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protocols::flexpack::interaction_graph::FlexbbInteractionGraph Member List

This is the complete list of members for protocols::flexpack::interaction_graph::FlexbbInteractionGraph, including all inherited members.

add_edge(int node1, int node2)core::pack::interaction_graph::InteractionGraphBase
add_to_nodes_one_body_energy(int node_ind, utility::vector1< core::PackerEnergy > const &one_body_energies)core::pack::interaction_graph::InteractionGraphBase
add_to_nodes_one_body_energy(int node_ind, ObjexxFCL::FArray1< core::PackerEnergy > const &one_body_energies)core::pack::interaction_graph::InteractionGraphBase
add_to_nodes_one_body_energy(int node_ind, int state_id, core::PackerEnergy const one_body_energy)core::pack::interaction_graph::InteractionGraphBase
add_to_one_body_energies(ObjexxFCL::FArray1< core::PackerEnergy > &one_body_energies)core::pack::interaction_graph::InteractionGraphBase
any_vertex_state_unassigned() const core::pack::interaction_graph::InteractionGraphBase
blanket_assign_state_0()=0core::pack::interaction_graph::InteractionGraphBasepure virtual
BOTH_SC_AND_BB enum valueprotocols::flexpack::interaction_graph::FlexbbInteractionGraph
cast_flexbb_edge(EdgeBase const *edge) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
cast_flexbb_edge(EdgeBase *edge)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
commit_considered_backbone_move(ObjexxFCL::FArray1_int &rotamer_on_node)=0protocols::flexpack::interaction_graph::FlexbbInteractionGraphpure virtual
commit_considered_substitution()=0core::pack::interaction_graph::InteractionGraphBasepure virtual
COMMIT_LIMIT_BETWEEN_UPDATESprotocols::flexpack::interaction_graph::FlexbbInteractionGraphprivatestatic
consider_backbone_move(int bb_id, core::PackerEnergy &delta_energy, core::PackerEnergy &prev_flexseg_energy, bool &valid_motion, int &num_nodes_changing_state)=0protocols::flexpack::interaction_graph::FlexbbInteractionGraphpure virtual
consider_bbmove_w_state_substitution(int node_ind, int new_state, core::PackerEnergy &delta_energy, core::PackerEnergy &prev_energy_for_flexseg, bool &valid_motion, int &num_nodes_changing_state)=0protocols::flexpack::interaction_graph::FlexbbInteractionGraphpure virtual
consider_substitution(int node_ind, int new_state, core::PackerEnergy &delta_energy, core::PackerEnergy &prev_energy_for_node)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
count_connected_components_and_initialize_vertex_groups()core::pack::interaction_graph::InteractionGraphBase
count_dynamic_memory() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphvirtual
count_static_memory() const =0core::pack::interaction_graph::InteractionGraphBaseprotectedpure virtual
create_new_edge(int index1, int index2)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
create_new_node(int node_index, int num_states)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
drop_all_edges_for_node(int node)core::pack::interaction_graph::InteractionGraphBase
drop_edge(std::list< EdgeBase * >::iterator edge)core::pack::interaction_graph::InteractionGraphBaseprotected
edge_list_iterator_at_end() const core::pack::interaction_graph::InteractionGraphBase
EdgeBase typedefprotocols::flexpack::interaction_graph::FlexbbInteractionGraph
enforce_bb_contiguity_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
find_edge(int node1, int node2) const core::pack::interaction_graph::InteractionGraphBase
find_edge(int node1, int node2)core::pack::interaction_graph::InteractionGraphBase
find_flexbb_edge(int node1, int node2) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
find_flexbb_edge(int node1, int node2)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
FlexbbInteractionGraph(int num_nodes)protocols::flexpack::interaction_graph::FlexbbInteractionGraph
FlexbbInteractionGraph()protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
FlexbbInteractionGraph(FlexbbInteractionGraph const &)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
flexseg_bb_offset_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
flexseg_considering_alt_bb() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
flexseg_considering_alt_bb_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
flexseg_for_bb_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
flexseg_for_moltenres(int moltenres) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
flexseg_for_moltenres_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
flexseg_members(int flexseg) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinline
flexseg_members_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
get_accessible_states(Subsitution move_mode, utility::vector1< Size > &rotlist) const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
get_backbone_currently_assigned(int bbid) const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
get_backbone_list(utility::vector1< Size > &bblist) const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
get_bb_for_state(int node, int state) const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
get_edge() const core::pack::interaction_graph::InteractionGraphBase
get_edge_exists(int node1, int node2)core::pack::interaction_graph::InteractionGraphBase
get_edge_list_begin()core::pack::interaction_graph::InteractionGraphBaseinline
get_edge_list_begin() const core::pack::interaction_graph::InteractionGraphBaseinline
get_edge_list_end() const core::pack::interaction_graph::InteractionGraphBaseinline
get_edge_memory_usage() const =0core::pack::interaction_graph::InteractionGraphBasepure virtual
get_edge_weight(int node1, int node2) const core::pack::interaction_graph::InteractionGraphBase
get_energy_current_state_assignment()=0core::pack::interaction_graph::InteractionGraphBasepure virtual
get_energy_sum_for_vertex_group(int group_id)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
get_enforce_bb_contiguity() const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
get_flexbb_node(int index) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
get_flexbb_node(int index)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
get_flexseg_bb_offset(int flexseg_id) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinline
get_flexseg_for_bb(int bb) const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinline
get_node(int index) const core::pack::interaction_graph::InteractionGraphBaseinline
get_node_state_offset(int index) const core::pack::interaction_graph::InteractionGraphBaseinlineprotected
get_num_aa_types() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinline
get_num_edges() const core::pack::interaction_graph::InteractionGraphBaseinline
get_num_nodes() const core::pack::interaction_graph::InteractionGraphBaseinline
get_num_nodes_changing_state() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphprotected
get_num_nodes_v() const core::pack::interaction_graph::InteractionGraphBaseinlinevirtual
get_num_states_for_node(int node) const core::pack::interaction_graph::InteractionGraphBase
get_num_states_per_backbone_for_node(int node, int bb) const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
get_num_total_states() const core::pack::interaction_graph::InteractionGraphBaseinline
get_one_body_energy_for_node_state(int node, int state)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
get_vertex_member_of_energy_sum_group(int node_index, int group_id)core::pack::interaction_graph::InteractionGraphBaseinline
getTotalMemoryUsage() const core::pack::interaction_graph::InteractionGraphBasevirtual
increment_count_nodes_in_flexseg()protocols::flexpack::interaction_graph::FlexbbInteractionGraph
increment_edge_list_iterator() const core::pack::interaction_graph::InteractionGraphBase
initialize(core::pack::rotamer_set::RotamerSetsBase const &rot_sets)protocols::flexpack::interaction_graph::FlexbbInteractionGraphvirtual
InteractionGraphBase(int num_nodes)core::pack::interaction_graph::InteractionGraphBase
last_considered_backbone_sub_unresolved() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
last_considered_backbone_sub_unresolved_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
last_considered_backbone_sub_valid() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
last_considered_backbone_sub_valid_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
last_considered_fixedbb_sub_unresolved_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
last_considered_substitution_kept_backbone_fixed() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
last_considered_substitution_moved_the_backbone() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
last_considered_substitution_unresolved() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
last_sub_attempted_backbone_move_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
mine(EdgeBase const *edge) const core::pack::interaction_graph::InteractionGraphBaseinlineprotected
node_considering_alt_state() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
node_considering_alt_state_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
nodes_from_same_flexseg(int node1, int node2) const protocols::flexpack::interaction_graph::FlexbbInteractionGraph
note_bbjump_substitution()protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
note_fixedbb_substitution()protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
note_last_considered_substitution_resolved()protocols::flexpack::interaction_graph::FlexbbInteractionGraphprotected
note_vertex_reached(int node_index)core::pack::interaction_graph::InteractionGraphBase
num_aa_types_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
num_bb_alternatives_for_flexseg_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
num_commits_since_last_update_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
num_flexible_segments_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
num_nodes_changing_state_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
num_total_bb_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
output_connectivity(std::ostream &os) const core::pack::interaction_graph::InteractionGraphBase
output_dimacs(std::ostream &os) const core::pack::interaction_graph::InteractionGraphBase
PackerEnergy typedefprotocols::flexpack::interaction_graph::FlexbbInteractionGraph
parent typedefprotocols::flexpack::interaction_graph::FlexbbInteractionGraph
prepare_for_simulated_annealing()core::pack::interaction_graph::InteractionGraphBasevirtual
print() const core::pack::interaction_graph::InteractionGraphBaseinlinevirtual
print_current_state_assignment() const =0core::pack::interaction_graph::InteractionGraphBasepure virtual
print_vertex_groups()core::pack::interaction_graph::InteractionGraphBase
print_vertices() const core::pack::interaction_graph::InteractionGraphBase
reset_edge_list_iterator_for_node(int node_index) const core::pack::interaction_graph::InteractionGraphBase
reset_node_in_moving_flexseg_count()protocols::flexpack::interaction_graph::FlexbbInteractionGraphprotected
SC_ONLY enum valueprotocols::flexpack::interaction_graph::FlexbbInteractionGraph
set_aatypes_for_node(int node_ind, utility::vector1< int > const &aatypes)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
set_closest_states_on_other_bbs(int node_index, ObjexxFCL::FArray2D_int const &)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
set_edge_weight(int node1, int node2, Real edge_weight)core::pack::interaction_graph::InteractionGraphBase
set_enforce_bb_contiguity(bool)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprotected
set_errorfull_deltaE_threshold(core::PackerEnergy deltaE)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
set_flexseg_considering_alt_bb(int setting)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
set_last_considered_backbone_sub_valid(bool setting)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
set_network_state(ObjexxFCL::FArray1_int &node_states)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
set_node_considering_alt_state(int setting)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
set_num_bb_for_node(int node, int numbb)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
set_num_flexsegs(int num_flexsegs)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
set_num_states_for_node(int node, int num_states)core::pack::interaction_graph::InteractionGraphBase
set_num_states_per_backbone_for_node(int node, utility::vector1< int > const &states_per_bb)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
set_number_of_energy_sum_vertex_groups(int num_groups)core::pack::interaction_graph::InteractionGraphBase
set_state_for_node(int node_ind, int new_state)=0core::pack::interaction_graph::InteractionGraphBasepure virtual
set_total_energy_alternate_state_assignment(PackerEnergy setting)protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
set_total_energy_current_state_assignment(PackerEnergy setting)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprotected
set_total_num_backbones(int num_backbones)protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
set_vertex_member_of_group(int vertex, int group)core::pack::interaction_graph::InteractionGraphBase
Subsitution enum nameprotocols::flexpack::interaction_graph::FlexbbInteractionGraph
total_energy_alternate_state_assignment() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
total_energy_alternate_state_assignment_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
total_energy_current_state_assignment() const protocols::flexpack::interaction_graph::FlexbbInteractionGraphinlineprotected
total_energy_current_state_assignment_protocols::flexpack::interaction_graph::FlexbbInteractionGraphprivate
update_internal_energy_totals()protocols::flexpack::interaction_graph::FlexbbInteractionGraphprotectedvirtual
update_one_body_energies(ObjexxFCL::FArray1< core::PackerEnergy > &old_energy1b, ObjexxFCL::FArray1< core::PackerEnergy > &new_energy1b)core::pack::interaction_graph::InteractionGraphBase
vertex_already_reached(int node_index)core::pack::interaction_graph::InteractionGraphBase
zero_one_body_energies_for_node(int node)core::pack::interaction_graph::InteractionGraphBase
~FlexbbInteractionGraph()protocols::flexpack::interaction_graph::FlexbbInteractionGraphvirtual
~InteractionGraphBase()core::pack::interaction_graph::InteractionGraphBasevirtual