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

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

add_background_edge(int first_class_node_index, int bg_node_index)core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >protected
AdditionalBackgroundNodesInteractionGraph(int num_nodes)core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >
BackgroundEdgeList typedefcore::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >
BackgroundEdgeListConstIter typedefcore::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >
BackgroundEdgeListIter typedefcore::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >
BackgroundNodeVector typedefcore::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >
bg_node_2_resid(int node_index)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
bgenumeration_2_resid_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
blanket_assign_state_0()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
blanket_reset_alt_state_total_hASAs()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
BURIED_RESIDUE_NO_HSASA_CUTOFFcore::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >privatestatic
commit_considered_substitution()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
COMMIT_LIMIT_BETWEEN_UPDATEScore::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >privatestatic
consider_substitution(int node_ind, int new_state, core::PackerEnergy &delta_energy, core::PackerEnergy &prev_energy_for_node)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
count_dynamic_memory() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
count_static_memory() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
create_background_edge(int fc_node_index, int bg_node_index)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >protectedvirtual
create_background_node(int node_index)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >protectedvirtual
create_new_edge(int index1, int index2)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >protectedvirtual
create_new_node(int node_index, int num_states)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >protectedvirtual
deltaE_threshold_for_avoiding_surface_calcs_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
detect_background_residue_and_first_class_residue_neighbors()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
drop_background_edge(BackgroundEdgeListIter iter)core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >protected
find_background_edge(int first_class_node_index, int bg_node_index) const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >protected
get_alt_state_hASA_for_node_and_nbs(int index)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
get_background_node(int index) const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >inlineprotected
get_bg_edge_list_begin() const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >inlineprotected
get_bg_edge_list_end() const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >inlineprotected
get_edge_memory_usage() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
get_energy_current_state_assignment()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
get_hASA_for_node_and_nbs(int index)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
get_network_state() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
get_num_background_nodes() const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >inline
get_num_bg_edges() const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >inlineprotected
get_surface_bg_node(int index) const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inlineprotected
get_surface_node(int index) const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inlineprotected
getTotalMemoryUsage() const core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >virtual
initialize(rotamer_set::RotamerSetsBase const &rot_sets)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
node_considering_alt_state_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
num_commits_since_last_update_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
num_residues_assigned_as_background_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
num_total_residues_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
operator=(SurfaceInteractionGraph< V, E, G > const &)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
packer_task() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inline
packer_task_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
parent typedefcore::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
pose() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inline
pose_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
prepare_for_simulated_annealing()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
prepared_for_simulated_annealing_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
print() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
print_internal_energies_for_current_state_assignment()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
resid_2_bgenumeration_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
rotamer_sets() const core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inline
rotamer_sets_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
set_errorfull_deltaE_threshold(Real deltaE)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
set_network_state(FArray1_int &node_states)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
set_num_background_nodes(int num_bg_nodes)core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >protected
set_num_background_residues(int num_background_residues)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_num_residues_in_protein(int num_res)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_observed_sufficient_boolean_true()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_packer_task(task::PackerTask const &task)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_pose(pose::Pose const &pose)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_residue_as_background_residue(int residue)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_rotamer_sets(rotamer_set::RotamerSets const &rotsets)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
set_state_for_node(int node_ind, int new_state)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual
set_surface_score_weight(Real weight)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inline
SURFACE_EXPOSED_CUTOFFcore::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >privatestatic
surface_score_weight()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >inline
surface_score_weight_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
SurfaceInteractionGraph(int num_nodes)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >
SurfaceInteractionGraph()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
SurfaceInteractionGraph(SurfaceInteractionGraph< V, E, G > const &)core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
total_energy_alternate_state_assignment_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
total_energy_current_state_assignment_core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >private
update_internal_energy_totals_surface()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >protected
~AdditionalBackgroundNodesInteractionGraph()core::pack::interaction_graph::AdditionalBackgroundNodesInteractionGraph< V, E, G >virtual
~SurfaceInteractionGraph()core::pack::interaction_graph::SurfaceInteractionGraph< V, E, G >virtual