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core::pack::interaction_graph::SurfaceNode< V, E, G > Member List

This is the complete list of members for core::pack::interaction_graph::SurfaceNode< V, E, G >, including all inherited members.

acknowledge_neighbors_substitution_surface()core::pack::interaction_graph::SurfaceNode< V, E, G >
add_background_edge(BackgroundToFirstClassEdge< V, E, G > *edge)core::pack::interaction_graph::FirstClassNode< V, E, G >
alt_state_total_hASA_core::pack::interaction_graph::SurfaceNode< V, E, G >private
assign_state_surface(int state)core::pack::interaction_graph::SurfaceNode< V, E, G >
assign_zero_state()core::pack::interaction_graph::SurfaceNode< V, E, G >virtual
average_residue_hASA() const core::pack::interaction_graph::SurfaceNode< V, E, G >
average_residue_hASA(chemical::AA residue_type, Size num_nbs) const core::pack::interaction_graph::SurfaceNode< V, E, G >
BackgroundEdgeList typedefcore::pack::interaction_graph::FirstClassNode< V, E, G >
BackgroundEdgeListIter typedefcore::pack::interaction_graph::FirstClassNode< V, E, G >
BackgroundEdgeVector typedefcore::pack::interaction_graph::FirstClassNode< V, E, G >
BackgroundEdgeVectorIter typedefcore::pack::interaction_graph::FirstClassNode< V, E, G >
BackgroundNodeVector typedefcore::pack::interaction_graph::FirstClassNode< V, E, G >
bg_neighbor_mapcore::pack::interaction_graph::SurfaceNode< V, E, G >private
BURIED_RESIDUE_NO_HSASA_CUTOFFcore::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
calculate_amount_total_hydrophobic_ASA()core::pack::interaction_graph::SurfaceNode< V, E, G >
calculated_surface_deltaE_core::pack::interaction_graph::SurfaceNode< V, E, G >private
commit_considered_substitution_surface()core::pack::interaction_graph::SurfaceNode< V, E, G >
count_dynamic_memory() const core::pack::interaction_graph::SurfaceNode< V, E, G >virtual
count_static_memory() const core::pack::interaction_graph::SurfaceNode< V, E, G >virtual
curr_state_total_hASA_core::pack::interaction_graph::SurfaceNode< V, E, G >private
decide_procrastinate_surface_computations(Real const pd_deltaE, Real const threshold) const core::pack::interaction_graph::SurfaceNode< V, E, G >private
deltaE_for_substitution_core::pack::interaction_graph::SurfaceNode< V, E, G >private
detect_neighborship_with_node(int node_id, bool first_class) const core::pack::interaction_graph::SurfaceNode< V, E, G >
drop_background_edge(BackgroundEdgeListIter edge)core::pack::interaction_graph::FirstClassNode< V, E, G >
fc_neighbor_mapcore::pack::interaction_graph::SurfaceNode< V, E, G >private
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_alt_hASA()core::pack::interaction_graph::SurfaceNode< V, E, G >
get_alt_state_hASA_for_node_and_nbs()core::pack::interaction_graph::SurfaceNode< V, E, G >
get_bg_edge_vector_up_to_date_() const core::pack::interaction_graph::FirstClassNode< V, E, G >inlineprotected
get_curr_state_surface_energy() const core::pack::interaction_graph::SurfaceNode< V, E, G >
get_current_hASA()core::pack::interaction_graph::SurfaceNode< V, E, G >
get_edge_to_bg_node(int index) const core::pack::interaction_graph::FirstClassNode< V, E, G >inlineprotected
get_edge_to_surface_bg_node(int index) const core::pack::interaction_graph::SurfaceNode< V, E, G >inlineprotected
get_hASA_for_node_and_nbs()core::pack::interaction_graph::SurfaceNode< V, E, G >
get_incident_surface_edge(int index) const core::pack::interaction_graph::SurfaceNode< 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_rotamer(int state) const core::pack::interaction_graph::SurfaceNode< V, E, G >
get_surface_deltaE_for_neighbors_state_substitution(SurfaceNode< V, E, G > *node_considering_substitution, int changing_nodes_curr_state, int changing_nodes_alt_state)core::pack::interaction_graph::SurfaceNode< V, E, G >
get_surface_owner() const core::pack::interaction_graph::SurfaceNode< V, E, G >inlineprotected
get_surface_score_difference() const core::pack::interaction_graph::SurfaceNode< V, E, G >
getMemoryUsageInBytes() const core::pack::interaction_graph::SurfaceNode< V, E, G >virtual
hASA_energy(Real patch_area) const core::pack::interaction_graph::SurfaceNode< V, E, G >
have_prepared_for_simA_core::pack::interaction_graph::SurfaceNode< V, E, G >private
init_hASA_variables()core::pack::interaction_graph::SurfaceNode< V, E, G >
initialize_num_neighbors_counting_self() const core::pack::interaction_graph::SurfaceNode< V, E, G >
INTERACTION_RADIUScore::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
is_below_buried_residue_no_hsasa_cutoff() const core::pack::interaction_graph::SurfaceNode< V, E, G >
is_below_buried_residue_no_hsasa_cutoff(bool value)core::pack::interaction_graph::SurfaceNode< V, E, G >
is_below_buried_residue_no_hsasa_cutoff_core::pack::interaction_graph::SurfaceNode< V, E, G >private
is_surface_exposed() const core::pack::interaction_graph::SurfaceNode< V, E, G >
MAX_PATCH_SURFACE_AREAcore::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
MAX_SURFACE_ENERGYcore::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
num_neighbors_counting_self() const core::pack::interaction_graph::SurfaceNode< V, E, G >
num_neighbors_counting_self_core::pack::interaction_graph::SurfaceNode< V, E, G >mutableprivate
num_state_substitutions_considered_core::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
num_substitutions_since_surface_min_update_core::pack::interaction_graph::SurfaceNode< V, E, G >private
num_surface_comps_later_made_core::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
num_surface_comps_procrastinated_core::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
observed_sufficient_surface_E_to_predict_min_core::pack::interaction_graph::SurfaceNode< V, E, G >private
operator=(SurfaceNode< V, E, G > const &)core::pack::interaction_graph::SurfaceNode< V, E, G >private
parent typedefcore::pack::interaction_graph::SurfaceNode< V, E, G >
prepare_for_simulated_annealing()core::pack::interaction_graph::SurfaceNode< V, E, G >virtual
print() const core::pack::interaction_graph::SurfaceNode< V, E, G >virtual
print_surface_avoidance_stats()core::pack::interaction_graph::SurfaceNode< V, E, G >static
project_deltaE_for_substitution_surface(int alternate_state, core::PackerEnergy &prev_energy_for_node, float deltaE_thresh_for_avoiding_surface_calcs)core::pack::interaction_graph::SurfaceNode< V, E, G >
project_surface_deltaE()core::pack::interaction_graph::SurfaceNode< V, E, G >private
reset_alt_state_total_hASA()core::pack::interaction_graph::SurfaceNode< V, E, G >
reset_surface_avoidance_stats()core::pack::interaction_graph::SurfaceNode< V, E, G >static
rotamer_set_core::pack::interaction_graph::SurfaceNode< V, E, G >
rotamers_vector_core::pack::interaction_graph::SurfaceNode< V, E, G >
set_observed_sufficient_boolean_true()core::pack::interaction_graph::SurfaceNode< V, E, G >
set_rotamers(rotamer_set::RotamerSetCOP rotamers)core::pack::interaction_graph::SurfaceNode< V, E, G >
state_unassigned() const core::pack::interaction_graph::SurfaceNode< V, E, G >inlinevirtual
surface_energy_weight_core::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
surface_exposed(bool value)core::pack::interaction_graph::SurfaceNode< V, E, G >
surface_exposed_core::pack::interaction_graph::SurfaceNode< V, E, G >private
SURFACE_EXPOSED_CUTOFFcore::pack::interaction_graph::SurfaceNode< V, E, G >privatestatic
surface_score_min_last_100_core::pack::interaction_graph::SurfaceNode< V, E, G >private
surface_score_min_recent_core::pack::interaction_graph::SurfaceNode< V, E, G >private
SurfaceNode(G *owner, int node_index, int num_states)core::pack::interaction_graph::SurfaceNode< V, E, G >
SurfaceNode()core::pack::interaction_graph::SurfaceNode< V, E, G >private
SurfaceNode(SurfaceNode< V, E, G > const &)core::pack::interaction_graph::SurfaceNode< V, E, G >private
track_surface_E_min()core::pack::interaction_graph::SurfaceNode< V, E, G >private
update_bg_edge_vector()core::pack::interaction_graph::FirstClassNode< V, E, G >protected
verify_patch_areas_correct(int node_id, int previous_state, Real previous_state_hASA)core::pack::interaction_graph::SurfaceNode< V, E, G >
wt_residue_for_node() const core::pack::interaction_graph::SurfaceNode< V, E, G >inline
wt_seqpos_for_node() const core::pack::interaction_graph::SurfaceNode< V, E, G >inline
~FirstClassNode()core::pack::interaction_graph::FirstClassNode< V, E, G >virtual
~SurfaceNode()core::pack::interaction_graph::SurfaceNode< V, E, G >virtual