_atom_atom_overlap_cache() | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| initialize_overlap_with_background(RotamerDots const &bg_rotamer, std::vector< RotamerDotsCache > &overlap, std::vector< utility::vector1< utility::vector1< bool > > > &states_atom_atom_overlap_on_bg_res) | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| initialize_self_overlap() | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| max_hphobe_atoms_any_restype() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| max_hphobes_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| n_alt_state_exp_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| n_alt_state_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| n_curr_state_exp_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| n_curr_state_hphobes() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| operator=(HPatchNode< V, E, G > const &) | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| overlaps(HPatchNode< V, E, G > *neighbor) | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| parent typedef | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| prepare_for_simulated_annealing() override | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| print() const override | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| reset_alt_state_dots() | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| restype_group_for_rotamers_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| rotamers_vector_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| self_and_bg_dots_for_states_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| self_atom_atom_overlaps_ | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| set_rotamer_dots_for_state(Size state, RotamerDots const &rd) | core::pack::interaction_graph::HPatchNode< V, E, G > | virtual |
| set_rotamers(rotamer_set::RotamerSetCOP rotamers) | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| update_alt_state_exphphobes() | core::pack::interaction_graph::HPatchNode< V, E, G > | private |
| update_bg_edge_vector() | core::pack::interaction_graph::FirstClassNode< V, E, G > | protected |
| update_state_for_neighbors_substitution(HPatchNode< V, E, G > *node_considering_substitution, RotamerDots &neighbors_alternate_state, RotamerDotsCache const &neighbors_curr_state_overlap_with_this, RotamerDotsCache &this_overlap_with_neighbors_alternate, RotamerDotsCache &neighbors_alternate_overlap_with_this, utility::vector1< utility::vector1< bool > > &alt_state_atom_atom_overlaps_cache) | core::pack::interaction_graph::HPatchNode< V, E, G > | |
| wt_residue_for_node() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| wt_seqpos_for_node() const | core::pack::interaction_graph::HPatchNode< V, E, G > | inline |
| ~FirstClassNode() override | core::pack::interaction_graph::FirstClassNode< V, E, G > | |
| ~HPatchNode() override | core::pack::interaction_graph::HPatchNode< V, E, G > | |
1.8.7